National Library of Energy BETA

Sample records for nucleic acids research

  1. Nucleic acid detection compositions

    DOE Patents [OSTI]

    Prudent, James R.; Hall, Jeff G.; Lyamichev, Victor I.; Brow, Mary Ann; Dahlberg, James L.

    2008-08-05

    The present invention relates to means for the detection and characterization of nucleic acid sequences, as well as variations in nucleic acid sequences. The present invention also relates to methods for forming a nucleic acid cleavage structure on a target sequence and cleaving the nucleic acid cleavage structure in a site-specific manner. The structure-specific nuclease activity of a variety of enzymes is used to cleave the target-dependent cleavage structure, thereby indicating the presence of specific nucleic acid sequences or specific variations thereof.

  2. Cleavage of nucleic acids

    DOE Patents [OSTI]

    Prudent, James R.; Hall, Jeff G.; Lyamichev, Victor I.; Brow, Mary Ann D.; Dahlberg, James E.

    2000-01-01

    The present invention relates to means for the detection and characterization of nucleic acid sequences, as well as variations in nucleic acid sequences. The present invention also relates to methods for forming a nucleic acid cleavage structure on a target sequence and cleaving the nucleic acid cleavage structure in a site-specific manner. The structure-specific nuclease activity of a variety of enzymes is used to cleave the target-dependent cleavage structure, thereby indicating the presence of specific nucleic acid sequences or specific variations thereof.

  3. Cleavage of nucleic acids

    DOE Patents [OSTI]

    Prudent, James R.; Hall, Jeff G.; Lyamichev, Victor I.; Brow; Mary Ann D.; Dahlberg, James E.

    2010-11-09

    The present invention relates to means for the detection and characterization of nucleic acid sequences, as well as variations in nucleic acid sequences. The present invention also relates to methods for forming a nucleic acid cleavage structure on a target sequence and cleaving the nucleic acid cleavage structure in a site-specific manner. The structure-specific nuclease activity of a variety of enzymes is used to cleave the target-dependent cleavage structure, thereby indicating the presence of specific nucleic acid sequences or specific variations thereof.

  4. Nucleic acid detection assays

    DOE Patents [OSTI]

    Prudent, James R.; Hall, Jeff G.; Lyamichev, Victor I.; Brow, Mary Ann; Dahlberg, James E.

    2005-04-05

    The present invention relates to means for the detection and characterization of nucleic acid sequences, as well as variations in nucleic acid sequences. The present invention also relates to methods for forming a nucleic acid cleavage structure on a target sequence and cleaving the nucleic acid cleavage structure in a site-specific manner. The structure-specific nuclease activity of a variety of enzymes is used to cleave the target-dependent cleavage structure, thereby indicating the presence of specific nucleic acid sequences or specific variations thereof.

  5. Cleavage of nucleic acids

    DOE Patents [OSTI]

    Prudent, James R.; Hall, Jeff G.; Lyamichev, Victor L.; Brow, Mary Ann D.; Dahlberg, James E.

    2007-12-11

    The present invention relates to means for the detection and characterization of nucleic acid sequences, as well as variations in nucleic acid sequences. The present invention also relates to methods for forming a nucleic acid cleavage structure on a target sequence and cleaving the nucleic acid cleavage structure in a site-specific manner. The structure-specific nuclease activity of a variety of enzymes is used to cleave the target-dependent cleavage structure, thereby indicating the presence of specific nucleic acid sequences or specific variations thereof.

  6. Nucleic acid detection kits

    DOE Patents [OSTI]

    Hall, Jeff G.; Lyamichev, Victor I.; Mast, Andrea L.; Brow, Mary Ann; Kwiatkowski, Robert W.; Vavra, Stephanie H.

    2005-03-29

    The present invention relates to means for the detection and characterization of nucleic acid sequences, as well as variations in nucleic acid sequences. The present invention also relates to methods for forming a nucleic acid cleavage structure on a target sequence and cleaving the nucleic acid cleavage structure in a site-specific manner. The structure-specific nuclease activity of a variety of enzymes is used to cleave the target-dependent cleavage structure, thereby indicating the presence of specific nucleic acid sequences or specific variations thereof. The present invention further relates to methods and devices for the separation of nucleic acid molecules based on charge. The present invention also provides methods for the detection of non-target cleavage products via the formation of a complete and activated protein binding region. The invention further provides sensitive and specific methods for the detection of nucleic acid from various viruses in a sample.

  7. Method for isolating nucleic acids

    DOE Patents [OSTI]

    Hurt, Jr., Richard Ashley; Elias, Dwayne A.

    2015-09-29

    The current disclosure provides methods and kits for isolating nucleic acid from an environmental sample. The current methods and compositions further provide methods for isolating nucleic acids by reducing adsorption of nucleic acids by charged ions and particles within an environmental sample. The methods of the current disclosure provide methods for isolating nucleic acids by releasing adsorbed nucleic acids from charged particles during the nucleic acid isolation process. The current disclosure facilitates the isolation of nucleic acids of sufficient quality and quantity to enable one of ordinary skill in the art to utilize or analyze the isolated nucleic acids for a wide variety of applications including, sequencing or species population analysis.

  8. Composition for nucleic acid sequencing

    DOE Patents [OSTI]

    Korlach, Jonas; Webb, Watt W.; Levene, Michael; Turner, Stephen; Craighead, Harold G.; Foquet, Mathieu

    2008-08-26

    The present invention is directed to a method of sequencing a target nucleic acid molecule having a plurality of bases. In its principle, the temporal order of base additions during the polymerization reaction is measured on a molecule of nucleic acid, i.e. the activity of a nucleic acid polymerizing enzyme on the template nucleic acid molecule to be sequenced is followed in real time. The sequence is deduced by identifying which base is being incorporated into the growing complementary strand of the target nucleic acid by the catalytic activity of the nucleic acid polymerizing enzyme at each step in the sequence of base additions. A polymerase on the target nucleic acid molecule complex is provided in a position suitable to move along the target nucleic acid molecule and extend the oligonucleotide primer at an active site. A plurality of labelled types of nucleotide analogs are provided proximate to the active site, with each distinguishable type of nucleotide analog being complementary to a different nucleotide in the target nucleic acid sequence. The growing nucleic acid strand is extended by using the polymerase to add a nucleotide analog to the nucleic acid strand at the active site, where the nucleotide analog being added is complementary to the nucleotide of the target nucleic acid at the active site. The nucleotide analog added to the oligonucleotide primer as a result of the polymerizing step is identified. The steps of providing labelled nucleotide analogs, polymerizing the growing nucleic acid strand, and identifying the added nucleotide analog are repeated so that the nucleic acid strand is further extended and the sequence of the target nucleic acid is determined.

  9. Invasive cleavage of nucleic acids

    DOE Patents [OSTI]

    Prudent, James R.; Hall, Jeff G.; Lyamichev, Victor I.; Brow, Mary Ann D.; Dahlberg, James E.

    2002-01-01

    The present invention relates to means for the detection and characterization of nucleic acid sequences, as well as variations in nucleic acid sequences. The present invention also relates to methods for forming a nucleic acid cleavage structure on a target sequence and cleaving the nucleic acid cleavage structure in a site-specific manner. The structure-specific nuclease activity of a variety of enzymes is used to cleave the target-dependent cleavage structure, thereby indicating the presence of specific nucleic acid sequences or specific variations thereof.

  10. Invasive cleavage of nucleic acids

    DOE Patents [OSTI]

    Prudent, James R.; Hall, Jeff G.; Lyamichev, Victor I.; Brow, Mary Ann D.; Dahlberg, James E.

    1999-01-01

    The present invention relates to means for the detection and characterization of nucleic acid sequences, as well as variations in nucleic acid sequences. The present invention also relates to methods for forming a nucleic acid cleavage structure on a target sequence and cleaving the nucleic acid cleavage structure in a site-specific manner. The structure-specific nuclease activity of a variety of enzymes is used to cleave the target-dependent cleavage structure, thereby indicating the presence of specific nucleic acid sequences or specific variations thereof.

  11. Functional nucleic acid probes and uses thereof

    DOE Patents [OSTI]

    Nilsen-Hamilton, Marit

    2006-10-03

    The present invention provides functional nucleic acid probes, and methods of using functional nucleic acid probes, for binding a target to carry out a desired function. The probes have at least one functional nucleic acid, at least one regulating nucleic acid, and at least one attenuator. The functional nucleic acid is maintained in an inactive state by the attenuator and activated by the regulating nucleic acid only in the presence of a regulating nucleic acid target. In its activated state the functional nucleic acid can bind to its target to carry out a desired function, such as generating a signal, cleaving a nucleic acid, or catalyzing a reaction.

  12. Nucleic acid detection methods

    DOE Patents [OSTI]

    Smith, C.L.; Yaar, R.; Szafranski, P.; Cantor, C.R.

    1998-05-19

    The invention relates to methods for rapidly determining the sequence and/or length a target sequence. The target sequence may be a series of known or unknown repeat sequences which are hybridized to an array of probes. The hybridized array is digested with a single-strand nuclease and free 3{prime}-hydroxyl groups extended with a nucleic acid polymerase. Nuclease cleaved heteroduplexes can be easily distinguish from nuclease uncleaved heteroduplexes by differential labeling. Probes and target can be differentially labeled with detectable labels. Matched target can be detected by cleaving resulting loops from the hybridized target and creating free 3-hydroxyl groups. These groups are recognized and extended by polymerases added into the reaction system which also adds or releases one label into solution. Analysis of the resulting products using either solid phase or solution. These methods can be used to detect characteristic nucleic acid sequences, to determine target sequence and to screen for genetic defects and disorders. Assays can be conducted on solid surfaces allowing for multiple reactions to be conducted in parallel and, if desired, automated. 18 figs.

  13. Nucleic Acid Detection Methods

    DOE Patents [OSTI]

    Smith, Cassandra L.; Yaar, Ron; Szafranski, Przemyslaw; Cantor, Charles R.

    1998-05-19

    The invention relates to methods for rapidly determining the sequence and/or length a target sequence. The target sequence may be a series of known or unknown repeat sequences which are hybridized to an array of probes. The hybridized array is digested with a single-strand nuclease and free 3'-hydroxyl groups extended with a nucleic acid polymerase. Nuclease cleaved heteroduplexes can be easily distinguish from nuclease uncleaved heteroduplexes by differential labeling. Probes and target can be differentially labeled with detectable labels. Matched target can be detected by cleaving resulting loops from the hybridized target and creating free 3-hydroxyl groups. These groups are recognized and extended by polymerases added into the reaction system which also adds or releases one label into solution. Analysis of the resulting products using either solid phase or solution. These methods can be used to detect characteristic nucleic acid sequences, to determine target sequence and to screen for genetic defects and disorders. Assays can be conducted on solid surfaces allowing for multiple reactions to be conducted in parallel and, if desired, automated.

  14. Nucleic acid arrays and methods of synthesis

    DOE Patents [OSTI]

    Sabanayagam, Chandran R.; Sano, Takeshi; Misasi, John; Hatch, Anson; Cantor, Charles

    2001-01-01

    The present invention generally relates to high density nucleic acid arrays and methods of synthesizing nucleic acid sequences on a solid surface. Specifically, the present invention contemplates the use of stabilized nucleic acid primer sequences immobilized on solid surfaces, and circular nucleic acid sequence templates combined with the use of isothermal rolling circle amplification to thereby increase nucleic acid sequence concentrations in a sample or on an array of nucleic acid sequences.

  15. Identifying a base in a nucleic acid

    DOE Patents [OSTI]

    Fodor, Stephen P. A.; Lipshutz, Robert J.; Huang, Xiaohua

    2005-02-08

    Devices and techniques for hybridization of nucleic acids and for determining the sequence of nucleic acids. Arrays of nucleic acids are formed by techniques, preferably high resolution, light-directed techniques. Positions of hybridization of a target nucleic acid are determined by, e.g., epifluorescence microscopy. Devices and techniques are proposed to determine the sequence of a target nucleic acid more efficiently and more quickly through such synthesis and detection techniques.

  16. High speed nucleic acid sequencing

    DOE Patents [OSTI]

    Korlach, Jonas; Webb, Watt W.; Levene, Michael; Turner, Stephen; Craighead, Harold G.; Foquet, Mathieu

    2011-05-17

    The present invention is directed to a method of sequencing a target nucleic acid molecule having a plurality of bases. In its principle, the temporal order of base additions during the polymerization reaction is measured on a molecule of nucleic acid. Each type of labeled nucleotide comprises an acceptor fluorophore attached to a phosphate portion of the nucleotide such that the fluorophore is removed upon incorporation into a growing strand. Fluorescent signal is emitted via fluorescent resonance energy transfer between the donor fluorophore and the acceptor fluorophore as each nucleotide is incorporated into the growing strand. The sequence is deduced by identifying which base is being incorporated into the growing strand.

  17. Replica amplification of nucleic acid arrays

    DOE Patents [OSTI]

    Church, George M.

    2002-01-01

    A method of producing a plurality of a nucleic acid array, comprising, in order, the steps of amplifying in situ nucleic acid molecules of a first randomly-patterned, immobilized nucleic acid array comprising a heterogeneous pool of nucleic acid molecules affixed to a support, transferring at least a subset of the nucleic acid molecules produced by such amplifying to a second support, and affixing the subset so transferred to the second support to form a second randomly-patterned, immobilized nucleic acid array, wherein the nucleic acid molecules of the second array occupy positions that correspond to those of the nucleic acid molecules from which they were amplified on the first array, so that the first array serves as a template to produce a plurality, is disclosed.

  18. Method for sequencing nucleic acid molecules

    DOE Patents [OSTI]

    Korlach, Jonas; Webb, Watt W.; Levene, Michael; Turner, Stephen; Craighead, Harold G.; Foquet, Mathieu

    2006-06-06

    The present invention is directed to a method of sequencing a target nucleic acid molecule having a plurality of bases. In its principle, the temporal order of base additions during the polymerization reaction is measured on a molecule of nucleic acid, i.e. the activity of a nucleic acid polymerizing enzyme on the template nucleic acid molecule to be sequenced is followed in real time. The sequence is deduced by identifying which base is being incorporated into the growing complementary strand of the target nucleic acid by the catalytic activity of the nucleic acid polymerizing enzyme at each step in the sequence of base additions. A polymerase on the target nucleic acid molecule complex is provided in a position suitable to move along the target nucleic acid molecule and extend the oligonucleotide primer at an active site. A plurality of labelled types of nucleotide analogs are provided proximate to the active site, with each distinguishable type of nucleotide analog being complementary to a different nucleotide in the target nucleic acid sequence. The growing nucleic acid strand is extended by using the polymerase to add a nucleotide analog to the nucleic acid strand at the active site, where the nucleotide analog being added is complementary to the nucleotide of the target nucleic acid at the active site. The nucleotide analog added to the oligonucleotide primer as a result of the polymerizing step is identified. The steps of providing labelled nucleotide analogs, polymerizing the growing nucleic acid strand, and identifying the added nucleotide analog are repeated so that the nucleic acid strand is further extended and the sequence of the target nucleic acid is determined.

  19. Method for sequencing nucleic acid molecules

    DOE Patents [OSTI]

    Korlach, Jonas; Webb, Watt W.; Levene, Michael; Turner, Stephen; Craighead, Harold G.; Foquet, Mathieu

    2006-05-30

    The present invention is directed to a method of sequencing a target nucleic acid molecule having a plurality of bases. In its principle, the temporal order of base additions during the polymerization reaction is measured on a molecule of nucleic acid, i.e. the activity of a nucleic acid polymerizing enzyme on the template nucleic acid molecule to be sequenced is followed in real time. The sequence is deduced by identifying which base is being incorporated into the growing complementary strand of the target nucleic acid by the catalytic activity of the nucleic acid polymerizing enzyme at each step in the sequence of base additions. A polymerase on the target nucleic acid molecule complex is provided in a position suitable to move along the target nucleic acid molecule and extend the oligonucleotide primer at an active site. A plurality of labelled types of nucleotide analogs are provided proximate to the active site, with each distinguishable type of nucleotide analog being complementary to a different nucleotide in the target nucleic acid sequence. The growing nucleic acid strand is extended by using the polymerase to add a nucleotide analog to the nucleic acid strand at the active site, where the nucleotide analog being added is complementary to the nucleotide of the target nucleic acid at the active site. The nucleotide analog added to the oligonucleotide primer as a result of the polymerizing step is identified. The steps of providing labelled nucleotide analogs, polymerizing the growing nucleic acid strand, and identifying the added nucleotide analog are repeated so that the nucleic acid strand is further extended and the sequence of the target nucleic acid is determined.

  20. Self-assembling multimeric nucleic acid constructs

    DOE Patents [OSTI]

    Cantor, C.R.; Niemeyer, C.M.; Smith, C.L.; Sano, Takeshi; Hnatowich, D.J.; Rusckowski, M.

    1996-10-01

    The invention is directed to constructs and compositions containing multimeric forms of nucleic acid. Multimeric nucleic acids comprise single-stranded nucleic acids attached via biotin to streptavidin and bound with a functional group. These constructs can be utilized in vivo to treat or identify diseased tissue or cells. Repeated administrations of multimeric nucleic acid compositions produce a rapid and specific amplification of nucleic acid constructs and their attached functional groups. For treatment purposes, functional groups may be toxins, radioisotopes, genes or enzymes. Diagnostically, labeled multimeric constructs may be used to identify specific targets in vivo or in vitro. Multimeric nucleic acids may also be used in nanotechnology and to create self-assembling polymeric aggregates such as membranes of defined porosity, microcircuits and many other products. 5 figs.

  1. Self-assembling multimeric nucleic acid constructs

    DOE Patents [OSTI]

    Cantor, Charles R.; Niemeyer, Christof M.; Smith, Cassandra L.; Sano, Takeshi; Hnatowich, Donald J.; Rusckowski, Mary

    1999-10-12

    The invention is directed to constructs and compositions containing multimeric forms of nucleic acid. Multimeric nucleic acids comprise single-stranded nucleic acids attached via biotin to streptavidin and bound with a functional group. These constructs can be utilized in vivo to treat or identify diseased tissue or cells. Repeated administrations of multimeric nucleic acid compositions produce a rapid and specific amplification of nucleic acid constructs and their attached functional groups. For treatment purposes, functional groups may be toxins, radioisotopes, genes or enzymes. Diagnostically, labeled multimeric constructs may be used to identify specific targets in vivo or in vitro. Multimeric nucleic acids may also be used in nanotechnology and to create self-assembling polymeric aggregates such as membranes of defined porosity, microcircuits and many other products.

  2. Self-assembling multimeric nucleic acid constructs

    DOE Patents [OSTI]

    Cantor, Charles R.; Niemeyer, Christof M.; Smith, Cassandra L.; Sano, Takeshi; Hnatowich, Donald J.; Rusckowski, Mary

    1996-01-01

    The invention is directed to constructs and compositions containing multimeric forms of nucleic acid. Multimeric nucleic acids comprise single-stranded nucleic acids attached via biotin to streptavidin and bound with a functional group. These constructs can be utilized in vivo to treat or identify diseased tissue or cells. Repeated administrations of multimeric nucleic acid compositions produce a rapid and specific amplification of nucleic acid constructs and their attached functional groups. For treatment purposes, functional groups may be toxins, radioisotopes, genes or enzymes. Diagnostically, labeled multimeric constructs may be used to identify specific targets in vivo or in vitro. Multimeric nucleic acids may also be used in nanotechnology and to create self-assembling polymeric aggregates such as membranes of defined porosity, microcircuits and many other products.

  3. Double stranded nucleic acid biochips

    DOE Patents [OSTI]

    Chernov, Boris; Golova, Julia

    2006-05-23

    This invention describes a new method of constructing double-stranded DNA (dsDNA) microarrays based on the use of pre-synthesized or natural DNA duplexes without a stem-loop structure. The complementary oligonucleotide chains are bonded together by a novel connector that includes a linker for immobilization on a matrix. A non-enzymatic method for synthesizing double-stranded nucleic acids with this novel connector enables the construction of inexpensive and robust dsDNA/dsRNA microarrays. DNA-DNA and DNA-protein interactions are investigated using the microarrays.

  4. Chip-based sequencing nucleic acids

    DOE Patents [OSTI]

    Beer, Neil Reginald

    2014-08-26

    A system for fast DNA sequencing by amplification of genetic material within microreactors, denaturing, demulsifying, and then sequencing the material, while retaining it in a PCR/sequencing zone by a magnetic field. One embodiment includes sequencing nucleic acids on a microchip that includes a microchannel flow channel in the microchip. The nucleic acids are isolated and hybridized to magnetic nanoparticles or to magnetic polystyrene-coated beads. Microreactor droplets are formed in the microchannel flow channel. The microreactor droplets containing the nucleic acids and the magnetic nanoparticles are retained in a magnetic trap in the microchannel flow channel and sequenced.

  5. Methods for analyzing nucleic acid sequences

    DOE Patents [OSTI]

    Korlach, Jonas; Webb, Watt W.; Levene, Michael; Turner, Stephen; Craighead, Harold G.; Foquet, Mathieu

    2011-05-17

    The present invention is directed to a method of sequencing a target nucleic acid. The method provides a complex comprising a polymerase enzyme, a target nucleic acid molecule, and a primer, wherein the complex is immobilized on a support Fluorescent label is attached to a terminal phosphate group of the nucleotide or nucleotide analog. The growing nucleic acid strand is extended by using the polymerase to add a nucleotide analog to the nucleic acid strand. The nucleotide analog added to the oligonucleotide primer as a result of the polymerizing step is identified. The time duration of the signal from labeled nucleotides or nucleotide analogs that become incorporated is distinguished from freely diffusing labels by a longer retention in the observation volume for the nucleotides or nucleotide analogs that become incorporated than for the freely diffusing labels.

  6. Replica amplification of nucleic acid arrays

    DOE Patents [OSTI]

    Church, George M.; Mitra, Robi D.

    2010-08-31

    Disclosed are improved methods of making and using immobilized arrays of nucleic acids, particularly methods for producing replicas of such arrays. Included are methods for producing high density arrays of nucleic acids and replicas of such arrays, as well as methods for preserving the resolution of arrays through rounds of replication. Also included are methods which take advantage of the availability of replicas of arrays for increased sensitivity in detection of sequences on arrays. Improved methods of sequencing nucleic acids immobilized on arrays utilizing single copies of arrays and methods taking further advantage of the availability of replicas of arrays are disclosed. The improvements lead to higher fidelity and longer read lengths of sequences immobilized on arrays. Methods are also disclosed which improve the efficiency of multiplex PCR using arrays of immobilized nucleic acids.

  7. Amplification of trace amounts of nucleic acids

    DOE Patents [OSTI]

    Church, George M.; Zhang, Kun

    2008-06-17

    Methods of reducing background during amplification of small amounts of nucleic acids employ careful analysis of sources of low level contamination. Ultraviolet light can be used to reduce nucleic acid contaminants in reagents and equipment. "Primer-dimer" background can be reduced by judicious design of primers. We have shown clean signal-to-noise with as little as starting material as one single human cell (.about.6 picogram), E. coli cell (.about.5 femtogram) or Prochlorococcus cell (.about.3 femtogram).

  8. Method of Identifying a Base in a Nucleic Acid

    DOE Patents [OSTI]

    Fodor, Stephen P. A.; Lipshutz, Robert J.; Huang, Xiaohua

    1999-01-01

    Devices and techniques for hybridization of nucleic acids and for determining the sequence of nucleic acids. Arrays of nucleic acids are formed by techniques, preferably high resolution, light-directed techniques. Positions of hybridization of a target nucleic acid are determined by, e.g., epifluorescence microscopy. Devices and techniques are proposed to determine the sequence of a target nucleic acid more efficiently and more quickly through such synthesis and detection techniques.

  9. Hybridization and sequencing of nucleic acids using base pair mismatches

    DOE Patents [OSTI]

    Fodor, Stephen P. A.; Lipshutz, Robert J.; Huang, Xiaohua

    2001-01-01

    Devices and techniques for hybridization of nucleic acids and for determining the sequence of nucleic acids. Arrays of nucleic acids are formed by techniques, preferably high resolution, light-directed techniques. Positions of hybridization of a target nucleic acid are determined by, e.g., epifluorescence microscopy. Devices and techniques are proposed to determine the sequence of a target nucleic acid more efficiently and more quickly through such synthesis and detection techniques.

  10. Probe kit for identifying a base in a nucleic acid

    DOE Patents [OSTI]

    Fodor, Stephen P. A.; Lipshutz, Robert J.; Huang, Xiaohua

    2001-01-01

    Devices and techniques for hybridization of nucleic acids and for determining the sequence of nucleic acids. Arrays of nucleic acids are formed by techniques, preferably high resolution, light-directed techniques. Positions of hybridization of a target nucleic acid are determined by, e.g., epifluorescence microscopy. Devices and techniques are proposed to determine the sequence of a target nucleic acid more efficiently and more quickly through such synthesis and detection techniques.

  11. Detection of nucleic acid sequences by invader-directed cleavage

    DOE Patents [OSTI]

    Brow, Mary Ann D.; Hall, Jeff Steven Grotelueschen; Lyamichev, Victor; Olive, David Michael; Prudent, James Robert

    1999-01-01

    The present invention relates to means for the detection and characterization of nucleic acid sequences, as well as variations in nucleic acid sequences. The present invention also relates to methods for forming a nucleic acid cleavage structure on a target sequence and cleaving the nucleic acid cleavage structure in a site-specific manner. The 5' nuclease activity of a variety of enzymes is used to cleave the target-dependent cleavage structure, thereby indicating the presence of specific nucleic acid sequences or specific variations thereof. The present invention further relates to methods and devices for the separation of nucleic acid molecules based by charge.

  12. Nucleic acid based fluorescent sensor for copper detection

    DOE Patents [OSTI]

    Lu, Yi; Liu, Juewen

    2013-04-02

    A nucleic acid enzyme responsive to copper, comprising an oligonucleotide comprising a nucleotide sequence of SEQ ID NO:1, wherein the nucleic acid enzyme is not self-cleaving.

  13. Method for identifying and quantifying nucleic acid sequence aberrations

    DOE Patents [OSTI]

    Lucas, Joe N. (San Ramon, CA); Straume, Tore (Tracy, CA); Bogen, Kenneth T. (Walnut Creek, CA)

    1998-01-01

    A method for detecting nucleic acid sequence aberrations by detecting nucleic acid sequences having both a first and a second nucleic acid sequence type, the presence of the first and second sequence type on the same nucleic acid sequence indicating the presence of a nucleic acid sequence aberration. The method uses a first hybridization probe which includes a nucleic acid sequence that is complementary to a first sequence type and a first complexing agent capable of attaching to a second complexing agent and a second hybridization probe which includes a nucleic acid sequence that selectively hybridizes to the second nucleic acid sequence type over the first sequence type and includes a detectable marker for detecting the second hybridization probe.

  14. Nucleic acid-coupled colorimetric analyte detectors

    DOE Patents [OSTI]

    Charych, Deborah H.; Jonas, Ulrich

    2001-01-01

    The present invention relates to methods and compositions for the direct detection of analytes and membrane conformational changes through the detection of color changes in biopolymeric materials. In particular, the present invention provide for the direct colorimetric detection of analytes using nucleic acid ligands at surfaces of polydiacetylene liposomes and related molecular layer systems.

  15. Quantification of false positive reduction in nucleic acid purificatio...

    Office of Scientific and Technical Information (OSTI)

    Language: English Subject: 59 BASIC BIOLOGICAL SCIENCES; DNA; ELECTRODYNAMICS; FEVER; GENETICS; HYBRIDIZATION; NUCLEIC ACIDS; OLIGONUCLEOTIDES; PURIFICATION; TARGETS; TESTING ...

  16. Method for nucleic acid isolation using supercritical fluids

    DOE Patents [OSTI]

    Nivens, David E.; Applegate, Bruce M.

    1999-01-01

    A method for detecting the presence of a microorganism in an environmental sample involves contacting the sample with a supercritical fluid to isolate nucleic acid from the microorganism, then detecting the presence of a particular sequence within the isolated nucleic acid. The nucleic acid may optionally be subjected to further purification.

  17. Method for nucleic acid isolation using supercritical fluids

    DOE Patents [OSTI]

    Nivens, D.E.; Applegate, B.M.

    1999-07-13

    A method is disclosed for detecting the presence of a microorganism in an environmental sample involves contacting the sample with a supercritical fluid to isolate nucleic acid from the microorganism, then detecting the presence of a particular sequence within the isolated nucleic acid. The nucleic acid may optionally be subjected to further purification. 4 figs.

  18. Nucleic acid analysis using terminal-phosphate-labeled nucleotides

    DOE Patents [OSTI]

    Korlach, Jonas; Webb, Watt W.; Levene, Michael; Turner, Stephen; Craighead, Harold G.; Foquet, Mathieu

    2008-04-22

    The present invention is directed to a method of sequencing a target nucleic acid molecule having a plurality of bases. In its principle, the temporal order of base additions during the polymerization reaction is measured on a molecule of nucleic acid, i.e. the activity of a nucleic acid polymerizing enzyme on the template nucleic acid molecule to be sequenced is followed in real time. The sequence is deduced by identifying which base is being incorporated into the growing complementary strand of the target nucleic acid by the catalytic activity of the nucleic acid polymerizing enzyme at each step in the sequence of base additions. A polymerase on the target nucleic acid molecule complex is provided in a position suitable to move along the target nucleic acid molecule and extend the oligonucleotide primer at an active site. A plurality of labelled types of nucleotide analogs are provided proximate to the active site, with each distinguishable type of nucleotide analog being complementary to a different nucleotide in the target nucleic acid sequence. The growing nucleic acid strand is extended by using the polymerase to add a nucleotide analog to the nucleic acid strand at the active site, where the nucleotide analog being added is complementary to the nucleotide of the target nucleic acid at the active site. The nucleotide analog added to the oligonucleotide primer as a result of the polymerizing step is identified. The steps of providing labelled nucleotide analogs, polymerizing the growing nucleic acid strand, and identifying the added nucleotide analog are repeated so that the nucleic acid strand is further extended and the sequence of the target nucleic acid is determined.

  19. Detection of nucleic acids by multiple sequential invasive cleavages 02

    DOE Patents [OSTI]

    Hall, Jeff G. (Madison, WI); Lyamichev, Victor I. (Madison, WI); Mast, Andrea L. (Madison, WI); Brow, Mary Ann D. (Madison, WI)

    2002-01-01

    The present invention relates to means for the detection and characterization of nucleic acid sequences, as well as variations in nucleic acid sequences. The present invention also relates to methods for forming a nucleic acid cleavage structure on a target sequence and cleaving the nucleic acid cleavage structure in a site-specific manner. The structure-specific nuclease activity of a variety of enzymes is used to cleave the target-dependent cleavage structure, thereby indicating the presence of specific nucleic acid sequences or specific variations thereof. The present invention further relates to methods and devices for the separation of nucleic acid molecules based on charge. The present invention also provides methods for the detection of non-target cleavage products via the formation of a complete and activated protein binding region. The invention further provides sensitive and specific methods for the detection of human cytomegalovirus nucleic acid in a sample.

  20. Detection of nucleic acids by multiple sequential invasive cleavages

    DOE Patents [OSTI]

    Hall, Jeff G; Lyamichev, Victor I; Mast, Andrea L; Brow, Mary Ann D

    2012-10-16

    The present invention relates to means for the detection and characterization of nucleic acid sequences, as well as variations in nucleic acid sequences. The present invention also relates to methods for forming a nucleic acid cleavage structure on a target sequence and cleaving the nucleic acid cleavage structure in a site-specific manner. The structure-specific nuclease activity of a variety of enzymes is used to cleave the target-dependent cleavage structure, thereby indicating the presence of specific nucleic acid sequences or specific variations thereof. The present invention further relates to methods and devices for the separation of nucleic acid molecules based on charge. The present invention also provides methods for the detection of non-target cleavage products via the formation of a complete and activated protein binding region. The invention further provides sensitive and specific methods for the detection of human cytomegalovirus nucleic acid in a sample.

  1. Detection of nucleic acids by multiple sequential invasive cleavages

    DOE Patents [OSTI]

    Hall, Jeff G.; Lyamichev, Victor I.; Mast, Andrea L.; Brow, Mary Ann D.

    1999-01-01

    The present invention relates to means for the detection and characterization of nucleic acid sequences, as well as variations in nucleic acid sequences. The present invention also relates to methods for forming a nucleic acid cleavage structure on a target sequence and cleaving the nucleic acid cleavage structure in a site-specific manner. The structure-specific nuclease activity of a variety of enzymes is used to cleave the target-dependent cleavage structure, thereby indicating the presence of specific nucleic acid sequences or specific variations thereof. The present invention further relates to methods and devices for the separation of nucleic acid molecules based on charge. The present invention also provides methods for the detection of non-target cleavage products via the formation of a complete and activated protein binding region. The invention further provides sensitive and specific methods for the detection of human cytomegalovirus nucleic acid in a sample.

  2. Nucleic acid compositions and the encoding proteins

    DOE Patents [OSTI]

    Preston, III, James F.; Chow, Virginia; Nong, Guang; Rice, John D.; St. John, Franz J.

    2014-09-02

    The subject invention provides at least one nucleic acid sequence encoding an aldouronate-utilization regulon isolated from Paenibacillus sp. strain JDR-2, a bacterium which efficiently utilizes xylan and metabolizes aldouronates (methylglucuronoxylosaccharides). The subject invention also provides a means for providing a coordinately regulated process in which xylan depolymerization and product assimilation are coupled in Paenibacillus sp. strain JDR-2 to provide a favorable system for the conversion of lignocellulosic biomass to biobased products. Additionally, the nucleic acid sequences encoding the aldouronate-utilization regulon can be used to transform other bacteria to form organisms capable of producing a desired product (e.g., ethanol, 1-butanol, acetoin, 2,3-butanediol, 1,3-propanediol, succinate, lactate, acetate, malate or alanine) from lignocellulosic biomass.

  3. Nucleic acids, compositions and uses thereof

    DOE Patents [OSTI]

    Preston, III, James F.; Chow, Virginia; Nong, Guang; Rice, John D.; St. John, Franz J.

    2012-02-21

    The subject invention provides at least one nucleic acid sequence encoding an aldouronate-utilization regulon isolated from Paenibacillus sp. strain JDR-2, a bacterium which efficiently utilizes xylan and metabolizes aldouronates (methylglucuronoxylosaccharides). The subject invention also provides a means for providing a coordinately regulated process in which xylan depolymerization and product assimilation are coupled in Paenibacillus sp. strain JDR-2 to provide a favorable system for the conversion of lignocellulosic biomass to biobased products. Additionally, the nucleic acid sequences encoding the aldouronate-utilization regulon can be used to transform other bacteria to form organisms capable of producing a desired product (e.g., ethanol, 1-butanol, acetoin, 2,3-butanediol, 1,3-propanediol, succinate, lactate, acetate, malate or alanine) from lignocellulosic biomass.

  4. Method for analyzing nucleic acids by means of a substrate having a microchannel structure containing immobilized nucleic acid probes

    DOE Patents [OSTI]

    Ramsey, J. Michael; Foote, Robert S.

    2003-12-09

    A method and apparatus for analyzing nucleic acids includes immobilizing nucleic probes at specific sites within a microchannel structure and moving target nucleic acids into proximity to the probes in order to allow hybridization and fluorescence detection of specific target sequences.

  5. Method for analyzing nucleic acids by means of a substrate having a microchannel structure containing immobilized nucleic acid probes

    DOE Patents [OSTI]

    Ramsey, J. Michael (Knoxville, TN); Foote, Robert S. (Oak Ridge, TN)

    2002-01-01

    A method and apparatus for analyzing nucleic acids includes immobilizing nucleic probes at specific sites within a microchannel structure and moving target nucleic acids into proximity to the probes in order to allow hybridization and fluorescence detection of specific target sequences.

  6. Nucleic Acid Database: a Repository of Three-Dimensional Information about Nucleic Acids

    DOE Data Explorer [Office of Scientific and Technical Information (OSTI)]

    Berman, H. M.; Olson, W. K.; Beveridge, D. L.; Westbrook, J.; Gelbin, A.; Demeny, T.; Hsieh, S. H.; Srinivasan, A. R.; Schneider, B.

    The Nucleic Acid Database (NDB) provides 3-D structural information about nucleic acids. It is a relational database designed to facilitate the easy search for nucleic acid structures using any of the stored primary or derived structural features. Reports can then be created describing any properties of the selected structures and structures may be viewed in several different formats, including the mmCIF format, the NDB Atlas format, the NDB coordinate format, or the PDB coordinate format. Browsing structure images created directly from coordinates in the repository can also be done. More than 7000 structures have been released as of May 2014. This website also includes a number of specialized tools and interfaces. The NDB Project is funded by the National Institutes of Health and has been funded by the National Science Foundation and the Department of Energy in the past.

  7. Nucleic Acid Database: a Repository of Three-Dimensional Information about Nucleic Acids

    DOE Data Explorer [Office of Scientific and Technical Information (OSTI)]

    Berman, H. M.; Olson, W. K.; Beveridge, D. L.; Westbrook, J.; Gelbin, A.; Demeny, T.; Hsieh, S. H.; Srinivasan, A. R.; Schneider, B.

    The Nucleic Acid Database (NDB) provides 3-D structural information about nucleic acids.  It is a relational database designed to facilitate the easy search for nucleic acid structures using any of the stored primary or derived structural features. Reports can then be created describing any properties of the selected structures and structures may be viewed in several different formats, including the mmCIF format, the NDB Atlas format, the NDB coordinate format, or the PDB coordinate format. Browsing structure images created directly from coordinates in the repository can also be done. More than 7000 structures have been released as of May 2014. This website also includes a number of specialized tools and interfaces. The NDB Project is funded by the National Institutes of Health and has been funded by the National Science Foundation and the Department of Energy in the past.

  8. Nucleic acid amplification using modular branched primers

    DOE Patents [OSTI]

    Ulanovsky, Levy

    2001-01-01

    Methods and compositions expand the options for making primers for use in amplifying nucleic acid segments. The invention eliminates the step of custom synthesis of primers for Polymerase Chain Reactions (PCR). Instead of being custom-synthesized, a primer is replaced by a combination of several oligonucleotide modules selected from a pre-synthesized library. A modular combination of just a few oligonucleotides essentially mimics the performance of a conventional, custom-made primer by matching the sequence of the priming site in the template. Each oligonucleotide module has a segment that matches one of the stretches within the priming site.

  9. Geranyl diphosphate synthase molecules, and nucleic acid molecules encoding same

    DOE Patents [OSTI]

    Croteau, Rodney Bruce; Burke, Charles Cullen

    2008-06-24

    In one aspect, the present invention provides isolated nucleic acid molecules that each encode a geranyl diphosphate synthase protein, wherein each isolated nucleic acid molecule hybridizes to a nucleic acid molecule consisting of the sequence set forth in SEQ ID NO:1 under conditions of 5.times.SSC at 45.degree. C. for one hour. The present invention also provides isolated geranyl diphosphate synthase proteins, and methods for altering the level of expression of geranyl diphosphate synthase protein in a host cell.

  10. Quantification of false positive reduction in nucleic acid purification on

    Office of Scientific and Technical Information (OSTI)

    hemorrhagic fever DNA. (Technical Report) | SciTech Connect Quantification of false positive reduction in nucleic acid purification on hemorrhagic fever DNA. Citation Details In-Document Search Title: Quantification of false positive reduction in nucleic acid purification on hemorrhagic fever DNA. Columbia University has developed a sensitive highly multiplexed system for genetic identification of nucleic acid targets. The primary obstacle to implementing this technology is the high rate of

  11. Quantification of false positive reduction in nucleic acid purificatio...

    Office of Scientific and Technical Information (OSTI)

    hemorrhagic fever DNA. Citation Details In-Document Search Title: Quantification of false positive reduction in nucleic acid purification on hemorrhagic fever DNA. You are ...

  12. CRC handbook of chromatography: Nucleic acids and related compounds

    SciTech Connect (OSTI)

    Krstulovic, A.M.

    1987-01-01

    This book's contents include: Structure Elucidation of Nucleic Acid Components; Fundamentals of HPLC; Analysis of Nucleic Acids and Oligonucleotides; Extraction of Nucleic Acids from Tissues; Gel Filtration Chromatography of RNAs and DNS Fragments; Separation of tRNAs and Oligonucleotides by Mixed Mode Chromatography; Anion-Exchange and Reversed-Phase HPLC of Synthetic Oligonucleotides; Nucleic Acid Components in Biological Fluids; RPLC Separation of RNA and DNA Hydrolysates; Nucleotides in Tissue Extracts; and Determination of Adenine Nucleotides and Creatine Phosphate in Various Mammalian Tissues.

  13. EGVII endoglucanase and nucleic acids encoding the same

    DOE Patents [OSTI]

    Dunn-Coleman, Nigel; Goedegebuur, Frits; Ward, Michael; Yao, Jian

    2013-07-16

    The present invention provides a novel endoglucanase nucleic acid sequence, designated egl7, and the corresponding EGVII amino acid sequence. The invention also provides expression vectors and host cells comprising a nucleic acid sequence encoding EGVII, recombinant EGVII proteins and methods for producing the same.

  14. EGVII endoglucanase and nucleic acids encoding the same

    DOE Patents [OSTI]

    Dunn-Coleman, Nigel; Goedegebuur, Frits; Ward, Michael; Yao, Jian

    2012-02-14

    The present invention provides a novel endoglucanase nucleic acid sequence, designated egl7, and the corresponding EGVII amino acid sequence. The invention also provides expression vectors and host cells comprising a nucleic acid sequence encoding EGVII, recombinant EGVII proteins and methods for producing the same.

  15. EGVII endoglucanase and nucleic acids encoding the same

    DOE Patents [OSTI]

    Dunn-Coleman, Nigel; Goedegebuur, Frits; Ward, Michael; Yao, Jian

    2015-04-14

    The present invention provides a novel endoglucanase nucleic acid sequence, designated egl7, and the corresponding EGVII amino acid sequence. The invention also provides expression vectors and host cells comprising a nucleic acid sequence encoding EGVII, recombinant EGVII proteins and methods for producing the same.

  16. EGVII endoglucanase and nucleic acids encoding the same

    DOE Patents [OSTI]

    Dunn-Coleman, Nigel; Goedegebuur, Frits; Ward, Michael; Yao, Jian

    2014-02-25

    The present invention provides a novel endoglucanase nucleic acid sequence, designated egl7, and the corresponding EGVII amino acid sequence. The invention also provides expression vectors and host cells comprising a nucleic acid sequence encoding EGVII, recombinant EGVII proteins and methods for producing the same.

  17. EGVI endoglucanase and nucleic acids encoding the same

    DOE Patents [OSTI]

    Dunn-Coleman, Nigel; Goedegebuur, Frits; Ward, Michael; Yao, Jian

    2008-04-01

    The present invention provides a novel endoglucanase nucleic acid sequence, designated egl6, and the corresponding EGVI amino acid sequence. The invention also provides expression vectors and host cells comprising a nucleic acid sequence encoding EGVI, recombinant EGVI proteins and methods for producing the same.

  18. EGVII endoglucanase and nucleic acids encoding the same

    DOE Patents [OSTI]

    Dunn-Coleman, Nigel; Goedegebuur, Frits; Ward, Michael; Yao, Jian

    2009-05-05

    The present invention provides an endoglucanase nucleic acid sequence, designated egl7, and the corresponding EGVII amino acid sequence. The invention also provides expression vectors and host cells comprising a nucleic acid sequence encoding EGVII, recombinant EGVII proteins and methods for producing the same.

  19. EGVI endoglucanase and nucleic acids encoding the same

    DOE Patents [OSTI]

    Dunn-Coleman, Nigel; Goedegebuur, Frits; Ward, Michael; Yao, Jian

    2010-10-12

    The present invention provides a novel endoglucanase nucleic acid sequence, designated egl6, and the corresponding EGVI amino acid sequence. The invention also provides expression vectors and host cells comprising a nucleic acid sequence encoding EGVI, recombinant EGVI proteins and methods for producing the same.

  20. EGVI endoglucanase and nucleic acids encoding the same

    DOE Patents [OSTI]

    Dunn-Coleman, Nigel; Goedegebuur, Frits; Ward, Michael; Yao, Jian

    2010-10-05

    The present invention provides a novel endoglucanase nucleic acid sequence, designated egl6, and the corresponding EGVI amino acid sequence. The invention also provides expression vectors and host cells comprising a nucleic acid sequence encoding EGVI, recombinant EGVI proteins and methods for producing the same.

  1. EGVII endoglucanase and nucleic acids encoding the same

    DOE Patents [OSTI]

    Dunn-Coleman, Nigel; Goedegebuur, Frits; Ward, Michael; Yao, Jian

    2008-11-11

    The present invention provides a novel endoglucanase nucleic acid sequence, designated egl7, and the corresponding EGVII amino acid sequence. The invention also provides expression vectors and host cells comprising a nucleic acid sequence encoding EGVII, recombinant EGVII proteins and methods for producing the same.

  2. EGVIII endoglucanase and nucleic acids encoding the same

    DOE Patents [OSTI]

    Dunn-Coleman, Nigel; Goedegebuur, Frits; Ward, Michael; Yao, Jian

    2006-05-23

    The present invention provides a novel endoglucanase nucleic acid sequence, designated egl8, and the corresponding EGVIII amino acid sequence. The invention also provides expression vectors and host cells comprising a nucleic acid sequence encoding EGVIII, recombinant EGVIII proteins and methods for producing the same.

  3. EGVI endoglucanase and nucleic acids encoding the same

    DOE Patents [OSTI]

    Dunn-Coleman, Nigel; Goedegebuur, Frits; Ward, Michael; Yao, Jian

    2006-06-06

    The present invention provides a novel endoglucanase nucleic acid sequence, designated egl6, and the corresponding EGVI amino acid sequence. The invention also provides expression vectors and host cells comprising a nucleic acid sequence encoding EGVI, recombinant EGVI proteins and methods for producing the same.

  4. EGVII endoglucanase and nucleic acids encoding the same

    DOE Patents [OSTI]

    Dunn-Coleman, Nigel; Goedegebuur, Frits; Ward, Michael; Yao, Jian

    2006-05-16

    The present invention provides a novel endoglucanase nucleic acid sequence, designated egl7, and the corresponding EGVII amino acid sequence. The invention also provides expression vectors and host cells comprising a nucleic acid sequence encoding EGVII, recombinant EGVII proteins and methods for producing the same.

  5. Nucleic acid based fluorescent sensor for mercury detection

    DOE Patents [OSTI]

    Lu, Yi; Liu, Juewen

    2013-02-05

    A nucleic acid enzyme comprises an oligonucleotide containing thymine bases. The nucleic acid enzyme is dependent on both Hg.sup.2+and a second ion as cofactors, to produce a product from a substrate. The substrate comprises a ribonucleotide, a deoxyribonucleotide, or both.

  6. Solid phase sequencing of double-stranded nucleic acids

    DOE Patents [OSTI]

    Fu, Dong-Jing (Waltham, MA); Cantor, Charles R. (Boston, MA); Koster, Hubert (Concord, MA); Smith, Cassandra L. (Boston, MA)

    2002-01-01

    This invention relates to methods for detecting and sequencing of target double-stranded nucleic acid sequences, to nucleic acid probes and arrays of probes useful in these methods, and to kits and systems which contain these probes. Useful methods involve hybridizing the nucleic acids or nucleic acids which represent complementary or homologous sequences of the target to an array of nucleic acid probes. These probe comprise a single-stranded portion, an optional double-stranded portion and a variable sequence within the single-stranded portion. The molecular weights of the hybridized nucleic acids of the set can be determined by mass spectroscopy, and the sequence of the target determined from the molecular weights of the fragments. Nucleic acids whose sequences can be determined include nucleic acids in biological samples such as patient biopsies and environmental samples. Probes may be fixed to a solid support such as a hybridization chip to facilitate automated determination of molecular weights and identification of the target sequence.

  7. Nucleic acids encoding metal uptake transporters and their uses

    DOE Patents [OSTI]

    Schroeder, Julian I.; Antosiewicz, Danuta M.; Schachtman, Daniel P.; Clemens, Stephan

    1999-01-01

    The invention provides LCT1 nucleic acids which encode metal ion uptake transporters. The invention also provides methods of modulating heavy metal and alkali metal uptake in plants. The methods involve producing transgenic plants comprising a recombinant expression cassette containing an LCT1 nucleic acid linked to a plant promoter.

  8. Methods and compositions for efficient nucleic acid sequencing

    DOE Patents [OSTI]

    Drmanac, Radoje

    2002-01-01

    Disclosed are novel methods and compositions for rapid and highly efficient nucleic acid sequencing based upon hybridization with two sets of small oligonucleotide probes of known sequences. Extremely large nucleic acid molecules, including chromosomes and non-amplified RNA, may be sequenced without prior cloning or subcloning steps. The methods of the invention also solve various current problems associated with sequencing technology such as, for example, high noise to signal ratios and difficult discrimination, attaching many nucleic acid fragments to a surface, preparing many, longer or more complex probes and labelling more species.

  9. Methods and compositions for efficient nucleic acid sequencing

    DOE Patents [OSTI]

    Drmanac, Radoje

    2006-07-04

    Disclosed are novel methods and compositions for rapid and highly efficient nucleic acid sequencing based upon hybridization with two sets of small oligonucleotide probes of known sequences. Extremely large nucleic acid molecules, including chromosomes and non-amplified RNA, may be sequenced without prior cloning or subcloning steps. The methods of the invention also solve various current problems associated with sequencing technology such as, for example, high noise to signal ratios and difficult discrimination, attaching many nucleic acid fragments to a surface, preparing many, longer or more complex probes and labelling more species.

  10. Nucleic acid detection system and method for detecting influenza

    DOE Patents [OSTI]

    Cai, Hong; Song, Jian

    2015-03-17

    The invention provides a rapid, sensitive and specific nucleic acid detection system which utilizes isothermal nucleic acid amplification in combination with a lateral flow chromatographic device, or DNA dipstick, for DNA-hybridization detection. The system of the invention requires no complex instrumentation or electronic hardware, and provides a low cost nucleic acid detection system suitable for highly sensitive pathogen detection. Hybridization to single-stranded DNA amplification products using the system of the invention provides a sensitive and specific means by which assays can be multiplexed for the detection of multiple target sequences.

  11. Isolated menthone reductase and nucleic acid molecules encoding same

    DOE Patents [OSTI]

    Croteau, Rodney B; Davis, Edward M; Ringer, Kerry L

    2013-04-23

    The present invention provides isolated menthone reductase proteins, isolated nucleic acid molecules encoding menthone reductase proteins, methods for expressing and isolating menthone reductase proteins, and transgenic plants expressing elevated levels of menthone reductase protein.

  12. Methods for separating particles and/or nucleic acids using

    Office of Scientific and Technical Information (OSTI)

    isotachophoresis (Patent) | SciTech Connect Methods for separating particles and/or nucleic acids using isotachophoresis Citation Details In-Document Search Title: Methods for separating particles and/or nucleic acids using isotachophoresis According to one embodiment, a method includes co-feeding fluids comprising a leading electrolyte, a trailing electrolyte, and at least one of DNA and RNA to a channel, and applying an electric field to the fluids in a direction perpendicular to an axis

  13. Methods for separating particles and/or nucleic acids using

    Office of Scientific and Technical Information (OSTI)

    isotachophoresis (Patent) | SciTech Connect Methods for separating particles and/or nucleic acids using isotachophoresis Citation Details In-Document Search Title: Methods for separating particles and/or nucleic acids using isotachophoresis × You are accessing a document from the Department of Energy's (DOE) SciTech Connect. This site is a product of DOE's Office of Scientific and Technical Information (OSTI) and is provided as a public service. Visit OSTI to utilize additional information

  14. Oligonucleoside alkyl or arylphosphonate derivatives capable of crosslinking with or cleaving nucleic acids

    DOE Patents [OSTI]

    Miller, P.S.; Ts'o, P.O.P.

    1999-06-15

    A composition for inactivating a target nucleic acid which comprises an oligonucleoside alkyl or arylphosphonate analogue which is complementary to the sequence of the target nucleic acid is provided. It includes a functional group which reacts with the target nucleic acid to render the target nucleic acid inactive or nonfunctional. 16 figs.

  15. Oligonucleoside alkyl or arylphosphonate derivatives capable of crosslinking with or cleaving nucleic acids

    DOE Patents [OSTI]

    Miller, Paul S.; Ts'o, Paul O.P.

    1999-06-15

    A composition for inactivating a target nucleic acid which comprises an oligonucleoside alkyl or arylphosphonate analogue which is complementary to the sequence of the target nucleic acid and includes a functional group which reacts with the target nucleic acid to render the target nucleic acid inactive or nonfunctional.

  16. Methods And Devices For Characterizing Duplex Nucleic Acid Molecules

    DOE Patents [OSTI]

    Akeson, Mark; Vercoutere, Wenonah; Haussler, David; Winters-Hilt, Stephen

    2005-08-30

    Methods and devices are provided for characterizing a duplex nucleic acid, e.g., a duplex DNA molecule. In the subject methods, a fluid conducting medium that includes a duplex nucleic acid molecule is contacted with a nanopore under the influence of an applied electric field and the resulting changes in current through the nanopore caused by the duplex nucleic acid molecule are monitored. The observed changes in current through the nanopore are then employed as a set of data values to characterize the duplex nucleic acid, where the set of data values may be employed in raw form or manipulated, e.g., into a current blockade profile. Also provided are nanopore devices for practicing the subject methods, where the subject nanopore devices are characterized by the presence of an algorithm which directs a processing means to employ monitored changes in current through a nanopore to characterize a duplex nucleic acid molecule responsible for the current changes. The subject methods and devices find use in a variety of applications, including, among other applications, the identification of an analyte duplex DNA molecule in a sample, the specific base sequence at a single nulceotide polymorphism (SNP), and the sequencing of duplex DNA molecules.

  17. Method for nucleic acid hybridization using single-stranded DNA binding protein

    DOE Patents [OSTI]

    Tabor, Stanley; Richardson, Charles C.

    1996-01-01

    Method of nucleic acid hybridization for detecting the presence of a specific nucleic acid sequence in a population of different nucleic acid sequences using a nucleic acid probe. The nucleic acid probe hybridizes with the specific nucleic acid sequence but not with other nucleic acid sequences in the population. The method includes contacting a sample (potentially including the nucleic acid sequence) with the nucleic acid probe under hybridizing conditions in the presence of a single-stranded DNA binding protein provided in an amount which stimulates renaturation of a dilute solution (i.e., one in which the t.sub.1/2 of renaturation is longer than 3 weeks) of single-stranded DNA greater than 500 fold (i.e., to a t.sub.1/2 less than 60 min, preferably less than 5 min, and most preferably about 1 min.) in the absence of nucleotide triphosphates.

  18. Kit for detecting nucleic acid sequences using competitive hybridization probes

    DOE Patents [OSTI]

    Lucas, Joe N. (San Ramon, CA); Straume, Tore (Tracy, CA); Bogen, Kenneth T. (Walnut Creek, CA)

    2001-01-01

    A kit is provided for detecting a target nucleic acid sequence in a sample, the kit comprising: a first hybridization probe which includes a nucleic acid sequence that is sufficiently complementary to selectively hybridize to a first portion of the target sequence, the first hybridization probe including a first complexing agent for forming a binding pair with a second complexing agent; and a second hybridization probe which includes a nucleic acid sequence that is sufficiently complementary to selectively hybridize to a second portion of the target sequence to which the first hybridization probe does not selectively hybridize, the second hybridization probe including a detectable marker; a third hybridization probe which includes a nucleic acid sequence that is sufficiently complementary to selectively hybridize to a first portion of the target sequence, the third hybridization probe including the same detectable marker as the second hybridization probe; and a fourth hybridization probe which includes a nucleic acid sequence that is sufficiently complementary to selectively hybridize to a second portion of the target sequence to which the third hybridization probe does not selectively hybridize, the fourth hybridization probe including the first complexing agent for forming a binding pair with the second complexing agent; wherein the first and second hybridization probes are capable of simultaneously hybridizing to the target sequence and the third and fourth hybridization probes are capable of simultaneously hybridizing to the target sequence, the detectable marker is not present on the first or fourth hybridization probes and the first, second, third, and fourth hybridization probes each include a competitive nucleic acid sequence which is sufficiently complementary to a third portion of the target sequence that the competitive sequences of the first, second, third, and fourth hybridization probes compete with each other to hybridize to the third portion of the target sequence.

  19. Polymerase chain reaction system using magnetic beads for analyzing a sample that includes nucleic acid

    DOE Patents [OSTI]

    Nasarabadi, Shanavaz (Livermore, CA)

    2011-01-11

    A polymerase chain reaction system for analyzing a sample containing nucleic acid includes providing magnetic beads; providing a flow channel having a polymerase chain reaction chamber, a pre polymerase chain reaction magnet position adjacent the polymerase chain reaction chamber, and a post pre polymerase magnet position adjacent the polymerase chain reaction chamber. The nucleic acid is bound to the magnetic beads. The magnetic beads with the nucleic acid flow to the pre polymerase chain reaction magnet position in the flow channel. The magnetic beads and the nucleic acid are washed with ethanol. The nucleic acid in the polymerase chain reaction chamber is amplified. The magnetic beads and the nucleic acid are separated into a waste stream containing the magnetic beads and a post polymerase chain reaction mix containing the nucleic acid. The reaction mix containing the nucleic acid flows to an analysis unit in the channel for analysis.

  20. Polypeptides having cellulolytic enhancing activity and nucleic acids encoding same

    DOE Patents [OSTI]

    Brown, Kimberly; Harris, Paul; Zaretsky, Elizabeth; Re, Edward; Vlasenko, Elena; McFarland, Keith; Lopez de Leon, Alfredo

    2012-10-16

    The present invention relates to isolated polypeptides having cellulolytic enhancing activity and isolated polynucleotides encoding the polypeptides. The invention also relates to nucleic acid constructs, vectors, and host cells comprising the polynucleotides as well as methods for producing and using the polypeptides.

  1. Arrays of nucleic acid probes on biological chips

    DOE Patents [OSTI]

    Chee, Mark; Cronin, Maureen T.; Fodor, Stephen P. A.; Huang, Xiaohua X.; Hubbell, Earl A.; Lipshutz, Robert J.; Lobban, Peter E.; Morris, MacDonald S.; Sheldon, Edward L.

    1998-11-17

    DNA chips containing arrays of oligonucleotide probes can be used to determine whether a target nucleic acid has a nucleotide sequence identical to or different from a specific reference sequence. The array of probes comprises probes exactly complementary to the reference sequence, as well as probes that differ by one or more bases from the exactly complementary probes.

  2. Mosaic protein and nucleic acid vaccines against hepatitis C virus

    DOE Patents [OSTI]

    Yusim, Karina; Korber, Bette T. M.; Kuiken, Carla L.; Fischer, William M.

    2013-06-11

    The invention relates to immunogenic compositions useful as HCV vaccines. Provided are HCV mosaic polypeptide and nucleic acid compositions which provide higher levels of T-cell epitope coverage while minimizing the occurrence of unnatural and rare epitopes compared to natural HCV polypeptides and consensus HCV sequences.

  3. Cell cycle nucleic acids, polypeptides and uses thereof

    DOE Patents [OSTI]

    Gordon-Kamm, William J. (Urbandale, IA); Lowe, Keith S. (Johnston, IA); Larkins, Brian A. (Tucson, AZ); Dilkes, Brian R. (Tucson, AZ); Sun, Yuejin (Westfield, IN)

    2007-08-14

    The invention provides isolated nucleic acids and their encoded proteins that are involved in cell cycle regulation. The invention further provides recombinant expression cassettes, host cells, transgenic plants, and antibody compositions. The present invention provides methods and compositions relating to altering cell cycle protein content, cell cycle progression, cell number and/or composition of plants.

  4. Polypeptides having cellulolytic enhancing activity and nucleic acids encoding same

    DOE Patents [OSTI]

    Brown, Kimberly; Harris, Paul; Zaretsky, Elizabeth; Re, Edward; Vlasenko, Elena; McFarland, Keith; Lopez de Leon, Alfredo

    2014-09-30

    The present invention relates to isolated polypeptides having cellulolytic enhancing activity and isolated polynucleotides encoding the polypeptides. The invention also relates to nucleic acid constructs, vectors, and host cells comprising the polynucleotides as well as methods for producing and using the polypeptides.

  5. Polypeptides having cellulolytic enhancing activity and nucleic acids encoding same

    DOE Patents [OSTI]

    Brown, Kimberly; Harris, Paul; Zaretsky, Elizabeth; Re, Edward; Vlasenko, Elena; McFarland, Keith; Lopez de Leon, Alfredo

    2010-06-22

    The present invention relates to isolated polypeptides having cellulolytic enhancing activity and isolated polynucleotides encoding the polypeptides. The invention also relates to nucleic acid constructs, vectors, and host cells comprising the polynucleotides as well as methods for producing and using the polypeptides.

  6. Methods of staining target chromosomal DNA employing high complexity nucleic acid probes

    DOE Patents [OSTI]

    Gray, Joe W.; Pinkel, Daniel; Kallioniemi, Ol'li-Pekka; Kallioniemi, Anne; Sakamoto, Masaru

    2006-10-03

    Methods and compositions for staining based upon nucleic acid sequence that employ nucleic acid probes are provided. Said methods produce staining patterns that can be tailored for specific cytogenetic analyses. Said probes are appropriate for in situ hybridization and stain both interphase and metaphase chromosomal material with reliable signals. The nucleic acid probes are typically of a complexity greater than 50 kb, the complexity depending upon the cytogenetic application. Methods and reagents are provided for the detection of genetic rearrangements. Probes and test kits are provided for use in detecting genetic rearrangements, particularly for use in tumor cytogenetics, in the detection of disease related loci, specifically cancer, such as chronic myelogenous leukemia (CML), retinoblastoma, ovarian and uterine cancers, and for biological dosimetry. Methods and reagents are described for cytogenetic research, for the differentiation of cytogenetically similar but genetically different diseases, and for many prognostic and diagnostic applications.

  7. Isolated nucleic acids encoding antipathogenic polypeptides and uses thereof

    DOE Patents [OSTI]

    Altier, Daniel J.; Crane, Virginia C.; Ellanskaya, Irina; Ellanskaya, Natalia; Gilliam, Jacob T.; Hunter-Cevera, Jennie; Presnail, James K.; Schepers, Eric J.; Simmons, Carl R.; Torok, Tamas; Yalpani, Nasser

    2010-04-20

    Compositions and methods for protecting a plant from a pathogen, particularly a fungal pathogen, are provided. Compositions include amino acid sequences, and variants and fragments thereof, for antipathogenic polypeptides that were isolated from fungal fermentation broths. Nucleic acids that encode the antipathogenic polypeptides are also provided. A method for inducing pathogen resistance in a plant using the nucleotide sequences disclosed herein is further provided. The method comprises introducing into a plant an expression cassette comprising a promoter operably linked to a nucleotide sequence that encodes an antipathogenic polypeptide of the invention. Compositions comprising an antipathogenic polypeptide or a transformed microorganism comprising a nucleic acid of the invention in combination with a carrier and methods of using these compositions to protect a plant from a pathogen are further provided. Transformed plants, plant cells, seeds, and microorganisms comprising a nucleotide sequence that encodes an antipathogenic polypeptide of the invention are also disclosed.

  8. Nucleic acids encoding antifungal polypeptides and uses thereof

    DOE Patents [OSTI]

    Altier, Daniel J.; Ellanskaya, I. A.; Gilliam, Jacob T.; Hunter-Cevera, Jennie; Presnail, James K; Schepers, Eric; Simmons, Carl R.; Torok, Tamas; Yalpani, Nasser

    2010-11-02

    Compositions and methods for protecting a plant from a pathogen, particularly a fungal pathogen, are provided. Compositions include an amino acid sequence, and variants and fragments thereof, for an antipathogenic polypeptide that was isolated from a fungal fermentation broth. Nucleic acid molecules that encode the antipathogenic polypeptides of the invention, and antipathogenic domains thereof, are also provided. A method for inducing pathogen resistance in a plant using the nucleotide sequences disclosed herein is further provided. The method comprises introducing into a plant an expression cassette comprising a promoter operably linked to a nucleotide sequence that encodes an antipathogenic polypeptide of the invention. Compositions comprising an antipathogenic polypeptide or a transformed microorganism comprising a nucleic acid of the invention in combination with a carrier and methods of using these compositions to protect a plant from a pathogen are further provided. Transformed plants, plant cells, seeds, and microorganisms comprising a nucleotide sequence that encodes an antipathogenic polypeptide of the invention are also disclosed.

  9. Method for promoting specific alignment of short oligonucleotides on nucleic acids

    DOE Patents [OSTI]

    Studier, F. William; Kieleczawa, Jan; Dunn, John J.

    1996-01-01

    Disclosed is a method for promoting specific alignment of short oligonucleotides on a nucleic acid polymer. The nucleic acid polymer is incubated in a solution containing a single-stranded DNA-binding protein and a plurality of oligonucleotides which are perfectly complementary to distinct but adjacent regions of a predetermined contiguous nucleotide sequence in the nucleic acid polymer. The plurality of oligonucleotides anneal to the nucleic acid polymer to form a contiguous region of double stranded nucleic acid. Specific application of the methods disclosed include priming DNA synthesis and template-directed ligation.

  10. Universal nucleic acids sample preparation method for cells, spores and their mixture

    DOE Patents [OSTI]

    Bavykin, Sergei

    2011-01-18

    The present invention relates to a method for extracting nucleic acids from biological samples. More specifically the invention relates to a universal method for extracting nucleic acids from unidentified biological samples. An advantage of the presently invented method is its ability to effectively and efficiently extract nucleic acids from a variety of different cell types including but not limited to prokaryotic or eukaryotic cells and/or recalcitrant organisms (i.e. spores). Unlike prior art methods which are focused on extracting nucleic acids from vegetative cell or spores, the present invention effectively extracts nucleic acids from spores, multiple cell types or mixtures thereof using a single method. Important that the invented method has demonstrated an ability to extract nucleic acids from spores and vegetative bacterial cells with similar levels effectiveness. The invented method employs a multi-step protocol which erodes the cell structure of the biological sample, isolates, labels, fragments nucleic acids and purifies labeled samples from the excess of dye.

  11. Method and apparatus for staining immobilized nucleic acids

    DOE Patents [OSTI]

    Ramsey, J. Michael; Foote, Robert S.; Jacobson, Stephen C.

    2000-01-01

    A method for staining immobilized nucleic acids includes the steps of affixing DNA probes to a solid substrate, moving target DNA material into proximity with the DNA probes, whereby the target DNA hybridized with specific ones of the DNA probes, and moving a fluorescent dye into proximity with the hybridized target DNA, whereby the fluorescent dye binds to the hybridized DNA to enable subsequent detection of fluorescence.

  12. Nucleic acids encoding human trithorax protein

    DOE Patents [OSTI]

    Evans, Glen A.; Djabali, Malek; Selleri, Licia; Parry, Pauline

    2001-01-01

    In accordance with the present invention, there is provided an isolated peptide having the characteristics of human trithorax protein (as well as DNA encoding same, antisense DNA derived therefrom and antagonists therefor). The invention peptide is characterized by having a DNA binding domain comprising multiple zinc fingers and at least 40% amino acid identity with respect to the DNA binding domain of Drosophila trithorax protein and at least 70% conserved sequence with respect to the DNA binding domain of Drosophila trithorax protein, and wherein said peptide is encoded by a gene located at chromosome 11 of the human genome at q23. Also provided are methods for the treatment of subject(s) suffering from immunodeficiency, developmental abnormality, inherited disease, or cancer by administering to said subject a therapeutically effective amount of one of the above-described agents (i.e., peptide, antagonist therefor, DNA encoding said peptide or antisense DNA derived therefrom). Also provided is a method for the diagnosis, in a subject, of immunodeficiency, developmental abnormality, inherited disease, or cancer associated with disruption of chromosome 11 at q23.

  13. Human jagged polypeptide, encoding nucleic acids and methods of use

    DOE Patents [OSTI]

    Li, Linheng; Hood, Leroy

    2000-01-01

    The present invention provides an isolated polypeptide exhibiting substantially the same amino acid sequence as JAGGED, or an active fragment thereof, provided that the polypeptide does not have the amino acid sequence of SEQ ID NO:5 or SEQ ID NO:6. The invention further provides an isolated nucleic acid molecule containing a nucleotide sequence encoding substantially the same amino acid sequence as JAGGED, or an active fragment thereof, provided that the nucleotide sequence does not encode the amino acid sequence of SEQ ID NO:5 or SEQ ID NO:6. Also provided herein is a method of inhibiting differentiation of hematopoietic progenitor cells by contacting the progenitor cells with an isolated JAGGED polypeptide, or active fragment thereof. The invention additionally provides a method of diagnosing Alagille Syndrome in an individual. The method consists of detecting an Alagille Syndrome disease-associated mutation linked to a JAGGED locus.

  14. Highly simplified lateral flow-based nucleic acid sample preparation and passive fluid flow control

    SciTech Connect (OSTI)

    Cary, Robert E.

    2015-12-08

    Highly simplified lateral flow chromatographic nucleic acid sample preparation methods, devices, and integrated systems are provided for the efficient concentration of trace samples and the removal of nucleic acid amplification inhibitors. Methods for capturing and reducing inhibitors of nucleic acid amplification reactions, such as humic acid, using polyvinylpyrrolidone treated elements of the lateral flow device are also provided. Further provided are passive fluid control methods and systems for use in lateral flow assays.

  15. Methods for point-of-care detection of nucleic acid in a sample...

    Office of Scientific and Technical Information (OSTI)

    Provided herein are methods and apparatus for detecting a target nucleic acid in a sample ... Sponsoring Org: USDOE Country of Publication: United States Language: English Subject: 59 ...

  16. BGL3 beta-glucosidase and nucleic acids encoding the same

    DOE Patents [OSTI]

    Dunn-Coleman, Nigel; Goedegebuur, Frits; Ward, Michael; Yao, Jian

    2012-10-30

    The present invention provides a novel .beta.-glucosidase nucleic acid sequence, designated bgl3, and the corresponding BGL3 amino acid sequence. The invention also provides expression vectors and host cells comprising a nucleic acid sequence encoding BGL3, recombinant BGL3 proteins and methods for producing the same.

  17. BGL7 beta-glucosidase and nucleic acids encoding the same

    DOE Patents [OSTI]

    Dunn-Coleman, Nigel; Ward, Michael

    2013-01-29

    The present invention provides a novel .beta.-glucosidase nucleic acid sequence, designated bgl7, and the corresponding BGL7 amino acid sequence. The invention also provides expression vectors and host cells comprising a nucleic acid sequence encoding BGL7, recombinant BGL7 proteins and methods for producing the same.

  18. BGL6 .beta.-glucosidase and nucleic acids encoding the same

    DOE Patents [OSTI]

    Dunn-Coleman, Nigel; Ward, Michael

    2012-10-02

    The present invention provides a novel .beta.-glucosidase nucleic acid sequence, designated bgl6, and the corresponding BGL6 amino acid sequence. The invention also provides expression vectors and host cells comprising a nucleic acid sequence encoding BGL6, recombinant BGL6 proteins and methods for producing the same.

  19. BGL4 beta-glucosidase and nucleic acids encoding the same

    DOE Patents [OSTI]

    Dunn-Coleman, Nigel; Goedegebuur, Frits; Ward, Michael; Yao, Jian

    2011-12-06

    The present invention provides a novel .beta.-glucosidase nucleic acid sequence, designated bgl4, and the corresponding BGL4 amino acid sequence. The invention also provides expression vectors and host cells comprising a nucleic acid sequence encoding BGL4, recombinant BGL4 proteins and methods for producing the same.

  20. BGL7 beta-glucosidase and nucleic acids encoding the same

    DOE Patents [OSTI]

    Dunn-Coleman, Nigel; Ward, Michael

    2015-04-14

    The present invention provides a novel .beta.-glucosidase nucleic acid sequence, designated bgl7, and the corresponding BGL7 amino acid sequence. The invention also provides expression vectors and host cells comprising a nucleic acid sequence encoding BGL7, recombinant BGL7 proteins and methods for producing the same.

  1. BGL6 beta-glucosidase and nucleic acids encoding the same

    DOE Patents [OSTI]

    Dunn-Coleman, Nigel; Ward, Michael

    2015-08-11

    The present invention provides a novel .beta.-glucosidase nucleic acid sequence, designated bgl6, and the corresponding BGL6 amino acid sequence. The invention also provides expression vectors and host cells comprising a nucleic acid sequence encoding BGL6, recombinant BGL6 proteins and methods for producing the same.

  2. BGL7 beta-glucosidase and nucleic acids encoding the same

    DOE Patents [OSTI]

    Dunn-Coleman, Nigel; Ward, Michael

    2014-03-25

    The present invention provides a novel .beta.-glucosidase nucleic acid sequence, designated bgl7, and the corresponding BGL7 amino acid sequence. The invention also provides expression vectors and host cells comprising a nucleic acid sequence encoding BGL7, recombinant BGL7 proteins and methods for producing the same.

  3. BGL6 beta-glucosidase and nucleic acids encoding the same

    DOE Patents [OSTI]

    Dunn-Coleman, Nigel; Ward, Michael

    2014-03-04

    The present invention provides a novel .beta.-glucosidase nucleic acid sequence, designated bgl6, and the corresponding BGL6 amino acid sequence. The invention also provides expression vectors and host cells comprising a nucleic acid sequence encoding BGL6, recombinant BGL6 proteins and methods for producing the same.

  4. BGL3 beta-glucosidase and nucleic acids encoding the same

    DOE Patents [OSTI]

    Dunn-Coleman, Nigel; Goedegebuur, Frits; Ward, Michael; Yao, Jian

    2008-04-01

    The present invention provides a novel .beta.-glucosidase nucleic acid sequence, designated bgl3, and the corresponding BGL3 amino acid sequence. The invention also provides expression vectors and host cells comprising a nucleic acid sequence encoding BGL3, recombinant BGL3 proteins and methods for producing the same.

  5. BGL5 .beta.-glucosidase and nucleic acids encoding the same

    DOE Patents [OSTI]

    Dunn-Coleman, Nigel; Goedegebuur, Frits; Ward, Michael; Yao, Jian

    2008-03-18

    The present invention provides a novel .beta.-glucosidase nucleic acid sequence, designated bgl5, and the corresponding BGL5 amino acid sequence. The invention also provides expression vectors and host cells comprising a nucleic acid sequence encoding BGL5, recombinant BGL5 proteins and methods for producing the same.

  6. BGL3 beta-glucosidase and nucleic acids encoding the same

    DOE Patents [OSTI]

    Dunn-Coleman, Nigel; Goedegebuur, Frits; Ward, Michael; Yao, Jian

    2007-09-25

    The present invention provides a novel .beta.-glucosidase nucleic acid sequence, designated bgl3, and the corresponding BGL3 amino acid sequence. The invention also provides expression vectors and host cells comprising a nucleic acid sequence encoding BGL3, recombinant BGL3 proteins and methods for producing the same.

  7. BGL7 beta-glucosidase and nucleic acids encoding the same

    DOE Patents [OSTI]

    Dunn-Coleman, Nigel; Ward, Michael

    2008-08-05

    The present invention provides a novel .beta.-glucosidase nucleic acid sequence, designated bgl7, and the corresponding BGL7 amino acid sequence. The invention also provides expression vectors and host cells comprising a nucleic acid sequence encoding BGL7, recombinant BGL7 proteins and methods for producing the same.

  8. BGL6 beta-glucosidase and nucleic acids encoding the same

    DOE Patents [OSTI]

    Dunn-Coleman, Nigel; Ward, Michael

    2009-09-01

    The present invention provides a novel .beta.-glucosidase nucleic acid sequence, designated bgl6, and the corresponding BGL6 amino acid sequence. The invention also provides expression vectors and host cells comprising a nucleic acid sequence encoding BGL6, recombinant BGL6 proteins and methods for producing the same.

  9. BGL4 beta-glucosidase and nucleic acids encoding the same

    DOE Patents [OSTI]

    Dunn-Coleman, Nigel [Los Gatos, CA; Goedegebuur, Frits [Vlaardingen, NL; Ward, Michael [San Francisco, CA; Yao, Jian [Sunnyvale, CA

    2008-01-22

    The present invention provides a novel .beta.-glucosidase nucleic acid sequence, designated bgl4, and the corresponding BGL4 amino acid sequence. The invention also provides expression vectors and host cells comprising a nucleic acid sequence encoding BGL4, recombinant BGL4 proteins and methods for producing the same.

  10. BGL3 beta-glucosidase and nucleic acids encoding the same

    DOE Patents [OSTI]

    Dunn-Coleman, Nigel; Goedegebuur, Frits; Ward, Michael; Yao, Jian

    2011-06-14

    The present invention provides a novel .beta.-glucosidase nucleic acid sequence, designated bgl3, and the corresponding BGL3 amino acid sequence. The invention also provides expression vectors and host cells comprising a nucleic acid sequence encoding BGL3, recombinant BGL3 proteins and methods for producing the same.

  11. BGL5 .beta.-glucosidase and nucleic acids encoding the same

    DOE Patents [OSTI]

    Dunn-Coleman, Nigel; Goedegebuur, Frits; Ward, Michael; Yao, Jian

    2006-02-28

    The present invention provides a novel .beta.-glucosidase nucleic acid sequence, designated bgl5, and the corresponding BGL5 amino acid sequence. The invention also provides expression vectors and host cells comprising a nucleic acid sequence encoding BGL5, recombinant BGL5 proteins and methods for producing the same.

  12. BGL4 .beta.-glucosidase and nucleic acids encoding the same

    DOE Patents [OSTI]

    Dunn-Coleman, Nigel; Goedegebuur, Frits; Ward, Michael; Yao, Jian

    2006-05-16

    The present invention provides a novel .beta.-glucosidase nucleic acid sequence, designated bgl4, and the corresponding BGL4 amino acid sequence. The invention also provides expression vectors and host cells comprising a nucleic acid sequence encoding BGL4, recombinant BGL4 proteins and methods for producing the same.

  13. Nucleic acid sequence detection using multiplexed oligonucleotide PCR

    DOE Patents [OSTI]

    Nolan, John P.; White, P. Scott

    2006-12-26

    Methods for rapidly detecting single or multiple sequence alleles in a sample nucleic acid are described. Provided are all of the oligonucleotide pairs capable of annealing specifically to a target allele and discriminating among possible sequences thereof, and ligating to each other to form an oligonucleotide complex when a particular sequence feature is present (or, alternatively, absent) in the sample nucleic acid. The design of each oligonucleotide pair permits the subsequent high-level PCR amplification of a specific amplicon when the oligonucleotide complex is formed, but not when the oligonucleotide complex is not formed. The presence or absence of the specific amplicon is used to detect the allele. Detection of the specific amplicon may be achieved using a variety of methods well known in the art, including without limitation, oligonucleotide capture onto DNA chips or microarrays, oligonucleotide capture onto beads or microspheres, electrophoresis, and mass spectrometry. Various labels and address-capture tags may be employed in the amplicon detection step of multiplexed assays, as further described herein.

  14. Methods for point-of-care detection of nucleic acid in a sample

    DOE Patents [OSTI]

    Bearinger, Jane P.; Dugan, Lawrence C.

    2015-12-29

    Provided herein are methods and apparatus for detecting a target nucleic acid in a sample and related methods and apparatus for diagnosing a condition in an individual. The condition is associated with presence of nucleic acid produced by certain pathogens in the individual.

  15. Nucleic acids encoding mosaic clade M human immunodeficiency virus type 1 (HIV-1) envelope immunogens

    DOE Patents [OSTI]

    Korber, Bette T; Fischer, William; Liao, Hua-Xin; Haynes, Barton F; Letvin, Norman; Hahn, Beatrice H

    2015-04-21

    The present invention relates to nucleic acids encoding mosaic clade M HIV-1 Env polypeptides and to compositions and vectors comprising same. The nucleic acids of the invention are suitable for use in inducing an immune response to HIV-1 in a human.

  16. The present invention relates to automated methods of introducing multiple nucleic acid sequences into one or more target cells.

    DOE Patents [OSTI]

    Church, George M. (Brookline, MA); Wang, Harris H. (Cambridge, MA); Isaacs, Farren J. (Brookline, MA)

    2012-04-10

    The present invention relates to automated methods of introducing multiple nucleic acid sequences into one or more target cells.

  17. Method for producing labeled single-stranded nucleic acid probes

    DOE Patents [OSTI]

    Dunn, John J.; Quesada, Mark A.; Randesi, Matthew

    1999-10-19

    Disclosed is a method for the introduction of unidirectional deletions in a cloned DNA segment. More specifically, the method comprises providing a recombinant DNA construct comprising a DNA segment of interest inserted in a cloning vector, the cloning vector having an f1 endonuclease recognition sequence adjacent to the insertion site of the DNA segment of interest. The recombinant DNA construct is then contacted with the protein pII encoded by gene II of phage f1 thereby generating a single-stranded nick. The nicked DNA is then contacted with E. coli Exonuclease III thereby expanding the single-stranded nick into a single-stranded gap. The single-stranded gapped DNA is then contacted with a single-strand-specific endonuclease thereby producing a linearized DNA molecule containing a double-stranded deletion corresponding in size to the single-stranded gap. The DNA treated in this manner is then incubated with DNA ligase under conditions appropriate for ligation. Also disclosed is a method for producing single-stranded DNA probes. In this embodiment, single-stranded gapped DNA, produced as described above, is contacted with a DNA polymerase in the presence of labeled nucleotides to fill in the gap. This DNA is then linearized by digestion with a restriction enzyme which cuts outside the DNA segment of interest. The product of this digestion is then denatured to produce a labeled single-stranded nucleic acid probe.

  18. Plants having modified response to ethylene by transformation with an ETR nucleic acid

    DOE Patents [OSTI]

    Meyerowitz, Elliott M.; Chang, Caren; Bleecker, Anthony B.

    2001-01-01

    The invention includes transformed plants having at least one cell transformed with a modified ETR nucleic acid. Such plants have a phenotype characterized by a decrease in the response of at least one transformed plant cell to ethylene as compared to a plant not containing the transformed plant cell. Tissue and/or temporal specificity for expression of the modified ETR nucleic acid is controlled by selecting appropriate expression regulation sequences to target the location and/or time of expression of the transformed nucleic acid. The plants are made by transforming at least one plant cell with an appropriate modified ETR nucleic acid, regenerating plants from one or more of the transformed plant cells and selecting at least one plant having the desired phenotype.

  19. Detection and isolation of nucleic acid sequences using a bifunctional hybridization probe

    DOE Patents [OSTI]

    Lucas, Joe N. (San Ramon, CA); Straume, Tore (Tracy, CA); Bogen, Kenneth T. (Walnut Creek, CA)

    2000-01-01

    A method for detecting and isolating a target sequence in a sample of nucleic acids is provided using a bifunctional hybridization probe capable of hybridizing to the target sequence that includes a detectable marker and a first complexing agent capable of forming a binding pair with a second complexing agent. A kit is also provided for detecting a target sequence in a sample of nucleic acids using a bifunctional hybridization probe according to this method.

  20. 5'to 3' nucleic acid synthesis using 3'-photoremovable protecting group

    DOE Patents [OSTI]

    Pirrung, Michael C.; Shuey, Steven W.; Bradley, Jean-Claude

    1999-01-01

    The present invention relates, in general, to a method of synthesizing a nucleic acid, and, in particular, to a method of effecting 5' to 3' nucleic acid synthesis. The method can be used to prepare arrays of oligomers bound to a support via their 5' end. The invention also relates to a method of effecting mutation analysis using such arrays. The invention further relates to compounds and compositions suitable for use in such methods.

  1. 5[prime] to 3[prime] nucleic acid synthesis using 3[prime]-photoremovable protecting group

    DOE Patents [OSTI]

    Pirrung, M.C.; Shuey, S.W.; Bradley, J.C.

    1999-06-01

    The present invention relates, in general, to a method of synthesizing a nucleic acid, and, in particular, to a method of effecting 5[prime] to 3[prime] nucleic acid synthesis. The method can be used to prepare arrays of oligomers bound to a support via their 5[prime] end. The invention also relates to a method of effecting mutation analysis using such arrays. The invention further relates to compounds and compositions suitable for use in such methods.

  2. Detection and isolation of nucleic acid sequences using competitive hybridization probes

    DOE Patents [OSTI]

    Lucas, J.N.; Straume, T.; Bogen, K.T.

    1997-04-01

    A method for detecting a target nucleic acid sequence in a sample is provided using hybridization probes which competitively hybridize to a target nucleic acid. According to the method, a target nucleic acid sequence is hybridized to first and second hybridization probes which are complementary to overlapping portions of the target nucleic acid sequence, the first hybridization probe including a first complexing agent capable of forming a binding pair with a second complexing agent and the second hybridization probe including a detectable marker. The first complexing agent attached to the first hybridization probe is contacted with a second complexing agent, the second complexing agent being attached to a solid support such that when the first and second complexing agents are attached, target nucleic acid sequences hybridized to the first hybridization probe become immobilized on to the solid support. The immobilized target nucleic acids are then separated and detected by detecting the detectable marker attached to the second hybridization probe. A kit for performing the method is also provided. 7 figs.

  3. Detection and isolation of nucleic acid sequences using competitive hybridization probes

    DOE Patents [OSTI]

    Lucas, Joe N. (San Ramon, CA); Straume, Tore (Tracy, CA); Bogen, Kenneth T. (Walnut Creek, CA)

    1997-01-01

    A method for detecting a target nucleic acid sequence in a sample is provided using hybridization probes which competitively hybridize to a target nucleic acid. According to the method, a target nucleic acid sequence is hybridized to first and second hybridization probes which are complementary to overlapping portions of the target nucleic acid sequence, the first hybridization probe including a first complexing agent capable of forming a binding pair with a second complexing agent and the second hybridization probe including a detectable marker. The first complexing agent attached to the first hybridization probe is contacted with a second complexing agent, the second complexing agent being attached to a solid support such that when the first and second complexing agents are attached, target nucleic acid sequences hybridized to the first hybridization probe become immobilized on to the solid support. The immobilized target nucleic acids are then separated and detected by detecting the detectable marker attached to the second hybridization probe. A kit for performing the method is also provided.

  4. Label-free functional nucleic acid sensors for detecting target agents

    SciTech Connect (OSTI)

    Lu, Yi; Xiang, Yu

    2015-01-13

    A general methodology to design label-free fluorescent functional nucleic acid sensors using a vacant site approach and an abasic site approach is described. In one example, a method for designing label-free fluorescent functional nucleic acid sensors (e.g., those that include a DNAzyme, aptamer or aptazyme) that have a tunable dynamic range through the introduction of an abasic site (e.g., dSpacer) or a vacant site into the functional nucleic acids. Also provided is a general method for designing label-free fluorescent aptamer sensors based on the regulation of malachite green (MG) fluorescence. A general method for designing label-free fluorescent catalytic and molecular beacons (CAMBs) is also provided. The methods demonstrated here can be used to design many other label-free fluorescent sensors to detect a wide range of analytes. Sensors and methods of using the disclosed sensors are also provided.

  5. Methods and kits for nucleic acid analysis using fluorescence resonance energy transfer

    DOE Patents [OSTI]

    Kwok, Pui-Yan; Chen, Xiangning

    1999-01-01

    A method for detecting the presence of a target nucleotide or sequence of nucleotides in a nucleic acid is disclosed. The method is comprised of forming an oligonucleotide labeled with two fluorophores on the nucleic acid target site. The doubly labeled oligonucleotide is formed by addition of a singly labeled dideoxynucleoside triphosphate to a singly labeled polynucleotide or by ligation of two singly labeled polynucleotides. Detection of fluorescence resonance energy transfer upon denaturation indicates the presence of the target. Kits are also provided. The method is particularly applicable to genotyping.

  6. Nucleic acids encoding modified human immunodeficiency virus type 1 (HIV-1) group M consensus envelope glycoproteins

    DOE Patents [OSTI]

    Haynes, Barton F.; Gao, Feng; Korber, Bette T.; Hahn, Beatrice H.; Shaw, George M.; Kothe, Denise; Li, Ying Ying; Decker, Julie; Liao, Hua-Xin

    2011-12-06

    The present invention relates, in general, to an immunogen and, in particular, to an immunogen for inducing antibodies that neutralizes a wide spectrum of HIV primary isolates and/or to an immunogen that induces a T cell immune response. The invention also relates to a method of inducing anti-HIV antibodies, and/or to a method of inducing a T cell immune response, using such an immunogen. The invention further relates to nucleic acid sequences encoding the present immunogens.

  7. Nucleic acid molecules conferring enhanced ethanol tolerance and microorganisms having enhanced tolerance to ethanol

    DOE Patents [OSTI]

    Brown, Steven; Guss, Adam; Yang, Shihui; Karpinets, Tatiana; Lynd, Lee; Shao, Xiongjun

    2014-01-14

    The present invention provides isolated nucleic acid molecules which encode a mutant acetaldehyde-CoA/alcohol dehydrogenase or mutant alcohol dehydrogenase and confer enhanced tolerance to ethanol. The invention also provides related expression vectors, genetically engineered microorganisms having enhanced tolerance to ethanol, as well as methods of making and using such genetically modified microorganisms for production of biofuels based on fermentation of biomass materials.

  8. Replica amplification of nucleic acid arrays (Patent) | SciTech...

    Office of Scientific and Technical Information (OSTI)

    7,785,790 US patent application 11745,806 DOE Contract Number: FG02-87ER60565 Resource Type: Patent Research Org: President and Fellows of Harvard College (Cambridge, MA)...

  9. Nucleic Acid Encoding A Lectin-Derived Progenitor Cell Preservation Factor

    DOE Patents [OSTI]

    Colucci, M. Gabriella; Chrispeels, Maarten J.; Moore, Jeffrey G.

    2001-10-30

    The invention relates to an isolated nucleic acid molecule that encodes a protein that is effective to preserve progenitor cells, such as hematopoietic progenitor cells. The nucleic acid comprises a sequence defined by SEQ ID NO:1, a homolog thereof, or a fragment thereof. The encoded protein has an amino acid sequence that comprises a sequence defined by SEQ ID NO:2, a homolog thereof, or a fragment thereof that contains an amino acid sequence TNNVLQVT. Methods of using the encoded protein for preserving progenitor cells in vitro, ex vivo, and in vivo are also described. The invention, therefore, include methods such as myeloablation therapies for cancer treatment wherein myeloid reconstitution is facilitated by means of the specified protein. Other therapeutic utilities are also enabled through the invention, for example, expanding progenitor cell populations ex vivo to increase chances of engraftation, improving conditions for transporting and storing progenitor cells, and facilitating gene therapy to treat and cure a broad range of life-threatening hematologic diseases.

  10. Modified pseudomonas oleovorans phaC1 nucleic acids encoding bispecific polyhydroxyalkanoate polymerase

    DOE Patents [OSTI]

    Srienc, Friedrich; Jackson, John K.; Somers, David A.

    2000-01-01

    A genetically engineered Pseudomonas oleovorans phaC1 polyhydroxyalkanoate (PHA) polymerase having tailored substrate specificity is provided. The modified PHA polymerase is preferably a "bispecific" PHA polymerase capable of copolymerizing a short chain length monomer and a medium chain length monomer is provided. Methods for making the modified PHA polymerase and for making nucleic acids encoding the modified PHA polymerase are also disclosed, as are methods of producing PHA using the modified PHA polymerase. The invention further includes methods to assay for altered substrate specificity.

  11. Nucleic acid encoding DS-CAM proteins and products related thereto

    DOE Patents [OSTI]

    Korenberg, Julie R.

    2005-11-01

    In accordance with the present invention, there are provided Down Syndrome-Cell Adhesion Molecule (DS-CAM) proteins. Nucleic acid sequences encoding such proteins and assays employing same are also disclosed. The invention DS-CAM proteins can be employed in a variety of ways, for example, for the production of anti-DS-CAM antibodies thereto, in therapeutic compositions and methods employing such proteins and/or antibodies. DS-CAM proteins are also useful in bioassays to identify agonists and antagonists thereto.

  12. Nucleic acids encoding plant glutamine phenylpyruvate transaminase (GPT) and uses thereof

    DOE Patents [OSTI]

    Unkefer, Pat J.; Anderson, Penelope S.; Knight, Thomas J.

    2016-03-29

    Glutamine phenylpyruvate transaminase (GPT) proteins, nucleic acid molecules encoding GPT proteins, and uses thereof are disclosed. Provided herein are various GPT proteins and GPT gene coding sequences isolated from a number of plant species. As disclosed herein, GPT proteins share remarkable structural similarity within plant species, and are active in catalyzing the synthesis of 2-hydroxy-5-oxoproline (2-oxoglutaramate), a powerful signal metabolite which regulates the function of a large number of genes involved in the photosynthesis apparatus, carbon fixation and nitrogen metabolism.

  13. Method for high-volume sequencing of nucleic acids: random and directed priming with libraries of oligonucleotides

    DOE Patents [OSTI]

    Studier, F. William

    1995-04-18

    Random and directed priming methods for determining nucleotide sequences by enzymatic sequencing techniques, using libraries of primers of lengths 8, 9 or 10 bases, are disclosed. These methods permit direct sequencing of nucleic acids as large as 45,000 base pairs or larger without the necessity for subcloning. Individual primers are used repeatedly to prime sequence reactions in many different nucleic acid molecules. Libraries containing as few as 10,000 octamers, 14,200 nonamers, or 44,000 decamers would have the capacity to determine the sequence of almost any cosmid DNA. Random priming with a fixed set of primers from a smaller library can also be used to initiate the sequencing of individual nucleic acid molecules, with the sequence being completed by directed priming with primers from the library. In contrast to random cloning techniques, a combined random and directed priming strategy is far more efficient.

  14. Method for high-volume sequencing of nucleic acids: random and directed priming with libraries of oligonucleotides

    DOE Patents [OSTI]

    Studier, F.W.

    1995-04-18

    Random and directed priming methods for determining nucleotide sequences by enzymatic sequencing techniques, using libraries of primers of lengths 8, 9 or 10 bases, are disclosed. These methods permit direct sequencing of nucleic acids as large as 45,000 base pairs or larger without the necessity for subcloning. Individual primers are used repeatedly to prime sequence reactions in many different nucleic acid molecules. Libraries containing as few as 10,000 octamers, 14,200 nonamers, or 44,000 decamers would have the capacity to determine the sequence of almost any cosmid DNA. Random priming with a fixed set of primers from a smaller library can also be used to initiate the sequencing of individual nucleic acid molecules, with the sequence being completed by directed priming with primers from the library. In contrast to random cloning techniques, a combined random and directed priming strategy is far more efficient. 2 figs.

  15. Aptamer- and nucleic acid enzyme-based systems for simultaneous detection of multiple analytes

    DOE Patents [OSTI]

    Lu, Yi; Liu, Juewen

    2011-11-15

    The present invention provides aptamer- and nucleic acid enzyme-based systems for simultaneously determining the presence and optionally the concentration of multiple analytes in a sample. Methods of utilizing the system and kits that include the sensor components are also provided. The system includes a first reactive polynucleotide that reacts to a first analyte; a second reactive polynucleotide that reacts to a second analyte; a third polynucleotide; a fourth polynucleotide; a first particle, coupled to the third polynucleotide; a second particle, coupled to the fourth polynucleotide; and at least one quencher, for quenching emissions of the first and second quantum dots, coupled to the first and second reactive polynucleotides. The first particle includes a quantum dot having a first emission wavelength. The second particle includes a second quantum dot having a second emission wavelength different from the first emission wavelength. The third polynucleotide and the fourth polynucleotide are different.

  16. Methods of combined bioprocessing and related microorganisms, thermophilic and/or acidophilic enzymes, and nucleic acids encoding said enzymes

    DOE Patents [OSTI]

    Thompson, David N; Apel, William A; Thompson, Vicki S; Ward, Thomas E

    2014-04-08

    A genetically modified organism comprising: at least one nucleic acid sequence and/or at least one recombinant nucleic acid isolated from Alicyclobacillus acidocaldarius and encoding a polypeptide involved in at least partially degrading, cleaving, transporting, metabolizing, or removing polysaccharides, cellulose, lignocellulose, hemicellulose, lignin, starch, sugars, sugar oligomers, carbohydrates, complex carbohydrates, chitin, heteroxylans, glycosides, xylan-, glucan-, galactan-, or mannan-decorating groups; and at least one nucleic acid sequence and/or at least one recombinant nucleic acid encoding a polypeptide involved in fermenting sugar molecules to a product. Additionally, enzymatic and/or proteinaceous extracts may be isolated from one or more genetically modified organisms. The extracts are utilized to convert biomass into a product. Further provided are methods of converting biomass into products comprising: placing the genetically modified organism and/or enzymatic extracts thereof in fluid contact with polysaccharides, cellulose, lignocellulose, hemicellulose, lignin, starch, sugars, sugar oligomers, carbohydrates, complex carbohydrates, chitin, heteroxylans, glycosides, and/or xylan-, glucan-, galactan-, or mannan-decorating groups.

  17. Methods of combined bioprocessing and related microorganisms, thermophilic and/or acidophilic enzymes, and nucleic acids encoding said enzymes

    DOE Patents [OSTI]

    Thompson, David N.; Apel, William A.; Thompson, Vicki S.; Ward, Thomas E.

    2016-03-22

    A genetically modified organism comprising: at least one nucleic acid sequence and/or at least one recombinant nucleic acid isolated from Alicyclobacillus acidocaldarius and encoding a polypeptide involved in at least partially degrading, cleaving, transporting, metabolizing, or removing polysaccharides, cellulose, lignocellulose, hemicellulose, lignin, starch, sugars, sugar oligomers, carbohydrates, complex carbohydrates, chitin, heteroxylans, glycosides, xylan-, glucan-, galactan-, or mannan-decorating groups; and at least one nucleic acid sequence and/or at least one recombinant nucleic acid encoding a polypeptide involved in fermenting sugar molecules to a product. Additionally, enzymatic and/or proteinaceous extracts may be isolated from one or more genetically modified organisms. The extracts are utilized to convert biomass into a product. Further provided are methods of converting biomass into products comprising: placing the genetically modified organism and/or enzymatic extracts thereof in fluid contact with polysaccharides, cellulose, lignocellulose, hemicellulose, lignin, starch, sugars, sugar oligomers, carbohydrates, complex carbohydrates, chitin, heteroxylans, glycosides, and/or xylan-, glucan-, galactan-, or mannan-decorating groups.

  18. Methods of combined bioprocessing and related microorganisms, thermophilic and/or acidophilic enzymes, and nucleic acids encoding said enzymes

    DOE Patents [OSTI]

    Thompson, David N; Apel, William A; Thompson, Vicki S; Ward, Thomas E

    2013-07-23

    A genetically modified organism comprising: at least one nucleic acid sequence and/or at least one recombinant nucleic acid isolated from Alicyclobacillus acidocaldarius and encoding a polypeptide involved in at least partially degrading, cleaving, transporting, metabolizing, or removing polysaccharides, cellulose, lignocellulose, hemicellulose, lignin, starch, sugars, sugar oligomers, carbohydrates, complex carbohydrates, chitin, heteroxylans, glycosides, xylan-, glucan-, galactan-, or mannan-decorating groups; and at least one nucleic acid sequence and/or at least one recombinant nucleic acid encoding a polypeptide involved in fermenting sugar molecules to a product. Additionally, enzymatic and/or proteinaceous extracts may be isolated from one or more genetically modified organisms. The extracts are utilized to convert biomass into a product. Further provided are methods of converting biomass into products comprising: placing the genetically modified organism and/or enzymatic extracts thereof in fluid contact with polysaccharides, cellulose, lignocellulose, hemicellulose, lignin, starch, sugars, sugar oligomers, carbohydrates, complex carbohydrates, chitin, heteroxylans, glycosides, and/or xylan-, glucan-, galactan-, or mannan-decorating groups.

  19. Repeat sequence chromosome specific nucleic acid probes and methods of preparing and using

    DOE Patents [OSTI]

    Weier, Heinz-Ulrich G.; Gray, Joe W.

    1995-01-01

    A primer directed DNA amplification method to isolate efficiently chromosome-specific repeated DNA wherein degenerate oligonucleotide primers are used is disclosed. The probes produced are a heterogeneous mixture that can be used with blocking DNA as a chromosome-specific staining reagent, and/or the elements of the mixture can be screened for high specificity, size and/or high degree of repetition among other parameters. The degenerate primers are sets of primers that vary in sequence but are substantially complementary to highly repeated nucleic acid sequences, preferably clustered within the template DNA, for example, pericentromeric alpha satellite repeat sequences. The template DNA is preferably chromosome-specific. Exemplary primers ard probes are disclosed. The probes of this invention can be used to determine the number of chromosomes of a specific type in metaphase spreads, in germ line and/or somatic cell interphase nuclei, micronuclei and/or in tissue sections. Also provided is a method to select arbitrarily repeat sequence probes that can be screened for chromosome-specificity.

  20. Repeat sequence chromosome specific nucleic acid probes and methods of preparing and using

    DOE Patents [OSTI]

    Weier, H.U.G.; Gray, J.W.

    1995-06-27

    A primer directed DNA amplification method to isolate efficiently chromosome-specific repeated DNA wherein degenerate oligonucleotide primers are used is disclosed. The probes produced are a heterogeneous mixture that can be used with blocking DNA as a chromosome-specific staining reagent, and/or the elements of the mixture can be screened for high specificity, size and/or high degree of repetition among other parameters. The degenerate primers are sets of primers that vary in sequence but are substantially complementary to highly repeated nucleic acid sequences, preferably clustered within the template DNA, for example, pericentromeric alpha satellite repeat sequences. The template DNA is preferably chromosome-specific. Exemplary primers and probes are disclosed. The probes of this invention can be used to determine the number of chromosomes of a specific type in metaphase spreads, in germ line and/or somatic cell interphase nuclei, micronuclei and/or in tissue sections. Also provided is a method to select arbitrarily repeat sequence probes that can be screened for chromosome-specificity. 18 figs.

  1. Human retroviruses and AIDS 1996. A compilation and analysis of nucleic acid and amino acid sequences

    SciTech Connect (OSTI)

    Myers, G.; Foley, B.; Korber, B.; Mellors, J.W.; Jeang, K.T.; Wain-Hobson, S.

    1997-04-01

    This compendium and the accompanying floppy diskettes are the result of an effort to compile and rapidly publish all relevant molecular data concerning the human immunodeficiency viruses (HIV) and related retroviruses. The scope of the compendium and database is best summarized by the five parts that it comprises: (1) Nuclear Acid Alignments and Sequences; (2) Amino Acid Alignments; (3) Analysis; (4) Related Sequences; and (5) Database Communications. Information within all the parts is updated throughout the year on the Web site, http://hiv-web.lanl.gov. While this publication could take the form of a review or sequence monograph, it is not so conceived. Instead, the literature from which the database is derived has simply been summarized and some elementary computational analyses have been performed upon the data. Interpretation and commentary have been avoided insofar as possible so that the reader can form his or her own judgments concerning the complex information. In addition to the general descriptions of the parts of the compendium, the user should read the individual introductions for each part.

  2. Nucleic Acid-Based Detection and Identification of Bacterial and Fungal Plant Pathogens - Final Report

    SciTech Connect (OSTI)

    Kingsley, Mark T.

    2001-03-13

    The threat to American interests from terrorists is not limited to attacks against humans. Terrorists might seek to inflict damage to the U.S. economy by attacking our agricultural sector. Infection of commodity crops by bacterial or fungal crop pathogens could adversely impact U.S. agriculture, either directly from damage to crops or indirectly from damage to our ability to export crops suspected of contamination. Recognizing a terrorist attack against U.S. agriculture, to be able to prosecute the terrorists, is among the responsibilities of the members of Hazardous Material Response Unit (HMRU) of the Federal Bureau of Investigation (FBI). Nucleic acid analysis of plant pathogen strains by the use of polymerase chain reaction (PCR) amplification techniques is a powerful method for determining the exact identity of pathogens, as well as their possible region of origin. This type of analysis, however, requires that PCR assays be developed specific to each particular pathogen strain, and analysis protocols developed that are specific to the particular instrument used for detection. The objectives of the work described here were threefold: 1) to assess the potential terrorist threat to U.S. agricultural crops, 2) to determine whether suitable assays exist to monitor that threat, and 3) where assays are needed for priority plant pathogen threats, to modify or develop those assays for use by specialists at the HMRU. The assessment of potential threat to U.S. commodity crops and the availability of assays for those threats were described in detail in the Technical Requirements Document (9) and will be summarized in this report. This report addresses development of specific assays identified in the Technical Requirements Document, and offers recommendations for future development to ensure that HMRU specialists will be prepared with the PCR assays they need to protect against the threat of economic terrorism.

  3. Nucleic Acid-Based Detection and Identification of Bacterial and Fungal Plant Pathogens - Final Report

    SciTech Connect (OSTI)

    Kingsley, Mark T

    2001-03-13

    The threat to American interests from terrorists is not limited to attacks against humans. Terrorists might seek to inflict damage to the U.S. economy by attacking our agricultural sector. Infection of commodity crops by bacterial or fungal crop pathogens could adversely impact U.S. agriculture, either directly from damage to crops or indirectly from damage to our ability to export crops suspected of contamination. Recognizing a terrorist attack against U.S. agriculture, to be able to prosecute the terrorists, is among the responsibilities of the members of Hazardous Material Response Unit (HMRU) of the Federal Bureau of Investigation (FBI). Nucleic acid analysis of plant pathogen strains by the use of polymerase chain reaction (PCR) amplification techniques is a powerful method for determining the exact identity of pathogens, as well as their possible region of origin. This type of analysis, however, requires that PCR assays be developed specific to each particular pathogen strain, an d analysis protocols developed that are specific to the particular instrument used for detection. The objectives of the work described here were threefold: (1) to assess the potential terrorist threat to U.S. agricultural crops, (2) to determine whether suitable assays exist to monitor that threat, and (3) where assays are needed for priority plant pathogen threats, to modify or develop those assays for use by specialists at the HMRU. The assessment of potential threat to U.S. commodity crops and the availability of assays for those threats were described in detail in the Technical Requirements Document (9) and will be summarized in this report. This report addresses development of specific assays identified in the Technical Requirements Document, and offers recommendations for future development to ensure that HMRU specialists will be prepared with the PCR assays they need to protect against the threat of economic terrorism.

  4. Nucleic acid sequences encoding D1 and D1/D2 domains of human coxsackievirus and adenovirus receptor (CAR)

    DOE Patents [OSTI]

    Freimuth, Paul I.

    2010-04-06

    The invention provides recombinant human CAR (coxsackievirus and adenovirus receptor) polypeptides which bind adenovirus. Specifically, polypeptides corresponding to adenovirus binding domain D1 and the entire extracellular domain of human CAR protein comprising D1 and D2 are provided. In another aspect, the invention provides nucleic acid sequences encoding these domains and expression vectors for producing the domains and bacterial cells containing such vectors. The invention also includes an isolated fusion protein comprised of the D1 polypeptide fused to a polypeptide which facilitates folding of D1 when expressed in bacteria. The functional D1 domain finds application in a therapeutic method for treating a patient infected with a CAR D1-binding virus, and also in a method for identifying an antiviral compound which interferes with viral attachment. The invention also provides a method for specifically targeting a cell for infection by a virus which binds to D1.

  5. Preparation of Nucleic Acid Libraries for Personalized Sequencing Systems Using an Integrated Microfluidic Hub Technology (Seventh Annual Sequencing, Finishing, Analysis in the Future (SFAF) Meeting 2012)

    ScienceCinema (OSTI)

    Patel, Kamlesh D [Ken]; SNL,

    2013-01-25

    Kamlesh (Ken) Patel from Sandia National Laboratories (Livermore, California) presents "Preparation of Nucleic Acid Libraries for Personalized Sequencing Systems Using an Integrated Microfluidic Hub Technology " at the 7th Annual Sequencing, Finishing, Analysis in the Future (SFAF) Meeting held in June, 2012 in Santa Fe, NM.

  6. Nucleic acid molecules encoding isopentenyl monophosphate kinase, and methods of use

    DOE Patents [OSTI]

    Croteau, Rodney B.; Lange, Bernd M.

    2001-01-01

    A cDNA encoding isopentenyl monophosphate kinase (IPK) from peppermint (Mentha x piperita) has been isolated and sequenced, and the corresponding amino acid sequence has been determined. Accordingly, an isolated DNA sequence (SEQ ID NO:1) is provided which codes for the expression of isopentenyl monophosphate kinase (SEQ ID NO:2), from peppermint (Mentha x piperita). In other aspects, replicable recombinant cloning vehicles are provided which code for isopentenyl monophosphate kinase, or for a base sequence sufficiently complementary to at least a portion of isopentenyl monophosphate kinase DNA or RNA to enable hybridization therewith. In yet other aspects, modified host cells are provided that have been transformed, transfected, infected and/or injected with a recombinant cloning vehicle and/or DNA sequence encoding isopentenyl monophosphate kinase. Thus, systems and methods are provided for the recombinant expression of the aforementioned recombinant isopentenyl monophosphate kinase that may be used to facilitate its production, isolation and purification in significant amounts. Recombinant isopentenyl monophosphate kinase may be used to obtain expression or enhanced expression of isopentenyl monophosphate kinase in plants in order to enhance the production of isopentenyl monophosphate kinase, or isoprenoids derived therefrom, or may be otherwise employed for the regulation or expression of isopentenyl monophosphate kinase, or the production of its products.

  7. Nucleic and amino acid sequences relating to a novel transketolase, and methods for the expression thereof

    DOE Patents [OSTI]

    Croteau, Rodney Bruce; Wildung, Mark Raymond; Lange, Bernd Markus; McCaskill, David G.

    2001-01-01

    cDNAs encoding 1-deoxyxylulose-5-phosphate synthase from peppermint (Mentha piperita) have been isolated and sequenced, and the corresponding amino acid sequences have been determined. Accordingly, isolated DNA sequences (SEQ ID NO:3, SEQ ID NO:5, SEQ ID NO:7) are provided which code for the expression of 1-deoxyxylulose-5-phosphate synthase from plants. In another aspect the present invention provides for isolated, recombinant DXPS proteins, such as the proteins having the sequences set forth in SEQ ID NO:4, SEQ ID NO:6 and SEQ ID NO:8. In other aspects, replicable recombinant cloning vehicles are provided which code for plant 1-deoxyxylulose-5-phosphate synthases, or for a base sequence sufficiently complementary to at least a portion of 1-deoxyxylulose-5-phosphate synthase DNA or RNA to enable hybridization therewith. In yet other aspects, modified host cells are provided that have been transformed, transfected, infected and/or injected with a recombinant cloning vehicle and/or DNA sequence encoding a plant 1-deoxyxylulose-5-phosphate synthase. Thus, systems and methods are provided for the recombinant expression of the aforementioned recombinant 1-deoxyxylulose-5-phosphate synthase that may be used to facilitate its production, isolation and purification in significant amounts. Recombinant 1-deoxyxylulose-5-phosphate synthase may be used to obtain expression or enhanced expression of 1-deoxyxylulose-5-phosphate synthase in plants in order to enhance the production of 1-deoxyxylulose-5-phosphate, or its derivatives such as isopentenyl diphosphate (BP), or may be otherwise employed for the regulation or expression of 1-deoxyxylulose-5-phosphate synthase, or the production of its products.

  8. Nucleic acid biosensors

    DOE Patents [OSTI]

    Lu, Yi; Liu, Juewen

    2009-11-03

    Sensors comprising aptazymes capable of detecting the presence and concentration of effectors, as well as methods of using such sensors, are disclosed.

  9. Nucleic acid indexing

    DOE Patents [OSTI]

    Guilfoyle, Richard A.; Guo, Zhen

    1999-01-01

    A restriction site indexing method for selectively amplifying any fragment generated by a Class II restriction enzyme includes adaptors specific to fragment ends containing adaptor indexing sequences complementary to fragment indexing sequences near the termini of fragments generated by Class II enzyme cleavage. A method for combinatorial indexing facilitates amplification of restriction fragments whose sequence is not known.

  10. Nucleic acid indexing

    DOE Patents [OSTI]

    Guilfoyle, Richard A.; Guo, Zhen

    2001-01-01

    A restriction site indexing method for selectively amplifying any fragment generated by a Class II restriction enzyme includes adaptors specific to fragment ends containing adaptor indexing sequences complementary to fragment indexing sequences near the termini of fragments generated by Class II enzyme cleavage. A method for combinatorial indexing facilitates amplification of restriction fragments whose sequence is not known.

  11. Nucleic acid isolation

    DOE Patents [OSTI]

    Longmire, J.L.; Lewis, A.K.; Hildebrand, C.E.

    1988-01-21

    A method is provided for isolating DNA from eukaryotic cell and flow sorted chromosomes. When DNA is removed from chromosome and cell structure, detergent and proteolytic digestion products remain with the DNA. These products can be removed with organic extraction, but the process steps associated with organic extraction reduces the size of DNA fragments available for experimental use. The present process removes the waste products by dialyzing a solution containing the DNA against a solution containing polyethylene glycol (PEG). The waste products dialyze into the PEG leaving isolated DNA. The remaining DNA has been prepared with fragments containing more than 160 kb. The isolated DNA has been used in conventional protocols without effect on the protocol.

  12. Nucleic acid isolation process

    DOE Patents [OSTI]

    Longmire, Jonathan L.; Lewis, Annette K.; Hildebrand, Carl E.

    1990-01-01

    A method is provided for isolating DNA from eukaryotic cell and flow sorted chromosomes. When DNA is removed from chromosome and cell structure, detergent and proteolytic digestion products remain with the DNA. These products can be removed with organic extraction, but the process steps associated with organic extraction reduce the size of DNA fragments available for experimental use. The present process removes the waste products by dialyzing a solution containing the DNA against a solution containing polyethylene glycol (PEG). The waste products dialyze into the PEG leaving isolated DNA. The remaining DNA has been prepared with fragments containing more than 160 kb. The isolated DNA has been used in conventional protocols without affect on the protocol.

  13. Synthesis, Improved Antisense Activity and Structural Rationale for the Divergent RNA Affinities of 3;#8242;-Fluoro Hexitol Nucleic Acid (FHNA and Ara-FHNA) Modified Oligonucleotides

    SciTech Connect (OSTI)

    Egli, Martin; Pallan, Pradeep S.; Allerson, Charles R.; Prakash, Thazha P.; Berdeja, Andres; Yu, Jinghua; Lee, Sam; Watt, Andrew; Gaus, Hans; Bhat, Balkrishen; Swayze, Eric E.; Seth, Punit P.

    2012-03-16

    The synthesis, biophysical, structural, and biological properties of both isomers of 3'-fluoro hexitol nucleic acid (FHNA and Ara-FHNA) modified oligonucleotides are reported. Synthesis of the FHNA and Ara-FHNA thymine phosphoramidites was efficiently accomplished starting from known sugar precursors. Optimal RNA affinities were observed with a 3'-fluorine atom and nucleobase in a trans-diaxial orientation. The Ara-FHNA analog with an equatorial fluorine was found to be destabilizing. However, the magnitude of destabilization was sequence-dependent. Thus, the loss of stability is sharply reduced when Ara-FHNA residues were inserted at pyrimidine-purine (Py-Pu) steps compared to placement within a stretch of pyrimidines (Py-Py). Crystal structures of A-type DNA duplexes modified with either monomer provide a rationalization for the opposing stability effects and point to a steric origin of the destabilization caused by the Ara-FHNA analog. The sequence dependent effect can be explained by the formation of an internucleotide C-F {hor_ellipsis} H-C pseudo hydrogen bond between F3' of Ara-FHNA and C8-H of the nucleobase from the 3'-adjacent adenosine that is absent at Py-Py steps. In animal experiments, FHNA-modified antisense oligonucleotides formulated in saline showed a potent downregulation of gene expression in liver tissue without producing hepatotoxicity. Our data establish FHNA as a useful modification for antisense therapeutics and also confirm the stabilizing influence of F(Py) {hor_ellipsis} H-C(Pu) pseudo hydrogen bonds in nucleic acid structures.

  14. Accumulated SET protein up-regulates and interacts with hnRNPK, increasing its binding to nucleic acids, the Bcl-xS repression, and cellular proliferation

    SciTech Connect (OSTI)

    Almeida, Luciana O.; Garcia, Cristiana B.; Matos-Silva, Flavia A.; Curti, Carlos; Leopoldino, Andria M.

    2014-02-28

    Highlights: hnRNPK is a new target of SET. SET regulates hnRNPK. SET and hnRNPK accumulation promotes tumorigenesis. SET accumulation is a potential model to study genes regulated by SET-hnRNPK. - Abstract: SET and hnRNPK are proteins involved in gene expression and regulation of cellular signaling. We previously demonstrated that SET accumulates in head and neck squamous cell carcinoma (HNSCC); hnRNPK is a prognostic marker in cancer. Here, we postulate that SET and hnRNPK proteins interact to promote tumorigenesis. We performed studies in HEK293 and HNSCC (HN6, HN12, and HN13) cell lines with SET/hnRNPK overexpression and knockdown, respectively. We found that SET and/or hnRNPK protein accumulation increased cellular proliferation. SET accumulation up-regulated hnRNPK mRNA and total/phosphorylated protein, promoted hnRNPK nuclear location, and reduced Bcl-x mRNA levels. SET protein directly interacted with hnRNPK, increasing both its binding to nucleic acids and Bcl-xS repression. We propose that hnRNPK should be a new target of SET and that SEThnRNPK interaction, in turn, has potential implications in cell survival and malignant transformation.

  15. Structural Rationalization of a Large Difference in RNA Affinity Despite a Small Difference in Chemistry between Two 2'-O-Modified Nucleic Acid Analogs

    SciTech Connect (OSTI)

    Pattanayek, R.; Sethaphong, L.; Pan, C.; Prhavc, M.; Prakash, T.P.; Manoharan, M.; Egli, M.

    2010-03-08

    Chemical modification of nucleic acids at the 2'-position of ribose has generated antisense oligonucleotides (AONs) with a range of desirable properties. Electron-withdrawing substituents such as 2'-O-[2-(methoxy)ethyl] (MOE) confer enhanced RNA affinity relative to that of DNA by conformationally preorganizing an AON for pairing with the RNA target and by improving backbone hydration. 2'-Substitution of the ribose has also been shown to increase nuclease resistance and cellular uptake via changes in lipophilicity. Interestingly, incorporation of either 2'-O-[2-(methylamino)-2-oxoethyl]- (NMA) or 2'-O-(N-methylcarbamate)-modified (NMC) residues into AONs has divergent effects on RNA affinity. Incorporation of 2'-O-NMA-T considerably improves RNA affinity while incorporation of 2'-O-NMC-T drastically reduces RNA affinity. Crystal structures at high resolution of A-form DNA duplexes containing either 2'-O-NMA-T or 2'-O-NMC-T shed light on the structural origins of the surprisingly large difference in stability given the relatively minor difference in chemistry between NMA and NMC. NMA substituents adopt an extended conformation and use either their carbonyl oxygen or amino nitrogen to trap water molecules between phosphate group and sugar. The conformational properties of NMA and the observed hydration patterns are reminiscent of those found in the structures of 2'-O-MOE-modified RNA. Conversely, the carbonyl oxygen of NMC and O2 of T are in close contact, providing evidence that an unfavorable electrostatic interaction and the absence of a stable water structure are the main reasons for the loss in thermodynamic stability as a result of incorporation of 2'-O-NMC-modified residues.

  16. Final Scientific/Technical Report, DE-FG02-06ER64171, Integrated Nucleic Acid System for In-Field Monitoring of Microbial Community Dynamics and Metabolic Activity – Subproject to Co-PI Eric E. Roden

    SciTech Connect (OSTI)

    Eric E. Roden

    2009-07-08

    This report summarizes research conducted in conjunction with a project entitled “Integrated Nucleic Acid System for In-Field Monitoring of Microbial Community Dynamics and Metabolic Activity”, which was funded through the Integrative Studies Element of the former NABIR Program (now the Environmental Remediation Sciences Program) within the Office of Biological and Environmental Research. Dr. Darrell Chandler (originally at Argonne National Laboratory, now with Akonni Biosystems) was the overall PI/PD for the project. The overall project goals were to (1) apply a model iron-reducer and sulfate-reducer microarray and instrumentation systems to sediment and groundwater samples from the Scheibe et al. FRC Area 2 field site, UMTRA sediments, and other DOE contaminated sites; (2) continue development and expansion of a 16S rRNA/rDNA¬-targeted probe suite for microbial community dynamics as new sequences are obtained from DOE-relevant sites; and (3) address the fundamental molecular biology and analytical chemistry associated with the extraction, purification and analysis of functional genes and mRNA in environmental samples. Work on the UW subproject focused on conducting detailed batch and semicontinuous culture reactor experiments with uranium-contaminated FRC Area 2 sediment. The reactor experiments were designed to provide coherent geochemical and microbiological data in support of microarray analyses of microbial communities in Area 2 sediments undergoing biostimulation with ethanol. A total of four major experiments were conducted (one batch and three semicontinuous culture), three of which (the batch and two semicontinuous culture) provided samples for DNA microarray analysis. A variety of other molecular analyses (clone libraries, 16S PhyloChip, RT-PCR, and T-RFLP) were conducted on parallel samples from the various experiments in order to provide independent information on microbial community response to biostimulation.

  17. Method of increasing conversion of a fatty acid to its corresponding dicarboxylic acid

    DOE Patents [OSTI]

    Craft, David L.; Wilson, C. Ron; Eirich, Dudley; Zhang, Yeyan

    2004-09-14

    A nucleic acid sequence including a CYP promoter operably linked to nucleic acid encoding a heterologous protein is provided to increase transcription of the nucleic acid. Expression vectors and host cells containing the nucleic acid sequence are also provided. The methods and compositions described herein are especially useful in the production of polycarboxylic acids by yeast cells.

  18. Human Retroviruses and AIDS. A compilation and analysis of nucleic acid and amino acid sequences: I--II; III--V

    SciTech Connect (OSTI)

    Myers, G.; Korber, B.; Wain-Hobson, S.; Smith, R.F.; Pavlakis, G.N.

    1993-12-31

    This compendium and the accompanying floppy diskettes are the result of an effort to compile and rapidly publish all relevant molecular data concerning the human immunodeficiency viruses (HIV) and related retroviruses. The scope of the compendium and database is best summarized by the five parts that it comprises: (I) HIV and SIV Nucleotide Sequences; (II) Amino Acid Sequences; (III) Analyses; (IV) Related Sequences; and (V) Database Communications. Information within all the parts is updated at least twice in each year, which accounts for the modes of binding and pagination in the compendium.

  19. Nucleic acids encoding a cellulose binding domain

    DOE Patents [OSTI]

    Shoseyov, O.; Shpiegl, I.; Goldstein, M.A.; Doi, R.H.

    1996-03-05

    A cellulose binding domain (CBD) having a high affinity for crystalline cellulose and chitin is disclosed, along with methods for the molecular cloning and recombinant production. Fusion products comprising the CBD and a second protein are likewise described. A wide range of applications are contemplated for both the CBD and the fusion products, including drug delivery, affinity separations, and diagnostic techniques. 15 figs.

  20. Nucleic acids encoding a cellulose binding domain

    DOE Patents [OSTI]

    Shoseyov, Oded; Shpiegl, Itai; Goldstein, Marc A.; Doi, Roy H.

    1996-01-01

    A cellulose binding domain (CBD) having a high affinity for crystalline cellulose and chitin is disclosed, along with methods for the molecular cloning and recombinant production thereof. Fusion products comprising the CBD and a second protein are likewise described. A wide range of applications are contemplated for both the CBD and the fusion products, including drug delivery, affinity separations, and diagnostic techniques.

  1. Diagnostic method employing MSH2 nucleic acids

    DOE Patents [OSTI]

    de la Chapelle, Albert; Vogelstein, Bert; Kinzler, Kenneth W.

    1997-01-01

    The human MSH2 gene, responsible for hereditary non-polyposis colorectal cancer, was identified by virtue of its homology to the MutS class of genes, which are involved in DNA mismatch repair. The sequence of cDNA clones of the human gene are provided, and the sequence of the gene can be used to demonstrate the existence of germ line mutations in hereditary non-polyposis colorectal cancer (HNPCC) kindreds, as well as in replication error.sup.+ (RER.sup.+) tumor cells.

  2. Diagnostic method employing MSH2 nucleic acids

    DOE Patents [OSTI]

    Chapelle, A. de la; Vogelstein, B.; Kinzler, K.W.

    1997-12-02

    The human MSH2 gene, responsible for hereditary non-polyposis colorectal cancer, was identified by virtue of its homology to the MutS class of genes, which are involved in DNA mismatch repair. The sequence of cDNA clones of the human gene are provided, and the sequence of the gene can be used to demonstrate the existence of germ line mutations in hereditary non-polyposis colorectal cancer (HNPCC) kindreds, as well as in replication error{sup +}(RER{sup +}) tumor cells. 19 figs.

  3. Analysis and Annotation of Nucleic Acid Sequence

    SciTech Connect (OSTI)

    States, David J.

    2004-07-28

    The aims of this project were to develop improved methods for computational genome annotation and to apply these methods to improve the annotation of genomic sequence data with a specific focus on human genome sequencing. The project resulted in a substantial body of published work. Notable contributions of this project were the identification of basecalling and lane tracking as error processes in genome sequencing and contributions to improved methods for these steps in genome sequencing. This technology improved the accuracy and throughput of genome sequence analysis. Probabilistic methods for physical map construction were developed. Improved methods for sequence alignment, alternative splicing analysis, promoter identification and NF kappa B response gene prediction were also developed.

  4. Piperazine-based nucleic acid analogs

    DOE Patents [OSTI]

    Schmidt, Jurgen; Silks, Louis A.; Michalczyk, Ryszard

    2005-01-11

    A novel nucleoside analog is disclosed which comprises a piperazine ring in the place of the ring ribose or deoxyribose sugar. Monomers utilizing a broad variety of nucleobases are disclosed, as well as oligomers comprising the monomers disclosed herein linked by a variety of linkages, including amide, phosphonamide, and sulfonamide linkages. A method of synthesizing the nucleoside analogs is also disclosed.

  5. Fatty acid-producing hosts

    DOE Patents [OSTI]

    Pfleger, Brian F; Lennen, Rebecca M

    2013-12-31

    Described are hosts for overproducing a fatty acid product such as a fatty acid. The hosts include an exogenous nucleic acid encoding a thioesterase and, optionally, an exogenous nucleic acid encoding an acetyl-CoA carboxylase, wherein an acyl-CoA synthetase in the hosts are functionally delected. The hosts prefereably include the nucleic acid encoding the thioesterase at an intermediate copy number. The hosts are preferably recominantly stable and growth-competent at 37.degree. C. Methods of producing a fatty acid product comprising culturing such hosts at 37.degree. C. are also described.

  6. Methods for immobilizing nucleic acids on a gel substrate

    DOE Patents [OSTI]

    Mirzabekov, Andrei Darievich; Proudnikov, Dimitri Y.; Timofeev, Edward N.; Kochetkova, Svetlana V.; Florentiev, Vladimir L.; Shick, Valentine V.

    1999-01-01

    A method for labeling oligonucleotide molecules, and for immobilizing oligonucleotide and DNA molecules is provided comprising modifying the molecules to create a chemically active group, and contacting activated fluorescent dyes to the region. A method for preparing an immobilization substrate is also provided comprising modifying a gel to contain desired functional groups which covalently interact with certain moieties of the oligonucleotide molecules. A method for immobilizing biomolecules and other molecules within a gel by copolymerization of allyl-substituted oligonucleotides, DNA and proteins with acrylamide is also provided.

  7. Rapid microfluidic thermal cycler for nucleic acid amplification

    DOE Patents [OSTI]

    Beer, Neil Reginald; Vafai, Kambiz

    2015-11-06

    A system for thermal cycling a material to be thermal cycled including a microfluidic heat exchanger; a porous medium in the microfluidic heat exchanger; a microfluidic thermal cycling chamber containing the material to be thermal cycled, the microfluidic thermal cycling chamber operatively connected to the microfluidic heat exchanger; a working fluid at first temperature; a first system for transmitting the working fluid at first temperature to the microfluidic heat exchanger; a working fluid at a second temperature, a second system for transmitting the working fluid at second temperature to the microfluidic heat exchanger; a pump for flowing the working fluid at the first temperature from the first system to the microfluidic heat exchanger and through the porous medium; and flowing the working fluid at the second temperature from the second system to the heat exchanger and through the porous medium.

  8. Method for replicating an array of nucleic acid probes

    DOE Patents [OSTI]

    Cantor, C.R.; Przetakiewicz, M.; Smith, C.L.; Sano, T.

    1998-08-18

    The invention relates to the replication of probe arrays and methods for replicating arrays of probes which are useful for the large scale manufacture of diagnostic aids used to screen biological samples for specific target sequences. Arrays created using PCR technology may comprise probes with 5{prime}- and/or 3{prime}-overhangs. 16 figs.

  9. Rapid microfluidic thermal cycler for nucleic acid amplification

    DOE Patents [OSTI]

    Beer, Neil Reginald; Vafai, Kambiz

    2015-10-27

    A system for thermal cycling a material to be thermal cycled including a microfluidic heat exchanger; a porous medium in the microfluidic heat exchanger; a microfluidic thermal cycling chamber containing the material to be thermal cycled, the microfluidic thermal cycling chamber operatively connected to the microfluidic heat exchanger; a working fluid at first temperature; a first system for transmitting the working fluid at first temperature to the microfluidic heat exchanger; a working fluid at a second temperature, a second system for transmitting the working fluid at second temperature to the microfluidic heat exchanger; a pump for flowing the working fluid at the first temperature from the first system to the microfluidic heat exchanger and through the porous medium; and flowing the working fluid at the second temperature from the second system to the heat exchanger and through the porous medium.

  10. Methods for separating particles and/or nucleic acids usingisotachoph...

    Office of Scientific and Technical Information (OSTI)

    Other methods of isotachophoresis are disclosed in addition to these. Authors: Jung, Byoungsok ; Ness, Kevin ; Rose, Klint A. Publication Date: 2016-03-15 OSTI Identifier: 1243046 ...

  11. Method for replicating an array of nucleic acid probes

    DOE Patents [OSTI]

    Cantor, Charles R.; Przetakiewicz, Marek; Smith, Cassandra L.; Sano, Takeshi

    1998-01-01

    The invention relates to the replication of probe arrays and methods for replicating arrays of probes which are useful for the large scale manufacture of diagnostic aids used to screen biological samples for specific target sequences. Arrays created using PCR technology may comprise probes with 5'- and/or 3'-overhangs.

  12. Digital microfluidic hub for automated nucleic acid sample preparation.

    SciTech Connect (OSTI)

    He, Jim; Bartsch, Michael S.; Patel, Kamlesh D.; Kittlaus, Eric A.; Remillared, Erin M.; Pezzola, Genevieve L.; Renzi, Ronald F.; Kim, Hanyoup

    2010-07-01

    We have designed, fabricated, and characterized a digital microfluidic (DMF) platform to function as a central hub for interfacing multiple lab-on-a-chip sample processing modules towards automating the preparation of clinically-derived DNA samples for ultrahigh throughput sequencing (UHTS). The platform enables plug-and-play installation of a two-plate DMF device with consistent spacing, offers flexible connectivity for transferring samples between modules, and uses an intuitive programmable interface to control droplet/electrode actuations. Additionally, the hub platform uses transparent indium-tin oxide (ITO) electrodes to allow complete top and bottom optical access to the droplets on the DMF array, providing additional flexibility for various detection schemes.

  13. Procurement of State-of-the-Art Research Equipment to Support Faculty Members Within the RNAi Therapeutics Institute

    SciTech Connect (OSTI)

    Terence Flotte, MD; Patricia McNulty

    2010-06-29

    This project funded the procurement of state-of-the-art research equipment to support world class faculty members within the RNAi Therapeutics Institute, a central program of the Advanced Therapeutics Cluster (ATC) project. The equipment purchased under this grant supports the RNA Therapeutics Institute (RTI) at the University of Massachusetts Medical School which seeks to build a community of scientists passionate about RNA. By uniting researchers studying the fundamental biology and mechanisms of cellular RNAs with those working to devise human therapies using or targeting nucleic acids, the RTI represents a new model for scientific exploration. By interweaving basic and applied nucleic acid scientists with clinicians dedicated to finding new cures, our goal is to create a new paradigm for organizing molecular research that enables the rapid application of new biological discoveries to solutions for unmet challenges in human health.

  14. Plant fatty acid hydroxylase

    DOE Patents [OSTI]

    Somerville, Chris; van de Loo, Frank

    2000-01-01

    The present invention relates to the identification of nucleic acid sequences and constructs, and methods related thereto, and the use of these sequences and constructs to produce genetically modified plants for the purpose of altering the composition of plant oils, waxes and related compounds.

  15. Thermal and acid tolerant beta-xylosidases, genes encoding, related organisms, and methods

    DOE Patents [OSTI]

    Thompson, David N.; Thompson, Vicki S.; Schaller, Kastli D.; Apel, William A.; Lacey, Jeffrey A.; Reed, David W.

    2011-04-12

    Isolated and/or purified polypeptides and nucleic acid sequences encoding polypeptides from Alicyclobacillus acidocaldarius and variations thereof are provided. Further provided are methods of at least partially degrading xylotriose and/or xylobiose using isolated and/or purified polypeptides and nucleic acid sequences encoding polypeptides from Alicyclobacillus acidocaldarius and variations thereof.

  16. Thermal and acid tolerant beta xylosidases, arabinofuranosidases, genes encoding, related organisms, and methods

    DOE Patents [OSTI]

    Thompson, David N; Thompson, Vicki S; Schaller, Kastli D; Apel, William A; Reed, David W; Lacey, Jeffrey A

    2013-04-30

    Isolated and/or purified polypeptides and nucleic acid sequences encoding polypeptides from Alicyclobacillus acidocaldarius and variations thereof are provided. Further provided are methods of at least partially degrading xylotriose, xylobiose, and/or arabinofuranose-substituted xylan using isolated and/or purified polypeptides and nucleic acid sequences encoding polypeptides from Alicyclobacillus acidocaldarius and variations thereof.

  17. Colon Cancer Mapping | GE Global Research

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    "With GE's cancer mapping technology, we're enabling cancer to be viewed in ways it ... of proteins and nucleic acids (RNA and DNA) without destroying the integrity of the ...

  18. Producing dicarboxylic acids using polyketide synthases

    DOE Patents [OSTI]

    Katz, Leonard; Fortman, Jeffrey L; Keasling, Jay D

    2013-10-29

    The present invention provides for a polyketide synthase (PKS) capable of synthesizing a dicarboxylic acid (diacid). Such diacids include diketide-diacids and triketide-diacids. The invention includes recombinant nucleic acid encoding the PKS, and host cells comprising the PKS. The invention also includes methods for producing the diacids.

  19. Producing dicarboxylic acids using polyketide synthases

    DOE Patents [OSTI]

    Katz, Leonard; Fortman, Jeffrey L.; Keasling, Jay D.

    2015-05-26

    The present invention provides for a polyketide synthase (PKS) capable of synthesizing a dicarboxylic acid (diacid). Such diacids include diketide-diacids and triketide-diacids. The invention includes recombinant nucleic acid encoding the PKS, and host cells comprising the PKS. The invention also includes methods for producing the diacids.

  20. Research

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Isotopes produced at Los Alamos National Laboratory are saving lives, advancing cutting-edge research and keeping the U.S. safe. Research thorium test foil A thorium test foil ...

  1. Research

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Research Research Isotopes produced at Los Alamos National Laboratory are saving lives, advancing cutting-edge research and keeping the U.S. safe. Research thorium test foil A thorium test foil target for proof-of-concept actinium-225 production In addition to our routine isotope products, the LANL Isotope Program is focused on developing the next suite of isotopes and services to meet the Nation's emerging needs. The LANL Isotope Program's R&D strategy is focused on four main areas (see

  2. Research

    SciTech Connect (OSTI)

    1999-10-01

    Subjects covered in this section are: (1) PCAST panel promotes energy research cooperation; (2) Letter issued by ANS urges funding balance in FFTF restart consideration and (3) FESAC panel releases report on priorities and balance.

  3. Mutant fatty acid desaturase

    DOE Patents [OSTI]

    Shanklin, John; Cahoon, Edgar B.

    2004-02-03

    The present invention relates to a method for producing mutants of a fatty acid desaturase having a substantially increased activity towards fatty acid substrates with chains containing fewer than 18 carbons relative to an unmutagenized precursor desaturase having an 18 carbon atom chain length substrate specificity. The method involves inducing one or more mutations in the nucleic acid sequence encoding the precursor desaturase, transforming the mutated sequence into an unsaturated fatty acid auxotroph cell such as MH13 E. coli, culturing the cells in the absence of supplemental unsaturated fatty acids, thereby selecting for recipient cells which have received and which express a mutant fatty acid desaturase with an elevated specificity for fatty acid substrates having chain lengths of less than 18 carbon atoms. A variety of mutants having 16 or fewer carbon atom chain length substrate specificities are produced by this method. Mutant desaturases produced by this method can be introduced via expression vectors into prokaryotic and eukaryotic cells and can also be used in the production of transgenic plants which may be used to produce specific fatty acid products.

  4. Sample Prep, Workflow Automation and Nucleic Acid Fractionation for Next Generation Sequencing

    SciTech Connect (OSTI)

    Roskey, Mark

    2010-06-03

    Mark Roskey of Caliper LifeSciences discusses how the company's technologies fit into the next generation sequencing workflow on June 3, 2010 at the "Sequencing, Finishing, Analysis in the Future" meeting in Santa Fe, NM

  5. Method for the detection of specific nucleic acid sequences by polymerase nucleotide incorporation

    DOE Patents [OSTI]

    Castro, Alonso

    2004-06-01

    A method for rapid and efficient detection of a target DNA or RNA sequence is provided. A primer having a 3'-hydroxyl group at one end and having a sequence of nucleotides sufficiently homologous with an identifying sequence of nucleotides in the target DNA is selected. The primer is hybridized to the identifying sequence of nucleotides on the DNA or RNA sequence and a reporter molecule is synthesized on the target sequence by progressively binding complementary nucleotides to the primer, where the complementary nucleotides include nucleotides labeled with a fluorophore. Fluorescence emitted by fluorophores on single reporter molecules is detected to identify the target DNA or RNA sequence.

  6. Nucleic acid encoding a self-assembling split-fluorescent protein system

    DOE Patents [OSTI]

    Waldo, Geoffrey S.; Cabantous, Stephanie

    2015-07-14

    The invention provides a protein labeling and detection system based on self-complementing fragments of fluorescent and chromophoric proteins. The system of the invention is exemplified with various combinations of self-complementing fragments derived from Aequorea victoria Green Fluorescent Protein (GFP), which are used to detect and quantify protein solubility in multiple assay formats, both in vitro and in vivo.

  7. Nucleic acid encoding a self-assembling split-fluorescent protein system

    DOE Patents [OSTI]

    Waldo, Geoffrey S; Cabantous, Stephanie

    2014-04-01

    The invention provides a protein labeling and detection system based on self-complementing fragments of fluorescent and chromophoric proteins. The system of the invention is exemplified with various combinations of self-complementing fragments derived from Aequorea victoria Green Fluorescent Protein (GFP), which are used to detect and quantify protein solubility in multiple assay formats, both in vitro and in vivo.

  8. Disposable and removable nucleic acid extraction and purification cartridges for automated flow-through systems

    DOE Patents [OSTI]

    Regan, John Frederick

    2014-09-09

    Removable cartridges are used on automated flow-through systems for the purpose of extracting and purifying genetic material from complex matrices. Different types of cartridges are paired with specific automated protocols to concentrate, extract, and purifying pathogenic or human genetic material. Their flow-through nature allows large quantities sample to be processed. Matrices may be filtered using size exclusion and/or affinity filters to concentrate the pathogen of interest. Lysed material is ultimately passed through a filter to remove the insoluble material before the soluble genetic material is delivered past a silica-like membrane that binds the genetic material, where it is washed, dried, and eluted. Cartridges are inserted into the housing areas of flow-through automated instruments, which are equipped with sensors to ensure proper placement and usage of the cartridges. Properly inserted cartridges create fluid- and air-tight seals with the flow lines of an automated instrument.

  9. Modified SSCP method using sequential electrophoresis of multiple nucleic acid segments

    DOE Patents [OSTI]

    Gatti, Richard A.

    2002-10-01

    The present invention is directed to a method of screening large, complex, polyexonic eukaryotic genes such as the ATM gene for mutations and polymorphisms by an improved version of single strand conformation polymorphism (SSCP) electrophoresis that allows electrophoresis of two or three amplified segments in a single lane. The present invention also is directed to new mutations and polymorphisms in the ATM gene that are useful in performing more accurate screening of human DNA samples for mutations and in distinguishing mutations from polymorphisms, thereby improving the efficiency of automated screening methods.

  10. Xylanases, nucleic acids encoding them and methods for making and using them

    DOE Patents [OSTI]

    Gray, Kevin A; Dirmeier, Reinhard

    2013-07-16

    The invention relates to enzymes having xylanase, mannanase and/or glucanase activity, e.g., catalyzing hydrolysis of internal .beta.-1,4-xylosidic linkages or endo-.beta.-1,4-glucanase linkages; and/or degrading a linear polysaccharide beta-1,4-xylan into xylose. Thus, the invention provides methods and processes for breaking down hemicellulose, which is a major component of the cell wall of plants, including methods and processes for hydrolyzing hemicelluloses in any plant or wood or wood product, wood waste, paper pulp, paper product or paper waste or byproduct. In addition, methods of designing new xylanases, mannanases and/or glucanases and methods of use thereof are also provided. The xylanases, mannanases and/or glucanases have increased activity and stability at increased pH and temperature.

  11. Y chromosome specific nucleic acid probe and method for identifying the Y chromosome in SITU

    DOE Patents [OSTI]

    Gray, J.W.; Weier, H.U.

    1999-03-30

    A method for producing a Y chromosome specific probe selected from highly repeating sequences on that chromosome is described. There is little or no nonspecific binding to autosomal and X chromosomes, and a very large signal is provided. Inventive primers allowing the use of PCR for both sample amplification and probe production are described, as is their use in producing large DNA chromosome painting sequences. 9 figs.

  12. Cellulases, nucleic acids encoding them and methods for making and using them

    DOE Patents [OSTI]

    Blum, David; Gemsch Cuenca, Joslin; Dycaico, Mark

    2013-04-23

    This invention relates to molecular and cellular biology and biochemistry. In one aspect, the invention provides polypeptides having cellulase activity, e.g., endoglucanase, cellobiohydrolase, mannanase and/or .beta.-glucosidase activity, polynucleotides encoding these polypeptides, and methods of making and using these polynucleotides and polypeptides. In one aspect, the invention is directed to polypeptides cellulase activity, e.g., endoglucanase, cellobiohydrolase, mannanase and/or .beta.-glucosidase activity, including thermostable and thermotolerant activity, and polynucleotides encoding these enzymes, and making and using these polynucleotides and polypeptides. The polypeptides of the invention can be used in a variety of pharmaceutical, agricultural, food and feed processing and industrial contexts.

  13. Three- and four-body nonadditivities in nucleic acid tetramers: a CCSD(T) study

    SciTech Connect (OSTI)

    Pitonak, Michal; Neogrady, Pavel; Hobza, Pavel

    2009-12-18

    Three- and four-body nonadditivities in the uracil tetramer (in DNA-like geometry) and the GC step (in crystal geometry) were investigated at various levels of the wave-function theory: HF, MP2, MP3, L-CCD, CCSD and CCSD(T). All of the calculations were performed using the 6-31G**(0.25,0.15) basis set, whereas the HF, MP2 and the MP3 nonadditivities were, for the sake of comparison, also determined with the much larger aug-cc-pVDZ basis set. The HF and MP2 levels do not provide reliable values for many-body terms, making it necessary to go beyond the MP2 level. The benchmark CCSD(T) three- and four-body nonadditivities are reasonably well reproduced at the MP3 level, and almost quantitative agreement is obtained (fortuitously) either on the L-CCD level or as an average of the MP3 and the CCSD results. Reliable values of many-body terms (especially their higher-order correlation contributions) are obtained already when the rather small 6-31G**(0.25,0.15) basis set is used. The four-body term is much smaller when compared to the three-body terms, but it is definitely not negligible, e.g. in the case of the GC step it represents about 16% of all of the three- and four-body terms. While investigating the geometry dependence of many-body terms for the GG step at the MP3/6-31G**(0.25,0.15) level, we found that it is necessary to include at least three-body terms in the determination of optimal geometry parameters.

  14. BGL7 beta-glucosidase and nucleic acids encoding the same

    DOE Patents [OSTI]

    Dunn-Coleman, Nigel; Ward, Michael

    2012-03-13

    The present invention provides BGL7 polypeptides with the biological activity of a .beta.-glucosidase and a method of producing a recombinant enzyme having .beta.-glucosidase activity.

  15. Nucleic acid encoding a self-assembling split-fluorescent protein system

    DOE Patents [OSTI]

    Waldo, Geoffrey S.; Cabantous, Stephanie

    2011-06-07

    The invention provides a protein labeling and detection system based on self-complementing fragments of fluorescent and chromophoric proteins. The system of the invention is exemplified with various combinations of self-complementing fragments derived from Aequorea victoria Green Fluorescent Protein (GFP), which are used to detect and quantify protein solubility in multiple assay formats, both in vitro and in vivo.

  16. Nucleic acids encoding phloem small RNA-binding proteins and transgenic plants comprising them

    DOE Patents [OSTI]

    Lucas, William J.; Yoo, Byung-Chun; Lough, Tony J.; Varkonyi-Gasic, Erika

    2007-03-13

    The present invention provides a polynucleotide sequence encoding a component of the protein machinery involved in small RNA trafficking, Cucurbita maxima phloem small RNA-binding protein (CmPSRB 1), and the corresponding polypeptide sequence. The invention also provides genetic constructs and transgenic plants comprising the polynucleotide sequence encoding a phloem small RNA-binding protein to alter (e.g., prevent, reduce or elevate) non-cell autonomous signaling events in the plants involving small RNA metabolism. These signaling events are involved in a broad spectrum of plant physiological and biochemical processes, including, for example, systemic resistance to pathogens, responses to environmental stresses, e.g., heat, drought, salinity, and systemic gene silencing (e.g., viral infections).

  17. Amplification of trace amounts of nucleic acids (Patent) | SciTech...

    Office of Scientific and Technical Information (OSTI)

    background can be reduced by judicious design of primers. We have shown clean signal-to-noise with as little as starting material as one single human cell (.about.6...

  18. Y chromosome specific nucleic acid probe and method for determining the Y chromosome in situ

    DOE Patents [OSTI]

    Gray, Joe W.; Weier, Heinz-Ulrich

    2001-01-01

    A method for producing a Y chromosome specific probe selected from highly repeating sequences on that chromosome is described. There is little or no nonspecific binding to autosomal and X chromosomes, and a very large signal is provided. Inventive primers allowing the use of PCR for both sample amplification and probe production are described, as is their use in producing large DNA chromosome painting sequences.

  19. Y chromosome specific nucleic acid probe and method for determining the Y chromosome in situ

    DOE Patents [OSTI]

    Gray, J.W.; Weier, H.U.

    1998-11-24

    A method for producing a Y chromosome specific probe selected from highly repeating sequences on that chromosome is described. There is little or no nonspecific binding to autosomal and X chromosomes, and a very large signal is provided. Inventive primers allowing the use of PCR for both sample amplification and probe production are described, as is their use in producing large DNA chromosome painting sequences. 9 figs.

  20. Y chromosome specific nucleic acid probe and method for identifying the Y chromosome in SITU

    DOE Patents [OSTI]

    Gray, Joe W.; Weier, Heinz-Ulrich

    1999-01-01

    A method for producing a Y chromosome specific probe selected from highly repeating sequences on that chromosome is described. There is little or no nonspecific binding to autosomal and X chromosomes, and a very large signal is provided. Inventive primers allowing the use of PCR for both sample amplification and probe production are described, as is their use in producing large DNA chromosome painting sequences.

  1. Y chromosome specific nucleic acid probe and method for determining the Y chromosome in situ

    DOE Patents [OSTI]

    Gray, Joe W.; Weier, Heinz-Ulrich

    1998-01-01

    A method for producing a Y chromosome specific probe selected from highly repeating sequences on that chromosome is described. There is little or no nonspecific binding to autosomal and X chromosomes, and a very large signal is provided. Inventive primers allowing the use of PCR for both sample amplification and probe production are described, as is their use in producing large DNA chromosome painting sequences.

  2. Cellulolytic enzymes, nucleic acids encoding them and methods for making and using them

    DOE Patents [OSTI]

    Gray, Kevin A.; Zhao, Lishan; Cayouette, Michelle H.

    2012-01-24

    The invention provides polypeptides having any cellulolytic activity, e.g., a cellulase activity, a endoglucanase, a cellobiohydrolase, a beta-glucosidase, a xylanase, a mannanse, a .beta.-xylosidase, an arabinofuranosidase, and/or an oligomerase activity, polynucleotides encoding these polypeptides, and methods of making and using these polynucleotides and polypeptides. In one aspect, the invention is directed to polypeptides having any cellulolytic activity, e.g., a cellulase activity, e.g., endoglucanase, cellobiohydrolase, beta-glucosidase, xylanase, mannanse, .beta.-xylosidase, arabinofuranosidase, and/or oligomerase activity, including thermostable and thermotolerant activity, and polynucleotides encoding these enzymes, and making and using these polynucleotides and polypeptides. In one aspect, the invention provides polypeptides having an oligomerase activity, e.g., enzymes that convert recalcitrant soluble oligomers to fermentable sugars in the saccharification of biomass. The polypeptides of the invention can be used in a variety of pharmaceutical, agricultural, food and feed processing and industrial contexts. The invention also provides compositions or products of manufacture comprising mixtures of enzymes comprising at least one enzyme of this invention.

  3. Celluloytic enzymes, nucleic acids encoding them and methods for making and using them

    DOE Patents [OSTI]

    Gray, Kevin A; Zhao, Lishan; Cayouette, Michelle H

    2015-11-04

    The invention is directed to polypeptides having any cellulolytic activity, e.g., a cellulase activity, e.g., endoglucanase, cellobiohydrolase, beta-glucosidase, xylanase, mannanse, .beta.-xylosidase, arabinofuranosidase, and/or oligomerase activity, including thermostable and thermotolerant activity, and polynucleotides encoding these enzymes, and making and using these polynucleotides and polypeptides. The polypeptides of the invention can be used in a variety of pharmaceutical, agricultural, food and feed processing and industrial contexts. The invention also provides compositions or products of manufacture comprising mixtures of enzymes comprising at least one enzyme of this invention.

  4. Celluloytic enzymes, nucleic acids encoding them and methods for making and using them

    DOE Patents [OSTI]

    Gray, Kevin A.; Zhao, Lishan; Cayouette, Michelle H.

    2015-09-08

    The invention is directed to polypeptides having any cellulolytic activity, e.g., a cellulase activity, e.g., endoglucanase, cellobiohydrolase, beta-glucosidase, xylanase, mannanse, .beta.-xylosidase, arabinofuranosidase, and/or oligomerase activity, including thermostable and thermotolerant activity, and polynucleotides encoding these enzymes, and making and using these polynucleotides and polypeptides. The polypeptides of the invention can be used in a variety of pharmaceutical, agricultural, food and feed processing and industrial contexts. The invention also provides compositions or products of manufacture comprising mixtures of enzymes comprising at least one enzyme of this invention.

  5. Beta-alanine/alpha-ketoglutarate aminotransferase for 3-hydroxypropionic acid production

    DOE Patents [OSTI]

    Jessen, Holly Jean; Liao, Hans H.; Gort, Steven John; Selifonova, Olga V.

    2011-10-04

    The present disclosure provides novel beta-alanine/alpha ketoglutarate aminotransferase nucleic acid and protein sequences having increased biological activity. Also provided are cells containing such enzymes, as well as methods of their use, for example to produce malonyl semialdehyde and downstream products thereof, such as 3-hydroxypropionic acid and derivatives thereof.

  6. Beta-alanine/alpha-ketoglutarate aminotransferase for 3-hydroxypropionic acid production

    DOE Patents [OSTI]

    Jessen, Holly Jean; Liao, Hans H; Gort, Steven John; Selifonova, Olga V

    2014-11-18

    The present disclosure provides novel beta-alanine/alpha ketoglutarate aminotransferase nucleic acid and protein sequences having increased biological activity. Also provided are cells containing such enzymes, as well as methods of their use, for example to produce malonyl semialdehyde and downstream products thereof, such as 3-hydroxypropionic acid and derivatives thereof.

  7. Research and development of a phosphoric acid fuel cell/battery power source integrated in a test-bed bus. Final report

    SciTech Connect (OSTI)

    1996-05-30

    This project, the research and development of a phosphoric acid fuel cell/battery power source integrated into test-bed buses, began as a multi-phase U.S. Department of Energy (DOE) project in 1989. Phase I had a goal of developing two competing half-scale (25 kW) brassboard phosphoric acid fuel cell systems. An air-cooled and a liquid-cooled fuel cell system were developed and tested to verify the concept of using a fuel cell and a battery in a hybrid configuration wherein the fuel cell supplies the average power required for operating the vehicle and a battery supplies the `surge` or excess power required for acceleration and hill-climbing. Work done in Phase I determined that the liquid-cooled system offered higher efficiency.

  8. Research, development, and demonstration of lead-acid batteries for electric-vehicle propulsion. Annual report, 1980

    SciTech Connect (OSTI)

    Not Available

    1981-03-01

    The first development effort in improving lead-acid batteries fore electric vehicles was the improvement of electric vehicle batteries using flat pasted positive plates and the second was for a tubular long life positive plate. The investigation of 32 component variables based on a flat pasted positive plate configuration is described. The experiment tested 96 - six volt batteries for characterization at 0, 25, and 40/sup 0/C and for cycle life capability at the 3 hour discharge rate with a one cycle, to 80% DOD, per day regime. Four positive paste formulations were selected. Two commercially available microporous separators were used in conjunction with a layer of 0.076 mm thick glass mat. Two concentrations of battery grade sulfuric acid were included in the test to determine if an increase in concentration would improve the battery capacity sufficient to offset the added weight of the more concentrated solution. Two construction variations, 23 plate elements with outside negative plates and 23 plate elements with outside positive plates, were included. The second development effort was an experiment designed to study the relationship of 32 component variables based on a tubular positive plate configuration. 96-six volt batteries were tested at various discharge rates at 0, 25, and 40/sup 0/C along with cycle life testing at 80% DOD of the 3 hour rate. 75 batteries remain on cycle life testing with 17 batteries having in excess of 365 life cycles. Preliminary conclusions indicate: the tubular positive plate is far more capable of withstanding deep cycles than is the flat pasted plate; as presently designed 40 Whr/kg can not be achieved, since 37.7 Whr/kg was the best tubular data obtained; electrolyte circulation is impaired due to the tight element fit in the container; and a redesign is required to reduce the battery weight which will improve the Whr/kg value. This redesign is complete and new molds have been ordered.

  9. A roadmap for research on crassulacean acid metabolism (CAM) to enhance sustainable food and bioenergy production in a hotter, drier world

    DOE Public Access Gateway for Energy & Science Beta (PAGES Beta)

    Yang, Xiaohan; Cushman, John C.; Borland, Anne M.; Edwards, Erika; Wullschleger, Stan D.; Tuskan, Gerald A.; Owen, Nick; Griffiths, Howard; Smith, J. Andrew C.; Cestari De Paoli, Henrique; et al

    2015-01-01

    Crassulacean acid metabolism (CAM) is a specialized mode of photosynthesis that features nocturnal CO₂ uptake, facilitates increased water-use efficiency (WUE), and enables CAM plants to inhabit water-limited environments such as semi-arid deserts or seasonally dry forests. Human population growth and global climate change now present challenges for agricultural production systems to increase food, feed, forage, fiber, and fuel production. One approach to meet these challenges is to increase reliance on CAM crops, such as Agave and Opuntia, for biomass production on semi-arid, abandoned, marginal, or degraded agricultural lands. Major research efforts are now underway to assess the productivity of CAMmore » crop species and to harness the WUE of CAM by engineering this pathway into existing food and bioenergy crops. An improved understanding of CAM gained through intensive and expanded research efforts has potential for high returns on research investment in the foreseeable future. To help realize the potential of sustainable dryland agricultural systems, it is necessary to address scientific questions related to the genomic features, regulatory mechanisms, and evolution of CAM; CAM-into-C3 engineering; and the production of CAM crops. Answering these questions requires collaborative efforts to build infrastructure for CAM model systems, field trials, mutant collections, and data management.« less

  10. A roadmap for research on crassulacean acid metabolism (CAM) to enhance sustainable food and bioenergy production in a hotter, drier world

    SciTech Connect (OSTI)

    Yang, Xiaohan; Cushman, John C.; Borland, Anne M.; Edwards, Erika; Wullschleger, Stan D.; Tuskan, Gerald A.; Owen, Nick; Griffiths, Howard; Smith, J. Andrew C.; Cestari De Paoli, Henrique; Weston, David; Cottingham, Robert; Hartwell, James; Davis, Sarah C.; Silvera, Katia; Ming, Ray; Schlauch, Karen; Abraham, Paul E.; Stewart, J. Ryan; Guo, Hao -Bo; Nair, Sujithkumar S.; Ranjan, Priya; Palla, Kaitlin J.; Yin, Hengfu; Albion, Rebecca; Ha, Jungmin; Lim, Sung Don; Wone, Bernard W. M.; Yim, Won Cheol; Garcia, Travis; Mayer, Jesse A.; Petereit, Juli; Casey, Erin; Hettich, Robert L.; Ceusters, John; Ranjan, Priya; Palla, Kaitlin J.; Yin, Hengfu; Reyes-Garcia, Casandra; Andrade, Jose Luis; Freschi, Luciano; Beltran, Juan D.; Dever, Louisa V.; Boxall, Susanna F.; Waller, Jade; Davies, Jack; Bupphada, Phaitun; Kadu, Nirja; Winter, Klaus; Sage, Rowan F.; Aguilar, Cristobal N.; Schmutz, Jeremy; Jenkins, Jerry; Holtum, Joseph A.M.

    2015-07-07

    Crassulacean acid metabolism (CAM) is a specialized mode of photosynthesis that features nocturnal CO₂ uptake, facilitates increased water-use efficiency (WUE), and enables CAM plants to inhabit water-limited environments such as semi-arid deserts or seasonally dry forests. Human population growth and global climate change now present challenges for agricultural production systems to increase food, feed, forage, fiber, and fuel production. One approach to meet these challenges is to increase reliance on CAM crops, such as Agave and Opuntia, for biomass production on semi-arid, abandoned, marginal, or degraded agricultural lands. Major research efforts are now underway to assess the productivity of CAM crop species and to harness the WUE of CAM by engineering this pathway into existing food and bioenergy crops. An improved understanding of CAM gained through intensive and expanded research efforts has potential for high returns on research investment in the foreseeable future. To help realize the potential of sustainable dryland agricultural systems, it is necessary to address scientific questions related to the genomic features, regulatory mechanisms, and evolution of CAM; CAM-into-C3 engineering; and the production of CAM crops. Answering these questions requires collaborative efforts to build infrastructure for CAM model systems, field trials, mutant collections, and data management.

  11. Use of plant fatty acyl hydroxylases to produce hydroxylated fatty acids and derivatives in plants

    DOE Patents [OSTI]

    Somerville, Chris; van de Loo, Frank

    2002-01-01

    The present invention relates to the identification of nucleic acid sequences and constructs, and methods related thereto, and the use of these sequences and constructs to produce genetically modified plants for the purpose of altering the composition of plant oils, waxes and related compounds.

  12. Use of plant fatty acyl hydroxylases to produce hydroxylated fatty acids and derivatives in plants

    DOE Patents [OSTI]

    Somerville, C.; Loo, F. van de

    1998-09-01

    The present invention relates to the identification of nucleic acid sequences and constructs, and methods related thereto, and the use of these sequences and constructs to produce genetically modified plants for the purpose of altering the composition of plant oils, waxes and related compounds. 35 figs.

  13. Use of plant fatty acyl hydroxylases to produce hydroxylated fatty acids and derivatives in plants

    DOE Patents [OSTI]

    Somerville, Chris; van de Loo, Frank

    1998-01-01

    The present invention relates to the identification of nucleic acid sequences and constructs, and methods related thereto, and the use of these sequences and constructs to produce genetically modified plants for the purpose of altering the composition of plant oils, waxes and related compounds.

  14. Use of plant fatty acyl hydroxylases to produce hydroxylated fatty acids and derivatives in plants

    DOE Patents [OSTI]

    Somerville, Chris; van de Loo, Frank

    1997-01-01

    The present invention relates to the identification of nucleic acid sequences and constructs, and methods related thereto, and the use of these sequences and constructs to produce genetically modified plants for the purpose of altering the composition of plant oils, waxes and related compounds.

  15. Use of plant fatty acyl hydroxylases to produce hydroxylated fatty acids and derivatives in plants

    DOE Patents [OSTI]

    Somerville, C.; Loo, F. van de

    1997-09-16

    The present invention relates to the identification of nucleic acid sequences and constructs, and methods related thereto, and the use of these sequences and constructs to produce genetically modified plants for the purpose of altering the composition of plant oils, waxes and related compounds. 35 figs.

  16. Site specific incorporation of heavy atom-containing unnatural amino acids into proteins for structure determination

    DOE Patents [OSTI]

    Xie, Jianming; Wang, Lei; Wu, Ning; Schultz, Peter G.

    2008-07-15

    Translation systems and other compositions including orthogonal aminoacyl tRNA-synthetases that preferentially charge an orthogonal tRNA with an iodinated or brominated amino acid are provided. Nucleic acids encoding such synthetases are also described, as are methods and kits for producing proteins including heavy atom-containing amino acids, e.g., brominated or iodinated amino acids. Methods of determining the structure of a protein, e.g., a protein into which a heavy atom has been site-specifically incorporated through use of an orthogonal tRNA/aminoacyl tRNA-synthetase pair, are also described.

  17. Array of nucleic acid probes on biological chips for diagnosis of HIV and methods of using the same

    DOE Patents [OSTI]

    Chee, Mark; Gingeras, Thomas R.; Fodor, Stephen P. A.; Hubble, Earl A.; Morris, MacDonald S.

    1999-01-19

    The invention provides an array of oligonucleotide probes immobilized on a solid support for analysis of a target sequence from a human immunodeficiency virus. The array comprises at least four sets of oligonucleotide probes 9 to 21 nucleotides in length. A first probe set has a probe corresponding to each nucleotide in a reference sequence from a human immunodeficiency virus. A probe is related to its corresponding nucleotide by being exactly complementary to a subsequence of the reference sequence that includes the corresponding nucleotide. Thus, each probe has a position, designated an interrogation position, that is occupied by a complementary nucleotide to the corresponding nucleotide. The three additional probe sets each have a corresponding probe for each probe in the first probe set. Thus, for each nucleotide in the reference sequence, there are four corresponding probes, one from each of the probe sets. The three corresponding probes in the three additional probe sets are identical to the corresponding probe from the first probe or a subsequence thereof that includes the interrogation position, except that the interrogation position is occupied by a different nucleotide in each of the four corresponding probes.

  18. Isotopic Studies on Structure-function Relationships of Nucleic Acids and Enzymes. Three Year Progress Report, May 1972 -- October 1975

    DOE R&D Accomplishments [OSTI]

    Boyer, P. D.

    1975-01-01

    The most important accomplishments and major contributions are tabulated with citations to published work. The more important unpublished contributions deal with the early events in ATP formation by chloroplasts, energy linkage in reaction steps of oxidative phosphorylation, molecular integrity of parental DNA, bound pyrophosphate and {sup 18}O-exchanges by inorganic pyrophosphatase, and glutamine synthetase exchanges and mechanisms. These are being prepared for publication. (JSR)

  19. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    The Overambitious Other Carbon Submitter: Church, J., Pacific Northwest National Laboratory Area of Research: Aerosol Properties Working Group(s): Aerosol Life Cycle Journal Reference: Song C, M Gyawali, RA Zaveri, JE Shilling, and WP Arnott. 2013. "Light absorption by secondary organic aerosol from α-pinene: Effects of oxidants, seed aerosol acidity, and relative humidity." Journal of Geophysical Research - Atmospheres, 118, doi:10.1002/jgrd.50767. Time-dependent Mass Absorption

  20. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Pollution Changes Clouds' Ice Crystal Genesis Download a printable PDF Submitter: Kulkarni, G., Pacific Northwest National Laboratory Area of Research: Cloud Processes Working Group(s): Cloud Life Cycle Journal Reference: Kulkarni GR, K Zhang, C Zhao, M Nandasiri, V Shutthanandan, X Liu, L Berg, and J Fast. 2015. "Ice formation on nitric acid-coated dust particles: Laboratory and modeling studies." Journal of Geophysical Research - Atmospheres, 120(15), doi:10.1002/2014JD022637.

  1. Search for: All records | SciTech Connect

    Office of Scientific and Technical Information (OSTI)

    ... Methods for nucleic acid sequencing, nucleic acid assembly and nucleic acid synthesis are also provided. Full Text Available July 2013 Toxin-eating bacteria and bioremediation ...

  2. Methods and compounds for chemical ligation

    DOE Patents [OSTI]

    Church, George M.; Sismour, A. Michael

    2013-07-09

    Compositions and methods for chemical ligation are provided. Methods for nucleic acid sequencing, nucleic acid assembly and nucleic acid synthesis are also provided.

  3. The activity of CouR, a MarR family transcriptional regulator...

    Office of Scientific and Technical Information (OSTI)

    Altogether, our data point to a novel mechanism of action in which the ligand abrogates ... Type: Accepted Manuscript Journal Name: Nucleic Acids Research Additional Journal ...

  4. Lignin from Transgenic Poplar Is Easier to Process - Energy Innovation...

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Genetically engineering other species to contain this enzyme could lead to more easily ... the gene for FMT, the researchers introduced the nucleic acid sequence into poplar tissue. ...

  5. Analysis of Strand-Specific RNA-Seq Data Using Machine Learning...

    Office of Scientific and Technical Information (OSTI)

    Clostridium thermocellum using a machine-learning approach. ... Nucleic Acids Research; Journal ID: ISSN 0305-1048 ... Country of Publication: United States Language: English ...

  6. Fuel Cell Demonstration Project - 200 kW - Phosphoric Acid Fuel Cell Power Plant Located at the National Transportation Research Center: FINAL REPORT

    SciTech Connect (OSTI)

    Berry, JB

    2005-05-06

    Oak Ridge National Laboratory (ORNL) researches and develops distributed generation technology for the Department of Energy, Energy Efficiency and Renewable Energy Distributed Energy Program. This report describes installation and operation of one such distributed generation system, a United Technology Corporation fuel cell located at the National Transportation Research Center in Knoxville, Tennessee. Data collected from June 2003 to June of 2004, provides valuable insight regarding fuel cell-grid compatibility and the cost-benefit of the fuel cell operation. The NTRC fuel cell included a high-heat recovery option so that use of thermal energy improves project economics and improves system efficiency to 59% year round. During the year the fuel cell supplied a total of 834MWh to the NTRC and provided 300MBtu of hot water. Installation of the NTRC fuel cell was funded by the Distributed Energy Program with partial funding from the Department of Defense's Climate Change Fuel Cell Buy Down Program, administered by the National Energy Technology Laboratory. On-going operational expenses are funded by ORNL's utility budget and are paid from operational cost savings. Technical information and the benefit-cost of the fuel cell are both evaluated in this report and sister reports.

  7. Cost Effective Bioethanol via Acid Pretreatment of Corn Stover, Saccharification, and Conversion via a Novel Fermentation Organism: Cooperative Research and Development Final Report, CRADA Number: CRD-12-485

    SciTech Connect (OSTI)

    Dowe, N.

    2014-05-01

    This research program will convert acid pretreated corn stover to sugars at the National Renewable Energy Laboratory (NREL) and then transfer these sugars to Honda R&D and its partner the Green Earth Institute (GEI) for conversion to ethanol via a novel fermentation organism. In phase one, NREL will adapt its pretreatment and saccharification process to the unique attributes of this organism, and Honda R&D/GEI will increase the sugar conversion rate as well as the yield and titer of the resulting ethanol. In later phases, NREL, Honda R&D, and GEI will work together at NREL to optimize and scale-up to pilot-scale the Honda R&D/GEI bioethanol production process. The final stage will be to undertake a pilot-scale test at NREL of the optimized bioethanol conversion process.

  8. Research Techniques

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Research Techniques Research Techniques Print Coming Soon

  9. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Probing the Birth of New Particles Download a printable PDF Submitter: Wang, J., Brookhaven National Laboratory Area of Research: Aerosol Processes Working Group(s): Aerosol Life Cycle Journal Reference: Chen M, M Titcombe, J Jiang, C Jen, C Kuang, ML Fischer, FL Eisele, I Siepmann, DR Hanson, J Zhao, and PH McMurry. 2012. "Acid-base chemical reaction model for nucleation rates in the polluted atmospheric boundary layer." Proceedings of the National Academy of Sciences, 109(46),

  10. Hydroxycarboxylic acids and salts

    DOE Patents [OSTI]

    Kiely, Donald E; Hash, Kirk R; Kramer-Presta, Kylie; Smith, Tyler N

    2015-02-24

    Compositions which inhibit corrosion and alter the physical properties of concrete (admixtures) are prepared from salt mixtures of hydroxycarboxylic acids, carboxylic acids, and nitric acid. The salt mixtures are prepared by neutralizing acid product mixtures from the oxidation of polyols using nitric acid and oxygen as the oxidizing agents. Nitric acid is removed from the hydroxycarboxylic acids by evaporation and diffusion dialysis.

  11. Research Mentors

    Broader source: Energy.gov [DOE]

    Research mentors are scientists and engineers committed to support and guide the applicant's research activities during the Research Award. Research mentors must be currently conducting or...

  12. Postdoctoral Research Awards Annual Research Meeting: Sarah Hobdey |

    Office of Energy Efficiency and Renewable Energy (EERE) Indexed Site

    Department of Energy Sarah Hobdey Postdoctoral Research Awards Annual Research Meeting: Sarah Hobdey Poster Presentation at 2012 EERE Annual Research Meeting, Postdoctoral Research Awards, from the U.S. Department of Energy. PDF icon hobdeys_2012poster.pdf More Documents & Publications EERE Postdoctoral Research Awards Annual Meeting Posters Process Design and Economics for Biochemical Conversion of Lignocellulosic Biomass to Ethanol: Dilute-Acid Pretreatment and Enzymatic Hydrolysis of

  13. NREL: Wind Power Research - NREL Research Helps Convert Overabundant

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Methane into Useful Products NREL Research Helps Convert Overabundant Methane into Useful Products March 18, 2016 Photo of a fermentation vessel cultivating our bacteria to produce lactic acid. Using fermentation vessels such as the one pictured here, NREL researchers have discovered how to cultivate genetically engineered methanotrophic bacteria to produce lactic acid, a high-value precursor to bioplastics. Photo by Holly Smith, NREL Methane is Earth's second most abundant greenhouse gas

  14. Acid rain information book. Draft final report

    SciTech Connect (OSTI)

    1980-12-01

    Acid rain is one of the most widely publicized environmental issues of the day. The potential consequences of increasingly widespread acid rain demand that this phenomenon be carefully evaluated. Reveiw of the literature shows a rapidly growing body of knowledge, but also reveals major gaps in understanding that need to be narrowed. This document discusses major aspects of the acid rain phenomenon, points out areas of uncertainty, and summarizes current and projected research by responsible government agencies and other concerned organizations.

  15. Acid fracturing of carbonate gas reservoirs in Sichuan

    SciTech Connect (OSTI)

    Meng, M.

    1982-01-01

    The paper presents the geological characteristics of Sinian-furassic carbonate gas reservoirs in the Sichuan basin, China. Based on these characteristics, a mechanism of acid fracturing is proposed for such reservoirs. Included are the results of a research in acid fracturing fluids and field operation conditions for matrix acidizing and acid fracturing in Sichuan. The acid fracturing method is shown to be an effective stimulation technique for the carbonate strata in this area.

  16. 2013 METALS IN BIOLOGY GORDON RESEARCH CONFERENCE, JANUARY 20-25, 2013

    SciTech Connect (OSTI)

    Rosenzweig, Amy

    2013-01-25

    Typical topics for lectures and posters include: biochemical and biophysical characterization of new metal containing proteins, enzymes, nucleic acids, factors, and chelators from all forms of life; synthesis, detailed characterization, and reaction chemistry of biomimetic compounds; novel crystal and solution structures of biological molecules and synthetic metal-chelates; discussions of the roles that metals play in medicine, maintenance of the environment, and biogeochemical processes; metal homeostasis; application of theory and computations to the structure and mechanism of metal-containing biological systems; and novel applications of spectroscopy to metals in biological systems.

  17. Transportation Research

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    transportation-research TRACC RESEARCH Computational Fluid Dynamics Computational Structural Mechanics Transportation Systems Modeling Transportation Research Current Research Overview The U.S. Department of Transportation (USDOT) has established its only high-performance computing and engineering analysis research facility at Argonne National Laboratory to provide applications support in key areas of applied research and development for the USDOT community. The Transportation Research and

  18. Research Gallery

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Research Gallery Research Gallery Exhibits in this gallery capture Laboratory's leading-edge research in many areas of science and technology to help solve national problems...

  19. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Submitter: Area of Research: Journal Reference: N/A

  20. Research Highlights

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Highlights Form Submit a New Research Highlight Sort Highlights Submitter Title Research Area Working Group Submission Date DOE Progress Reports Notable Research Findings for 2001-2006 Office of Science Abstracts Database Research Highlights Summaries Research Highlights Members of ARM's science team are major contributors to radiation and cloud research. ARM investigators publish about 150 refereed journal articles per year, and ARM data are used in many studies published by other scientific

  1. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Rotstayn, L., Commonwealth Scientific and Industrial Research Organization Area of Research: Aerosol Properties Working Group(s): Aerosol Journal Reference: Rotstayn, L.,...

  2. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Chinese Researchers Report Reliable Method for Monitoring Soil Moisture Submitter: Bhattacharya, A., Pacific Northwest National Laboratory Area of Research: Surface Properties...

  3. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Testing and Comparing the Modified Anomalous Diffraction Approximation Submitter: Mitchell, D. L., Desert Research Institute Area of Research: Cloud DistributionsCharacterizations...

  4. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    a printable PDF Submitter: Schmid, B., Pacific Northwest National Laboratory Area of Research: Aerosol Properties Working Group(s): Aerosol Journal Reference: ARM Climate Research...

  5. Research Projects

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Current Research Projects Joint Los Alamos National LaboratoryUCSD Research Projects Collaborations between Los Alamos National Laboratory and the University of California at San...

  6. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Cloud Ensemble Simulation with the ARM IOP Data Submitter: Xu, K., NASA - Langley Research Center Area of Research: General Circulation and Single Column ModelsParameterizations ...

  7. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    ARM Measurements Validate New Satellite Multilayer Cloud Remote Sensing Method Submitter: Minnis, P., NASA - Langley Research Center Area of Research: Cloud Distributions...

  8. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    to Terrestrial Radiation Download a printable PDF Submitter: Mitchell, D. L., Desert Research Institute Area of Research: General Circulation and Single Column Models...

  9. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Fog and Rain in the Amazon For original submission and image(s), see ARM Research Highlights http:www.arm.govsciencehighlights Research Highlight The diurnal and seasonal...

  10. Hazardous waste and the stringfellow acid pits. Hearing before the Subcommittee on Natural Resources, Agriculture Research and Environment of the Committee on Science and Technology, US House of Representatives, Ninety-Eighth Congress, First Session, April 22, 1983

    SciTech Connect (OSTI)

    Not Available

    1985-01-01

    California residents and state and federal officials testified at a field hearing in Glen Avon, California on the cleanup operations at the Stringfellow acid pits, an abandoned site, under the Superfund law. Sally Tanner, Chairwoman of the State Assembly Committee on Consumer Protection and Toxic Chemicals, expressed disappointment that the federal program did not match state readiness to solve the problem. The Environmental Protection Agency's (EPA's) failure to use available funds and to listen to public concerns has been frustrating to Californians concerned about health hazards. Other witnesses spoke of the improbability of a complete cleanup because of groundwater migration and flooding in the area. EPA representatives described cleanup procedures at the site. An appendix with additional material submitted for the record follows the testimony of 11 witnesses.

  11. Research Mission

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Research Mission Research Mission NETL's Office of Research & Development is a national resource for fossil energy research and development, with a mission to create and expand the knowledge base that enables the safe, sustainable utilization of our abundant, domestic energy resources. In support of that mission, the onsite research effort: Develops solutions to key barriers to the implementation of emerging energy technologies. Explores transformational new concepts for next generation

  12. Fatty acid analogs

    DOE Patents [OSTI]

    Elmaleh, David R.; Livni, Eli

    1985-01-01

    In one aspect, a radioactively labeled analog of a fatty acid which is capable of being taken up by mammalian tissue and which exhibits an in vivo beta-oxidation rate below that with a corresponding radioactively labeled fatty acid.

  13. Mixed Acid Oxidation

    SciTech Connect (OSTI)

    Pierce, R.A.

    1999-10-26

    Several non-thermal processes have been developed to destroy organic waste compounds using chemicals with high oxidation potentials. These efforts have focused on developing technologies that work at low temperatures, relative to incineration, to overcome many of the regulatory issues associated with obtaining permits for waste incinerators. One such technique with great flexibility is mixed acid oxidation. Mixed acid oxidation, developed at the Savannah River Site, uses a mixture of an oxidant (nitric acid) and a carrier acid (phosphoric acid). The carrier acid acts as a non-volatile holding medium for the somewhat volatile oxidant. The combination of acids allows appreciable amounts of the concentrated oxidant to remain in the carrier acid well above the oxidant''s normal boiling point.

  14. Plant fatty acid hydroxylases

    DOE Patents [OSTI]

    Somerville, Chris; Broun, Pierre; van de Loo, Frank

    2001-01-01

    This invention relates to plant fatty acyl hydroxylases. Methods to use conserved amino acid or nucleotide sequences to obtain plant fatty acyl hydroxylases are described. Also described is the use of cDNA clones encoding a plant hydroxylase to produce a family of hydroxylated fatty acids in transgenic plants. In addition, the use of genes encoding fatty acid hydroxylases or desaturases to alter the level of lipid fatty acid unsaturation in transgenic plants is described.

  15. PRODUCTION OF TRIFLUOROACETIC ACID

    DOE Patents [OSTI]

    Haworth, W.N.; Stacey, M.

    1949-07-19

    A method is given for the production of improved yields of trifluoroacetic acid. The compound is prepared by oxidizing m-aminobenzotrifluoride with an alkali metal or alkaline earth metal permanganate at a temperature in the range of 80 deg C to 100 deg C while dissolved ln a mixture of water with glacial acetic acid and/or trifluoroacetic acid. Preferably a mixture of water and trifluoroacetic acid ls used as the solvent.

  16. Modular microfluidic system for biological sample preparation...

    Office of Scientific and Technical Information (OSTI)

    module, c) a dielectrophoresis virus filter module, d) an isotachophoresis nucleic acid filter module, e) a lyses module, and f) an isotachophoresis-based nucleic acid filter. ...

  17. Laboratory Directed Research and Development Program: Annual report to the Department of Energy

    SciTech Connect (OSTI)

    Ogeka, G.J.; Romano, A.J.

    1994-12-01

    Project program summaries are presented for: effect of bacterial spore protein on mutagenesis; cellular toxicity of coaine and cocaethylene; calcinfication in marine alga (global carbon cycling); advanced permanent magnet materials; a high flux neutron source; genetics of drug addiction; microdialysis; analysis of powder diffraction data; accelerator technology; nucleic acids and proteins and their interactions, by small-angle XRD; enhancement of microplanar beam radiation therapy of gliosarcoma; relaxographic and functional MRI; low-temperature infrared laser absorption spectroscopy; photodesorption of H{sub 2}; helical magnet for RHIC; novel microporous solids; chemistry and physics of stratospheric aerosols (ozone depletion); rf source for linear colliders; resonance Raman detection of VOCs; synthesis of plant fatty acids with unusual double bond positions; outer surface proteins of the Lyme disease spirochete; multiwire proportional chambers for collider muons; self-organized criticality; PCR-SSCP detection of genetic changes at single cell level; proton facility for cancer therapy; and visible free-electron laser experiment.

  18. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    SPartICus Submitter: Mishra, S., DOE - SunShot Initiative, AAAS S&T Policy Fellow Mitchell, D. L., Desert Research Institute Area of Research: General Circulation and Single...

  19. Research Areas

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Research Areas Our Vision National User Facilities Research Areas In Focus Global Solutions ⇒ Navigate Section Our Vision National User Facilities Research Areas In Focus Global Solutions Biosciences The Biosciences Area forges multidisciplinary teams to solve national challenges in energy, environment and health issues; and to advance the engineering of biological systems for sustainable manufacturing. Biosciences Area research is coordinated through three divisions and is enabled by Berkeley

  20. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Environmental Thermodynamics Affect Radiative Impact of Deep Convective Cloud Systems Submitter: Jensen, M., Brookhaven National Laboratory Area of Research: Atmospheric...

  1. Research Projects

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    LaboratoryNational Security Education Center Menu NSEC Educational Programs Los Alamos Dynamics Summer School Science of Signatures Advanced Studies Institute Judicial Science School SHM Data Sets and Software Research Projects Current Projects Past Projects Publications NSEC » Engineering Institute » Research Projects » Joint Los Alamos National Laboratory/UCSD research projects Past Research Projects Previous collaborations between Los Alamos National Laboratory and the University of

  2. Research Facility,

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    | Department of Energy Research Experience in Carbon Sequestration 2013 Now Accepting Applications Research Experience in Carbon Sequestration 2013 Now Accepting Applications March 12, 2013 - 1:43pm Addthis Washington, DC - Graduate students and early career professionals can gain hands-on field research experience in areas related to carbon capture and storage (CCS) by participating in the Research Experience in Carbon Sequestration (RECS) program. The initiative, supported by DOE's Office

  3. Current Research

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Current Research The U.S. Department of Transportation (USDOT) has established its only high-performance computing and engineering analysis research facility at Argonne National Laboratory to provide applications support in key areas of applied research and development for the USDOT community. The Transportation Research and Analysis Computing Center (TRACC) features a state-of-the-art massively parallel computer system, advanced scientific visualization capability, high-speed network

  4. Research Library

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    LANL Research Library: delivering essential knowledge services for national security sciences since 1947 About the Research Library Mission We deliver agile, responsive knowledge services, connecting people with information, technology and resources. Vision Essential knowledge services for national security sciences. The Research Library provides extensive collections of books, journals, databases, patents and technical reports and offers literature searching, training and outreach services. The

  5. Process for the preparation of lactic acid and glyceric acid

    DOE Patents [OSTI]

    Jackson, James E [Haslett, MI; Miller, Dennis J [Okemos, MI; Marincean, Simona [Dewitt, MI

    2008-12-02

    Hexose and pentose monosaccharides are degraded to lactic acid and glyceric acid in an aqueous solution in the presence of an excess of a strongly anionic exchange resin, such as AMBERLITE IRN78 and AMBERLITE IRA400. The glyceric acid and lactic acid can be separated from the aqueous solution. Lactic acid and glyceric acid are staple articles of commerce.

  6. Microorganisms for producing organic acids

    DOE Patents [OSTI]

    Pfleger, Brian Frederick; Begemann, Matthew Brett

    2014-09-30

    Organic acid-producing microorganisms and methods of using same. The organic acid-producing microorganisms comprise modifications that reduce or ablate AcsA activity or AcsA homolog activity. The modifications increase tolerance of the microorganisms to such organic acids as 3-hydroxypropionic acid, acrylic acid, propionic acid, lactic acid, and others. Further modifications to the microorganisms increase production of such organic acids as 3-hydroxypropionic acid, lactate, and others. Methods of producing such organic acids as 3-hydroxypropionic acid, lactate, and others with the modified microorganisms are provided. Methods of using acsA or homologs thereof as counter-selectable markers are also provided.

  7. UNIRIB: Research

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Research Mission Focus Photo Courtesy of Oak Ridge National Laboratory The central mission focus of the University Radioactive Ion Beam (UNIRIB) consortium is to perform nuclear physics research, and provide training and education. UNIRIB member universities have gained decades of frontline research experience through the use of the world-class facilities at Oak Ridge National Laboratory (ORNL) and other national laboratories across the United States. The UNIRIB consortium is tasked by the U.S.

  8. Environmental Research

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Dist. Category UC-l 1, 13 DE@ 010764 Health & Environmental Research Summary of Accomplishments Prepared by Office of Energy Research /U.S. Department of Energy Washington, D.C. 20585 Reprinted April 1984 Published by Technical Information Center/U.S. Department of Energy The purpose of this brief narrative is to foster an awareness of a publicly funded health and environmental research program chartered nearly forty years ago, of its contributions toward the national goal of safe and

  9. PNNL: Research

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Research at PNNL Research is our business With an unwavering focus on our missions, scientists and engineers at PNNL deliver science and technology. We conduct basic research that advances the frontiers of science. We translate discoveries into tools and technologies in science, energy, the environment and national security. For more than four decades, our experts have teamed with government, industry and academia to tackle some of the toughest problems facing our nation. The result: We're

  10. Research | NREL

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Research Researching energy systems and technologies-and the science behind them-for a future powered by clean energy. Subscribe Stay connected with the latest news and research breakthroughs from NREL. Sign up now Photo of the U.S. Department of Energy's Energy Systems Integration Facility at NREL. Energy Systems Integration Facility The only facility in the nation focused on utility-scale clean energy grid integration. Learn More National Bioenergy Center National Center for Photovoltaics

  11. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    A Partial Mechanistic Understanding of the North American Monsoon Download a printable PDF Submitter: Erfani, E., Desert Research Institute Area of Research: Atmospheric Thermodynamics and Vertical Structures Working Group(s): Cloud-Aerosol-Precipitation Interactions Journal Reference: Erfani E and DL Mitchell. 2014. "A partial mechanistic understanding of the North American monsoon." Journal of Geophysical Research - Atmospheres, 119(23), 10.1002/2014JD022038. a) Dependence of

  12. Research Highlights

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Research Highlights Research Highlights Highlighting some of the extraordinary work in Chemistry Division Contact Us Division Leader David Morris Deputy Division Leader Mark McCleskey (505) 667-4457 Deputy Division Leader (acting) George Havrilla Division Office (505) 667-4457 Email 2016 Physicist wins early-career award for isotope work 5/12 LANL researchers shine more light on the mechanism of one of the most efficient artificial catalytic reactions developed to date 4/20 3D-printing

  13. Researchers - JCAP

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Administration Programs Research, Development, Test, and Evaluation Forty-eight final optic assemblies are symmetrically distributed around the upper and lower hemispheres of the target chamber of the National Ignition Facility at Lawrence Livermore National Laboratory The Office of Research, Development, Test, and Evaluation directs research, development, computer simulation, and inertial confinement fusion activities to maintain the safety, security and effectiveness of the nuclear weapons

  14. Research Approach

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Research Approach Research Approach NETL's onsite research approach is based on integrating simulation tools with targeted experimental validation at real-life conditions in the lab and in the field. Simulation tools increase confidence in designs, thereby reducing the risk associated with incorporating multiple innovative technologies, realizing scale-up, and predicting the behavior and properties of real materials. The scientific underpinnings encoded into these models also ensure that

  15. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Back to Basics: Theoretical Studies on Storm Clouds and Implications for Modeling For original submission and image(s), see ARM Research Highlights http://www.arm.gov/science/highlights/ Research Highlight Storms associated with deep convection are a key component of weather and climate. For example, they produce a large share of precipitation that falls to the Earth's surface, and their anvil shields act as a thermal blanket on the planet. To understand the behavior of these storms, researchers

  16. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Radiative Forcing by Long-Lived Greenhouse Gases: Calculations with the AER Models Download a printable PDF Submitter: Iacono, M. J., Atmospheric & Environmental Research, Inc. Delamere, J. S., Tech-X Corporation Mlawer, E. J., Atmospheric & Environmental Research, Inc. Collins, W. D., Lawrence Berkeley National Laboratory Area of Research: General Circulation and Single Column Models/Parameterizations Working Group(s): Radiative Processes Journal Reference: Iacono, MJ, JS Delamere, EJ

  17. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Climatology of Aerosol Optical Depth in North-Central Oklahoma: 1992-2008 Download a printable PDF Submitter: Michalsky, J. J., Cooperative Institute for Research in Environmental Sciences Area of Research: Aerosol Properties Working Group(s): Aerosol Life Cycle Journal Reference: Michalsky J, F Denn, C Flynn, G Hodges, P Kiedron, A Koontz, J Schlemmer, and SE Schwartz. 2010. "Climatology of aerosol optical depth in north-central Oklahoma: 1992-2008." Journal of Geophysical Research -

  18. Production of Succinic Acid for Lignocellulosic Hydrolysates

    SciTech Connect (OSTI)

    Davison, B.H.; Nghiem, J.

    2002-06-01

    The purpose of this Cooperative Research and Development Agreement (CRADA) is to add and test new metabolic activities to existing microbial catalysts for the production of succinic acid from renewables. In particular, they seek to add to the existing organism the ability to utilize xylose efficiently and simultaneously with glucose in mixtures of sugars or to add succinic acid production to another strain and to test the value of this new capability for production of succinic acid from industrial lignocellulosic hydrolyasates. The Contractors and Participant are hereinafter jointly referred to as the 'Parties'. Research to date in succinic acid fermentation, separation and genetic engineering has resulted in a potentially economical process based on the use of an Escherichia coli strain AFP111 with suitable characteristics for the production of succinic acid from glucose. Economic analysis has shown that higher value commodity chemicals can be economically produced from succinic acid based on repliminary laboratory findings and predicted catalytic parameters. The initial target markets include succinic acid itself, succinate salts, esters and other derivatives for use as deicers, solvents and acidulants. The other commodity products from the succinic acid platform include 1,4-butanediol, {gamma}-butyrolactone, 2-pyrrolidinone and N-methyl pyrrolidinone. Current economic analyses indicate that this platform is competitive with existing petrochemical routes, especially for the succinic acid and derivatives. The report presents the planned CRADA objectives followed by the results. The results section has a combined biocatalysis and fermentation section and a commercialization section. This is a nonproprietary report; additional proprietary information may be made available subject to acceptance of the appropriate proprietary information agreements.

  19. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Differences Between Tropical and Trade-Wind Shallow Cumuli Download a printable PDF Submitter: Ghate, V. P., Argonne National Laboratory Area of Research: Vertical Velocity Working...

  20. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Nucleation Events Download a printable PDF Submitter: McMurry, P. ., University of Minnesota Area of Research: Aerosol Properties Working Group(s): Aerosol Life Cycle Journal ...

  1. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Australian Wet Seasons as Revealed by ARM Disdrometer Research Facilities (Darwin, Australia)." Journal of Applied Meteorology and Climatology, , http:dx.doi.org10.1175...

  2. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Climate Research Facility located near Lamont, Oklahoma. Measurements from ARM Raman lidar and Doppler radar instruments were used to both initialize and evaluate the model. A...

  3. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    in the Doppler spectra. Over the North Slope of Alaska, researchers used cloud radar Doppler velocity spectra, lidar backscattering coefficients and depolarization ratios, and...

  4. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Zhang, Q., University of California, Davis Fast, J. ., Pacific Northwest National Laboratory Area of Research: Aerosol Processes Working Group(s): Aerosol Life Cycle Journal...

  5. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    to Lose Download a printable PDF Submitter: Laskin, A., Pacific Northwest National Laboratory Fast, J. ., Pacific Northwest National Laboratory Area of Research: Aerosol...

  6. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Hagos, S. M., Pacific Northwest National Laboratory Area of Research: Atmospheric Thermodynamics and Vertical Structures Working Group(s): Cloud Life Cycle Journal Reference: NA...

  7. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Submitter: Westwater, E. R., University of Colorado Area of Research: Atmospheric Thermodynamics and Vertical Structures Working Group(s): Cloud Properties Journal Reference:...

  8. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Liljegren, J. C., Argonne National Laboratory Area of Research: Atmospheric Thermodynamics and Vertical Structures Working Group(s): Cloud Properties, Radiative Processes...

  9. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Xie, S., Lawrence Livermore National Laboratory Area of Research: Atmospheric Thermodynamics and Vertical Structures Working Group(s): Cloud Life Cycle Journal Reference: Xie...

  10. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Effects of Sea Spray on the Thermodynamics of the Hurricane Boundary Layer Download a printable PDF Submitter: Khain, A., The Hebrew University of Jerusalem Area of Research:...

  11. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    of MBL Cloud Properties over the Azores Download a printable PDF Submitter: Dong, X., University of North Dakota Area of Research: Radiation Processes Working Group(s): Cloud...

  12. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    ... data collected from 18 flights during FIRE-ACE, the researchers analyzed measurements of drop and ice crystal particle size distribution, water content, and icing rate. ...

  13. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    a printable PDF Submitter: de Boer, G., University of Colorado, BoulderCIRES Area of Research: Radiation Processes Working Group(s): Cloud Life Cycle Journal Reference: de...

  14. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    to improve the representation of the autoconversion process in atmospheric models. This research also reveals major deficiencies of existing empirical schemes (see the figure)....

  15. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Simple Equation Is Good Enough Submitter: Barnard, J., University of Nevada Reno Area of Research: Cloud DistributionsCharacterizations Working Group(s): Cloud Properties Journal...

  16. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Turner, D. D., National Oceanic and Atmospheric Administration Area of Research: Radiation Processes Working Group(s): Cloud Life Cycle Journal Reference: Paine SN, DD Turner, ...

  17. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    "Roobik" Is Part of the Answer, Not a Puzzle Submitter: Turner, D. D., National Oceanic and Atmospheric Administration Area of Research: Radiation Processes Working Group(s): ...

  18. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Submitter: Turner, D. D., National Oceanic and Atmospheric Administration Area of Research: Radiation Processes Working Group(s): Radiative Processes Journal Reference: Turner DD. ...

  19. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Turner, D. D., National Oceanic and Atmospheric Administration Area of Research: Cloud Processes Working Group(s): Cloud Life Cycle Journal Reference: Shupe MD, DD Turner, VP ...

  20. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Mlawer, E. J., Atmospheric & Environmental Research, Inc. Turner, D. D., National Oceanic ... Journal Reference: Cady-Pereira, K, M Shephard, E Mlawer, D Turner, S Clough, and T ...

  1. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Size Distributions with Help from Satellites Download a printable PDF Submitter: Mitchell, D. L., Desert Research Institute d'Entremont, R. P., Atmospheric and Environmental...

  2. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Cloud-Radiation Effects on Sea Ice Loss Download a printable PDF Submitter: Stephens, G. L., Colorado State University Area of Research: Cloud DistributionsCharacterizations...

  3. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    a printable PDF Submitter: Marshak, A., NASA - Goddard Space Flight Center Area of Research: Radiation Processes Working Group(s): Cloud-Aerosol-Precipitation Interactions...

  4. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Influence of Dust Composition on Cloud Droplet Formation Download a printable PDF Submitter: Chuang, C., Lawrence Livermore National Laboratory Area of Research: Aerosol Properties...

  5. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Burning on the Prairies Submitter: Bhattacharya, A., Pacific Northwest National Laboratory Area of Research: Radiation Processes Working Group(s): Cloud-Aerosol-Precipitation...

  6. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    The Long-Term Impacts of Aerosols on the Vertical Development of Clouds and Precipitation Download a printable PDF Submitter: Li, Z., University of Maryland Area of Research:...

  7. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    The Complexity of Arctic Clouds Download a printable PDF Submitter: Shupe, M., University of Colorado Area of Research: Cloud Processes Working Group(s): Cloud Life Cycle Journal...

  8. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Broadband Albedo Observations in the Southern Great Plains Submitter: Lamb, P. J., University of Oklahoma Area of Research: Aerosol Properties Working Group(s): Aerosol Journal...

  9. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    over the MJO Download a printable PDF Submitter: Del Genio, A. D., National Aeronautics and Space Administration Area of Research: Cloud DistributionsCharacterizations...

  10. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Get Organized Download a printable PDF Submitter: Del Genio, A. D., National Aeronautics and Space Administration Area of Research: Cloud Processes Working Group(s): Cloud...

  11. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Into the (Cold) Pool Download a printable PDF Submitter: Del Genio, A. D., National Aeronautics and Space Administration Area of Research: General Circulation and Single Column...

  12. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    and climate change. The study, funded in large part by DOE's Atmospheric System Research program and recently discussed in the Quarterly Journal of the Royal Meteorological...

  13. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Laboratory Area of Research: Radiation Processes Working Group(s): Radiative Processes Journal Reference: NA Figure 1. MFRSR data from the TWP site (970910) Figure 2. Aerosol...

  14. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    in Climate Models Submitter: Zhang, G., University of California, San Diego Area of Research: General Circulation and Single Column ModelsParameterizations Working Group(s):...

  15. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    printable PDF Submitter: Kassianov, E., Pacific Northwest National Laboratory Area of Research: Radiation Processes Working Group(s): Aerosol Life Cycle Journal Reference:...

  16. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Cloud Experiment Submitter: McFarquhar, G., University of Illinois, Urbana Area of Research: Cloud DistributionsCharacterizations Working Group(s): Cloud Properties Journal...

  17. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    and GCM Simulations Download a printable PDF Submitter: Mitchell, D. L., Desert Research Institute Rasch, P., Pacific Northwest National Laboratory Ivanova, D., Embry-Riddle...

  18. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Download a printable PDF Submitter: Moffet, R., University of the Pacific Area of Research: Aerosol Processes Working Group(s): Aerosol Life Cycle Journal Reference: O'Brien...

  19. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Download a printable PDF Submitter: Alexandrov, M. D., Columbia University Area of Research: Radiation Processes Working Group(s): Aerosol Journal Reference: Applied Optics,...

  20. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    PDF Submitter: Bhattacharya, A., Pacific Northwest National Laboratory Area of Research: Cloud DistributionsCharacterizations Working Group(s): Cloud Life Cycle Journal...

  1. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    printable PDF Submitter: Kulkarni, G., Pacific Northwest National Laboratory Area of Research: Aerosol Processes Working Group(s): Aerosol Life Cycle Journal Reference: Kulkarni...

  2. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    National Laboratory Long, C. N., NOAA Global Monitoring DivisionCIRES Area of Research: Radiation Processes Working Group(s): Cloud Life Cycle Journal Reference: Riihimaki...

  3. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    National Laboratory Ronfeld, D., Pacific Northwest National Laboratory Area of Research: Radiation Processes Working Group(s): Cloud Properties Journal Reference: NA The...

  4. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    a printable PDF Submitter: Laskin, A., Pacific Northwest National Laboratory Area of Research: Cloud-Aerosol-Precipitation Interactions Working Group(s): Aerosol Life Cycle...

  5. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    printable PDF Submitter: Hagos, S. M., Pacific Northwest National Laboratory Area of Research: Atmospheric Thermodynamics and Vertical Structures Working Group(s):...

  6. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Raman Lidar Observations of Aerosol Humidification Near Clouds Submitter: Ferrare, R. A., NASA LaRC Area of Research: Aerosol Properties Working Group(s): Aerosol Journal ...

  7. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    New Technique Successful for Measuring Thickness of Broken Clouds Submitter: Marshak, A., NASA - Goddard Space Flight Center Area of Research: Cloud DistributionsCharacterizations ...

  8. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    SGP Observations Help Validate Soil Temperature Simulations Download a printable PDF Submitter: Huang, M., Pacific Northwest National Laboratory Area of Research: Surface...

  9. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Area of Research: Cloud DistributionsCharacterizations Working Group(s): Cloud Life Cycle Journal Reference: Zhao Y, GG Mace, and JM Comstock. 2011. "The occurrence of particle ...

  10. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Area of Research: Aerosol Properties Working Group(s): Aerosol Life Cycle Journal Reference: Wilson J, D Imre, J Bernek, M Shrivastava, and A Zelenyuk. 2014. "Evaporation ...

  11. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    K-Distribution Method for a SW Radiative Transfer Model Submitter: Ackerman, T. P., University of Washington Area of Research: General Circulation and Single Column Models...

  12. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    anvil cirrus: A comparison between in situ aircraft measurements and ground-based Doppler cloud radar retrievals." Geophysical Research Letters, 41, doi:10.1002...

  13. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Using Doppler Radar to Characterize Cloud Parameters Download a printable PDF Submitter: Kogan, Y., University of Oklahoma - CIMMS Area of Research: Cloud Distributions...

  14. Research Projects

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Past Research Projects Composite-to-Steel Joint Integrity Monitoring and Assessment ... engineering programs and the pit manufacturing program. STUDENT RESOURCES Precollege ...

  15. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    a printable PDF Submitter: Lin, Y., Geophysical Fluid Dynamics Laboratory Area of Research: General Circulation and Single Column ModelsParameterizations Working Group(s):...

  16. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    and ARM Data Submitter: Somerville, R. C., Scripps Institution of Oceanography Area of Research: General Circulation and Single Column ModelsParameterizations Working Group(s):...

  17. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    PDF Submitter: McComiskey, A. C., National Oceanic and Atmospheric Administration Area of Research: Cloud-Aerosol-Precipitation Interactions Working Group(s): Aerosol Life Cycle,...

  18. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Fog and Rain in the Amazon Download a printable PDF Submitter: Gentine, P., Columbia University Sobel, A., Columbia University Area of Research: Cloud-Aerosol-Precipitation...

  19. Research Areas

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    in diverse research areas such as cell biology, lithography, infrared microscopy, radiology, and x-ray tomography. Time-Resolved These techniques exploit the pulsed nature of...

  20. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Production Flux of Sea-Spray Aerosol Download a printable PDF Submitter: Schwartz, S. E., Brookhaven National Laboratory Area of Research: Aerosol Properties Working Group(s):...

  1. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    ARM Sites Enable Assessment of Cluster Analysis for Identifying Cloud Regimes Submitter: Jakob, C., Monash University Area of Research: Cloud DistributionsCharacterizations...

  2. Recovery of organic acids

    DOE Patents [OSTI]

    Verser, Dan W. (Menlo Park, CA); Eggeman, Timothy J. (Lakewood, CO)

    2011-11-01

    A method is disclosed for the recovery of an organic acid from a dilute salt solution in which the cation of the salt forms an insoluble carbonate salt. A tertiary amine and CO.sub.2 are introduced to the solution to form the insoluble carbonate salt and a complex between the acid and an amine. A water immiscible solvent, such as an alcohol, is added to extract the acid/amine complex from the dilute salt solution to a reaction phase. The reaction phase is continuously dried and a product between the acid and the solvent, such as an ester, is formed.

  3. Reversible Acid Gas Capture

    ScienceCinema (OSTI)

    Dave Heldebrant

    2012-12-31

    Pacific Northwest National Laboratory scientist David Heldebrant demonstrates how a new process called reversible acid gas capture works to pull carbon dioxide out of power plant emissions.

  4. Myriant Succinic Acid Biorefinery

    Broader source: Energy.gov [DOE]

    This American Recovery and Reinvestment Act project will focus on the production of bio-succinic acid from a variety of feedstocks.

  5. Recovery of organic acids

    DOE Patents [OSTI]

    Verser, Dan W. (Golden, CO); Eggeman, Timothy J. (Lakewood, CO)

    2009-10-13

    A method is disclosed for the recovery of an organic acid from a dilute salt solution in which the cation of the salt forms an insoluble carbonate salt. A tertiary amine and CO.sub.2 are introduced to the solution to form the insoluble carbonate salt and a complex between the acid and an amine. A water immiscible solvent, such as an alcohol, is added to extract the acid/amine complex from the dilute salt solution to a reaction phase. The reaction phase is continuously dried and a product between the acid and the solvent, such as an ester, is formed.

  6. Research | Photosynthetic Antenna Research Center

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Research Research Mission Statement The objective of PARC is to understand the basic scientific principles that underpin the efficient functioning of natural photosynthetic antenna systems as a basis for design of biohybrid and bioinspired architectures for next-generation systems for solar-energy conversion. Scientific Themes Through basic scientific research, PARC seeks to understand the principles of light harvesting and energy funneling as applied to The PARC Vision Graphic three

  7. Use of CYP52A2A promoter to increase gene expression in yeast

    DOE Patents [OSTI]

    Craft, David L.; Wilson, C. Ron; Eirich, Dudley; Zhang, Yeyan

    2004-01-06

    A nucleic acid sequence including a CYP promoter operably linked to nucleic acid encoding a heterologous protein is provided to increase transcription of the nucleic acid. Expression vectors and host cells containing the nucleic acid sequence are also provided. The methods and compositions described herein are especially useful in the production of polycarboxylic acids by yeast cells.

  8. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Observing Warm Clouds in 3D Using ARM Scanning Cloud Radars and a Novel Ensemble Method Download a printable PDF Submitter: Fielding, M. D., University of Reading Area of Research:...

  9. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    ARM Program Research Improves Longwave Radiative Transfer Models Submitter: Turner, D. D., ... resolution infrared radiance. D.D. Turner, D.C. Tobin, S.A. Clough, P.D. Brown, ...

  10. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    in Climate Models: Results from TC4 and ISDAC Download a printable PDF Submitter: Mitchell, D. L., Desert Research Institute Mishra, S., DOE - SunShot Initiative, AAAS S&T...

  11. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Area of Research: Aerosol Properties Working Group(s): Aerosol Life Cycle Journal Reference: China S, G Kulkarni, BV Scarnato, N Sharma, M Pekour, JE Shilling, J Wilson, A ...

  12. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    To Rain or Not to Rain...Aerosols May Be the Answer Download a printable PDF Submitter: Li, Z., University of Maryland Area of Research: Cloud-Aerosol-Precipitation Interactions...

  13. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    During MC3E Download a printable PDF Submitter: Pu, Z., University of Utah Area of Research: Cloud Processes Working Group(s): Cloud Life Cycle Journal Reference: Pu Z and C...

  14. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Download a printable PDF Submitter: Dong, X., University of North Dakota Area of Research: Cloud Processes Working Group(s): Cloud Life Cycle Journal Reference: Wu D, B Xi, Z...

  15. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Area of Research: Cloud DistributionsCharacterizations Working Group(s): Cloud Modeling Journal Reference: Naud, C, A Del Genio, GG Mace, S Benson, EE Clothiaux, and P Kollias. ...

  16. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Area of Research: Cloud DistributionsCharacterizations Working Group(s): Cloud Properties Journal Reference: Wang X, KN Liou, SS Ou, GG Mace, and M Deng. 2009. "Remote sensing of ...

  17. Caterpillar Research

    Office of Energy Efficiency and Renewable Energy (EERE)

    Presentation given at the 2007 Diesel Engine-Efficiency & Emissions Research Conference (DEER 2007). 13-16 August, 2007, Detroit, Michigan. Sponsored by the U.S. Department of Energy's (DOE) Office of FreedomCAR and Vehicle Technologies (OFCVT).

  18. Research Capabilities

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Research Capabilities Research Capabilities These capabilities are our science and engineering at work for the national security interest in areas from global climate to cyber security, from nonproliferation to new materials, from clean energy, to supercomputing. thumbnail of Bioscience At Los Alamos, scientists and engineers are working to unlock many of the mechanisms found in nature to improve humanity's ability to battle diseases, create new forms of environmentally friendly and abundant

  19. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    A Decade and Counting Download a printable PDF Submitter: Long, C. N., NOAA Global Monitoring Division/CIRES Area of Research: Radiation Processes Working Group(s): Cloud-Aerosol-Precipitation Interactions Journal Reference: Long CN, SA McFarlane, A Del Genio, P Minnis, TP Ackerman, J Mather, J Comstock, GG Mace, M Jensen, and C Jakob. 2013. "ARM research in the equatorial western Pacific - a decade and counting." Bulletin of the American Meteorological Society, 94(5),

  20. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Field Campaign Resource Allocation Using Statistical Decision Analysis Download a printable PDF Submitter: Hanlon, C., Pennsylvania State University Area of Research: Cloud Processes Working Group(s): Cloud Life Cycle Journal Reference: Hanlon CJ, JB Stefik, AA Small, J Verlinde, and GS Young. 2013. "Statistical decision analysis for flight decision support: The SPartICus campaign." Journal of Geophysical Research - Atmospheres, , . ACCEPTED. In many atmospheric science field

  1. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Pointing Scanning Cloud Radar in the Right Direction Download a printable PDF Submitter: Fielding, M. D., University of Reading Area of Research: Cloud Distributions/Characterizations Working Group(s): Cloud Life Cycle, Cloud-Aerosol-Precipitation Interactions Journal Reference: Fielding MD, JC Chiu, RJ Hogan, and G Feingold. 2013. "3D cloud reconstructions: Evaluation of scanning radar scan strategy with a view to surface shortwave radiation closure." Journal of Geophysical Research -

  2. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    The Brass Ring of Climate Modeling Download a printable PDF Submitter: Ghan, S. J., Pacific Northwest National Laboratory Area of Research: Aerosol Processes Working Group(s): Cloud-Aerosol-Precipitation Interactions Journal Reference: Ghan SJ, SJ Smith, M Wang, K Zhang, K Pringle, K Carslaw, J Pierce, S Bauer, and P Adams. 2013. "A simple model of global aerosol indirect effects." Journal of Geophysical Research - Atmospheres, 118, 1-20. The simple model of aerosol effects on clouds

  3. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Digging Into Climate Models' Needs with SPADE Download a printable PDF Submitter: Gustafson, W. I., Pacific Northwest National Laboratory Area of Research: Cloud Distributions/Characterizations Working Group(s): Cloud Life Cycle Journal Reference: Gustafson WI, PL Ma, H Xiao, B Singh, PJ Rasch, and JD Fast. 2013. "The separate physics and dynamics experiment (SPADE) framework for determining resolution awareness: A case study of microphysics." Journal of Geophysical Research -

  4. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Invisible Giants in the Sky Download a printable PDF Submitter: Kassianov, E., Pacific Northwest National Laboratory Area of Research: Cloud-Aerosol-Precipitation Interactions Working Group(s): Cloud-Aerosol-Precipitation Interactions Journal Reference: Kassianov E, M Pekour, and J Barnard. 2012. "Aerosols in central California: Unexpectedly large contribution of coarse mode to aerosol radiative forcing." Geophysical Research Letters, 39, L20806, doi:10.1029/2012GL053469. Photo

  5. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Nailing Down Ice in a Cloud Model Download a printable PDF Submitter: Comstock, J. M., Pacific Northwest National Laboratory Area of Research: Cloud Processes Working Group(s): Cloud Life Cycle Journal Reference: Comstock JM, A Protat, SA McFarlane, J Delanoë, and M Deng. 2013. "Assessment of uncertainty in cloud radiative effects and heating rates through retrieval algorithm differences: Analysis using 3 Years of ARM data at Darwin, Australia." Journal of Geophysical Research -

  6. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Observational Analysis of Land-Atmosphere Coupling for Climate Model Evaluation Download a printable PDF Submitter: Phillips, T. J., Lawrence Livermore National Laboratory Klein, S., Lawrence Livermore National Laboratory Area of Research: Surface Properties Working Group(s): Cloud Life Cycle Journal Reference: Phillips TJ and SA Klein. 2014. "Land-atmosphere coupling manifested in warm-season observations on the U.S. southern great plains." Journal of Geophysical Research -

  7. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    MBL Aerosol Properties and Their Impact on CCN at the Azores-AMF Site Download a printable PDF Submitter: Dong, X., University of North Dakota Area of Research: Aerosol Properties Working Group(s): Cloud-Aerosol-Precipitation Interactions Journal Reference: Logan T, B Xi, and X Dong. 2014. "Aerosol properties and their influences on marine boundary layer cloud condensation nuclei at the ARM mobile facility over the Azores." Journal of Geophysical Research - Atmospheres, 119(8),

  8. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Accuracy of GFS and ECMWF Hurricane Sandy Track Forecasts Dependent on Cumulus Parameterization Download a printable PDF Submitter: Bassill, N. P., University of Utah Zipser, E., University of Utah Area of Research: Cloud Distributions/Characterizations Working Group(s): Cloud Life Cycle Journal Reference: Bassill NP. 2014. "Accuracy of early GFS and ECMWF Sandy (2012) track forecasts: Evidence for a dependence on cumulus parameterization." Geophysical Research Letters, ,

  9. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Research Masters the Misunderstood Mixed-Phase Cloud Download a printable PDF Submitter: Ovchinnikov, M., Pacific Northwest National Laboratory Area of Research: Cloud-Aerosol-Precipitation Interactions Working Group(s): Cloud Life Cycle, Cloud-Aerosol-Precipitation Interactions Journal Reference: Ovchinnikov M, AS Ackerman, A Avramov, A Cheng, J Fan, AM Fridland, S Ghan, J Harrington, C Hoose, A Korolev, GM McFarquhar, H Morrison, M Paukert, J Savre, BJ Shipway, MD Shupe, A Solomon, and K

  10. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Are Increases in Thunderstorm Activity in Southeast China Related to Air Pollution? Download a printable PDF Submitter: Li, Z., UALBANY Cribb, M. C., University of Maryland Area of Research: Cloud-Aerosol-Precipitation Interactions Working Group(s): Cloud-Aerosol-Precipitation Interactions Journal Reference: Yang X and Z Li. 2014. "Increases in thunderstorm activity and relationships with air pollution in southeast China." Journal of Geophysical Research - Atmospheres, 119(4),

  11. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Quantifying the Importance of Cold Pool Mechanisms for Convection Triggering Download a printable PDF Submitter: Kuang, Z., Harvard University Area of Research: Cloud Processes Working Group(s): Cloud Life Cycle Journal Reference: Torri G, Z Kuang, and Y Tian. 2015. "Mechanisms for convection triggering by cold pools." Geophysical Research Letters, , . ACCEPTED. Horizontal sections of (left) potential temperature and (right) water vapor specific humidity at 25 m from the model surface.

  12. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Observed Relations Between Snowfall Microphysics and Triple-Frequency Radar Observations Download a printable PDF Submitter: Kneifel, S., McGill University Area of Research: Cloud Processes Working Group(s): Cloud Life Cycle Journal Reference: Kneifel S, A von Lerber, J Tiira, D Moisseev, P Kollias, and J Leinonen. 2015. "Observed relations between snowfall microphysics and triple-frequency radar measurements." Journal of Geophysical Research - Atmospheres, 120(12),

  13. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    How Well Are Shallow Convective Clouds Simulated in the CAM5 Model? Download a printable PDF Submitter: Chandra, A. S., University of Miami Area of Research: Cloud Distributions/Characterizations Working Group(s): Cloud Life Cycle Journal Reference: Chandra AS, C Zhang, SA Klein, and H Ma. 2015. "Low-cloud characteristics over the tropical western Pacific from ARM observations and CAM5 simulations." Journal of Geophysical Research - Atmospheres, 120, 52402, doi:10.1002/2015JD02.

  14. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Stereo Photogrammetry Reveals Substantial Drag on Cloud Thermals Download a printable PDF Submitter: Romps, D., Lawrence Berkeley National Laboratory Area of Research: Vertical Velocity Working Group(s): Cloud Life Cycle Journal Reference: Romps DM and R Oktem. 2015. "Stereo photogrammetry reveals substantial drag on cloud thermals." Geophysical Research Letters, , doi:10.1002/2015GL064009. ONLINE. A 14-minute sequence of cloud growth as observed by a camera located at the MAST Academy

  15. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Retrieving Cloud and Aerosol Properties from the ARM Raman Lidar Download a printable PDF Submitter: Thorsen, T., NASA - Langley Research Center Fu, Q., University of Washington Area of Research: Cloud Distributions/Characterizations Working Group(s): Aerosol Life Cycle, Cloud Life Cycle Journal Reference: Thorsen TJ, Q Fu, RK Newsom, DD Turner, and JM Comstock. 2015. "Automated retrieval of cloud and aerosol properties from the ARM Raman lidar, Part I: Feature detection." Journal of

  16. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    The Role of Ice Nuclei Recycling in the Maintenance of Cloud Ice in Arctic Mixed-phase Stratocumulus Download a printable PDF Submitter: Solomon, A., NOAA/ESRL/Physical Sciences Division Feingold, G., NOAA - Earth System Research Laboratory Area of Research: Cloud-Aerosol-Precipitation Interactions Working Group(s): Cloud Life Cycle Journal Reference: Solomon A, G Feingold, and MD Shupe. 2015. "The role of ice nuclei recycling in the maintenance of cloud ice in Arctic mixed-phase

  17. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Characterizing Arctic Mixed-Phase Cloud Structure Download a printable PDF Submitter: Dong, X., University of North Dakota Area of Research: Cloud Distributions/Characterizations Working Group(s): Cloud Life Cycle Journal Reference: Qiu S, X Dong, B Xi, and F Li. 2015. "Characterizing Arctic mixed-phase cloud structure and its relationship with humidity and temperature inversion using ARM NSA observations." Journal of Geophysical Research - Atmospheres, 120, 10.1002/2014JD023022.

  18. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Ice Particle Projected Area- and Mass-Dimension Expressions for Cirrus Clouds Download a printable PDF Submitter: Mitchell, D. L., Desert Research Institute Area of Research: Cloud Distributions/Characterizations Working Group(s): Cloud Life Cycle Journal Reference: Erfani E and DL Mitchell. 2015. "Developing and bounding ice particle mass- and area-dimension expressions for use in atmospheric models and remote sensing." Atmospheric Chemistry and Physics, 15(20),

  19. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Scale-Aware Parameterization of Liquid Cloud Inhomogeneity and Its Impact on Simulated Climate Download a printable PDF Submitter: Zhang, M., Stony Brook University Area of Research: General Circulation and Single Column Models/Parameterizations Working Group(s): Cloud Life Cycle Journal Reference: Xie X and M Zhang. 2015. "Scale-aware parameterization of liquid cloud inhomogeneity and its impact on simulated climate in CESM." Journal of Geophysical Research - Atmospheres, 120(16),

  20. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    From Fire to Ice Download a printable PDF Submitter: Kulkarni, G., Pacific Northwest National Laboratory Area of Research: Aerosol Properties Working Group(s): Aerosol Life Cycle Journal Reference: Kulkarni GR, M Nandasiri, A Zelenyuk, J Beranek, N Madaan, A Devaraj, V Shutthanandan, S Thevuthasan, and T Varga. 2015. "Effects of crystallographic properties on the ice nucleation properties of volcanic ash particles." Geophysical Research Letters, 42(8), doi:10.1002/2015GL063270. Tons of

  1. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Bell-Shaped Curve Captures Cloud System Variability Submitter: Lamb, P. J., University of Oklahoma Area of Research: Cloud Distributions/Characterizations Working Group(s): Cloud Properties Journal Reference: Journal of Geophysical Research, 110, D18205, doi:10.1029/2005JD006158. Figure 1. Reflectivity standard deviation PDFs, resampled as a function of timescale and contoured by equal values of probability, show an increase in variability with scale. The PDF modes lie mostly along the mean

  2. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Birth and Growth of an Aerosol Download a printable PDF Submitter: Fast, J. ., Pacific Northwest National Laboratory Area of Research: Cloud-Aerosol-Precipitation Interactions Working Group(s): Cloud-Aerosol-Precipitation Interactions Journal Reference: N/A An aerosol particle journey. New modeling approaches developed by a research team led by PNNL show how aerosol particles are born and grow to affect the atmosphere and ultimately climate. Tiny atmospheric aerosols are some of the most highly

  3. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Dependence of Entrainment in Shallow Cumulus Convection on Vertical Velocity and Distance to Cloud Edge PI Contact: Kuang, Z., Harvard University Area of Research: Cloud Processes Working Group(s): Cloud Life Cycle Journal Reference: Tian Y and Z Kuang. 2016. "Dependence of entrainment in shallow cumulus convection on vertical velocity and distance to cloud edge." Geophysical Research Letters, , doi:10.1002/2016GL069005. ONLINE. Percentage change in (a) vertical velocity, (b) distance

  4. Research Projects

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Research Projects Joint Los Alamos National Laboratory/UCSD Research Projects Collaborations between Los Alamos National Laboratory and the University of California at San Diego (UCSD) Jacobs School of Engineering Contact Institute Director Charles Farrar (505) 663-5330 Email UCSD EI Director Michael Todd (858) 534-5951 Professional Staff Assistant Jutta Kayser (505) 663-5649 Email Administrative Assistant Stacy Baker (505) 663-5233 Email "Since 2003, LANL has funded numerous collaborative

  5. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Birth and Growth of an Aerosol For original submission and image(s), see ARM Research Highlights http://www.arm.gov/science/highlights/ Research Highlight Tiny atmospheric aerosols are some of the most highly studied particles connected with Planet Earth, yet questions remain on how they are formed and how they affect climate. Now Pacific Northwest National Laboratory scientists have developed new approaches to accurately model the birth and growth of these important aerosols. "Most

  6. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Quantifying Error in the Radiative Forcing of the First Aerosol Indirect Effect Submitter: McComiskey, A. C., National Oceanic and Atmospheric Administration Area of Research: Aerosol Properties Working Group(s): Aerosol Journal Reference: Submitted to Geophysical Research Letters, 06-27-2007. Radiative forcing of aerosol indirect as function of CCN number density and LWP in units of W/m2 per 5% IE error. A survey of recently published works shows that values used to represent the magnitude of

  7. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Characterization of Atmospheric Aerosols Using MFRSR Measurements Download a printable PDF Submitter: Alexandrov, M. D., Columbia University Area of Research: Aerosol Properties Working Group(s): Aerosol Journal Reference: Alexandrov, MD, AA Lacis, BE Carlson, and B Cairns. 2007. "Characterization of atmospheric aerosols using MFRSR measurements." (Journal of Geophysical Research 113, DO8204. Sample spectral optical depths of atmospheric constituents in 300 - 900 nm spectral range:

  8. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    ARM Science Applications of AERI Measurements Submitter: Smith, W. L., NASA - Langley Research Center Area of Research: Radiation Processes Working Group(s): Cloud Modeling Journal Reference: DeSlover, D. H. 1996. Analysis of Visible and Infrared Cirrus Cloud Optical Properties Using High Spectral Resolution Remote Sensing, M.S. Thesis, University of Wisconsin - Madison. Ho, S.-P. 1997. Atmospheric Profiles From Simultaneous Observations of Upwelling and Downwelling Spectral Radiance, Ph.D.

  9. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Improving Convection Parameterization Using ARM Observations and NCAR Community Atmosphere Model Download a printable PDF Submitter: Zhang, G., University of California, San Diego Area of Research: General Circulation and Single Column Models/Parameterizations Working Group(s): Cloud Modeling Journal Reference: Li, G, and GJ Zhang. 2008. "Understanding biases in shortwave cloud radiative forcing in the National Center for Atmospheric Research Community Atmosphere Model (CAM3) during El

  10. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Wide Angle Imaging Lidar: Active Optical Sensor Technology for Ground-Based Probing of Dense Clouds Download a printable PDF Submitter: Davis, A. B., Jet Propulsion Laboratory Area of Research: Cloud Distributions/Characterizations Working Group(s): Cloud Properties Journal Reference: Davis, AB. 2008. "Multiple-scattering lidar from both sides of the clouds: Addressing internal structure." Journal of Geophysical Research 113, D14S10, doi:10.1029/2007JD009666. Figure 1. Lidar

  11. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Minimal Shortwave Anomalous Absorption Found over ACRF Sites Download a printable PDF Submitter: Dong, X., University of North Dakota Minnis, P., NASA - Langley Research Center Area of Research: Radiation Processes Working Group(s): Radiative Processes Journal Reference: Dong, X, BA Wielicki, B Xi, Y Hu, GG Mace, S Benson, F Rose, S Kato, T Charlock, and P Minnis. 2008. "Using observations of deep convective systems to constrain atmospheric column absorption of solar radiation in the

  12. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    The Surprisingly Large Contribution of Small Marine Clouds to Cloud Fraction and Reflectance Download a printable PDF Submitter: Oreopoulos, L., NASA Feingold, G., NOAA - Earth System Research Laboratory Koren, I., Weizmann Institute of Science Remer, L., NASA - GSFC, Laboratory for Atmospheres Area of Research: Clouds with Low Optical [Water] Depths (CLOWD) Working Group(s): Cloud Properties Journal Reference: Koren, I, L Oreopoulos, G Feingold, LA Remer, and O Altaratz. 2008. "How small

  13. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Atmospheric Aerosol Measurements on Cloudy Days: a New Method Download a printable PDF Submitter: Kassianov, E., Pacific Northwest National Laboratory Ovchinnikov, M., Pacific Northwest National Laboratory Area of Research: Aerosol Properties Working Group(s): Aerosol Journal Reference: Kassianov, EI, and M Ovtchinnikov. 2008. "On reflectance ratios and aerosol optical depth retrieval in the presence of cumulus clouds." Geophysical Research Letters doi:10.1029/2008GL033231.

  14. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Detection and Retrieval of Cirrus Clouds in the Tropics from AIRS: Validation from ARM Data Submitter: Yue, Q., Jet Propulsion Laboratory/California Institute of Technology Liou, K., University of California, Los Angeles Area of Research: Cloud Distributions/Characterizations Working Group(s): Cloud Properties Journal Reference: Yue Q and KN Liou. 2009. "Cirrus cloud optical and microphysical properties determined from AIRS infrared spectra." Geophysical Research Letters, 36, L05810,

  15. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    The Influence of Parameterized Ice Habit on Simulated Mixed-Phase Arctic Clouds Download a printable PDF Submitter: Harrington, J. Y., Pennsylvania State University Avramov, A., Columbia University Area of Research: Cloud Distributions/Characterizations Working Group(s): Cloud Modeling Journal Reference: Avramov A and JY Harrington. 2010. "Influence of parameterized ice habit on simulated mixed phase Arctic clouds." Journal of Geophysical Research - Atmospheres, 115, D03205,

  16. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Clouds Brighten Up the Sky Near Them Download a printable PDF Submitter: Varnai, T., University of Maryland, Baltimore County/JCEST Marshak, A., NASA - Goddard Space Flight Center Area of Research: Radiation Processes Working Group(s): Radiative Processes Journal Reference: Varnai T and A Marshak. 2009. "MODIS observations of enhanced clear sky reflectance near clouds." Geophysical Research Letters, 36, L06807, doi:10.1029/2008GL037089. Figure 1. Illustration of clouds enhancing the

  17. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Comparison of Ground-Based Millimeter-Wave Observations During RHUBC I Submitter: Cimini, D., CETEMPS - Dipartimento di Fisica Westwater, E. R., University of Colorado Payne, V., Jet Propulsion Laboratory/California Institute of Technology Turner, D. D., National Oceanic and Atmospheric Administration Mlawer, E. J., Atmospheric & Environmental Research, Inc. Exner, M., Radiometrics Corporation Cadeddu, M. P., Argonne National Laboratory Area of Research: Radiation Processes Working Group(s):

  18. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    New Method for Retrieving Cloud Heights from Satellite Data Download a printable PDF Submitter: Chang, F., Science Systems and Applications, Inc. Minnis, P., NASA - Langley Research Center Area of Research: Cloud Distributions/Characterizations Working Group(s): Cloud Properties Journal Reference: Chang F, P Minnis, B Lin, MM Khaiyer, R Palikonda, and DA Spangenberg. 2010. "A modified method for inferring cloud top height using GOES-12 imager 10.7- and 13.3-µm data." Journal of

  19. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Surface Summertime Radiative Forcing by Shallow Cumuli at the ARM SGP Download a printable PDF Submitter: Berg, L., Pacific Northwest National Laboratory Area of Research: Radiation Processes Working Group(s): Cloud Life Cycle Journal Reference: Berg LK, EI Kassianov, CN Long, and DL Mills. 2011. "Surface summertime radiative forcing by shallow cumuli at the ARM SGP." Journal of Geophysical Research - Atmospheres, 116, D01202, 10.1029/2010JD014593. Histogram of hourly average shortwave

  20. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Adoption of RRTMG in the NCAR CAM5 and CESM1 Global Climate Models Download a printable PDF Submitter: Iacono, M. J., Atmospheric & Environmental Research, Inc. Collins, W. D., Lawrence Berkeley National Laboratory Area of Research: General Circulation and Single Column Models/Parameterizations Working Group(s): Cloud-Aerosol-Precipitation Interactions Journal Reference: N/A Figure 1. Shortwave cloud forcing for three versions of the NCAR Community Atmosphere Model (CAM) with CERES

  1. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Observations of the First Aerosol Indirect Effect in Shallow Cumuli Download a printable PDF Submitter: Berg, L., Pacific Northwest National Laboratory Area of Research: Aerosol Properties Working Group(s): Cloud-Aerosol-Precipitation Interactions Journal Reference: Berg LK, CM Berkowitz, JC Barnard, G Senum, and SR Springston. 2011. "Observations of the first aerosol indirect effect in shallow cumuli." Geophysical Research Letters, 38, L03809, 10.1029/2010GL046047. Mean value of (a)

  2. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Cumuli Impact on Solar Radiation at Surface: Spectral Changes Download a printable PDF Submitter: Kassianov, E., Pacific Northwest National Laboratory Area of Research: Aerosol Properties Working Group(s): Aerosol Life Cycle, Cloud Life Cycle, Cloud-Aerosol-Precipitation Interactions Journal Reference: Kassianov E, J Barnard, LK Berg, CN Long, and C Flynn. 2011. "Shortwave spectral radiative forcing of cumulus clouds from surface observations." Geophysical Research Letters, 38, L07801,

  3. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Possible Impact of Homogeneous Freezing Nucleation on in Situ Measurements Download a printable PDF Submitter: Mitchell, D. L., Desert Research Institute Mishra, S., DOE - SunShot Initiative, AAAS S&T Policy Fellow Area of Research: Cloud Distributions/Characterizations Working Group(s): Cloud Life Cycle, Cloud-Aerosol-Precipitation Interactions Journal Reference: Mitchell DL, S Mishra, and RP Lawson. 2011. Cirrus Clouds and Climate Engineering: New Findings on Ice Nucleation and Theoretical

  4. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Putting the Pieces Together Download a printable PDF Submitter: Fan, J., Pacific Northwest National Laboratory Area of Research: Cloud Distributions/Characterizations Working Group(s): Cloud Life Cycle Journal Reference: Fan J, S Ghan, M Ovchinnikov, X Liu, P Rasch, and A Korolev. 2011. "Representation of arctic mixed-phase clouds and the Wegener-Bergeron-Findeisen process in climate models: Perspectives from a cloud-resolving study." Journal of Geophysical Research - Atmospheres, 116,

  5. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    ARM Science Applications of AERI Measurements: 1997 Progress Submitter: Smith, W. L., NASA - Langley Research Center Area of Research: Radiation Processes Working Group(s): Cloud Modeling Journal Reference: N/A Figure 1. Figs. 1a and 1b contain rms differences from 72 radiosondes for AERI retrievals (blue), GOES retrievals (black), and AERI+GOES retrievals (red) for temperature and mixing ratio respectively during the 1997 Water Vapor IOP. A measure of meteorological the variability of the

  6. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Development and Recent Evaluation of the MT_CKD Model of Continuum Absorption Download a printable PDF Submitter: Mlawer, E. J., Atmospheric & Environmental Research, Inc. Area of Research: Radiation Processes Working Group(s): Cloud Life Cycle Journal Reference: Mlawer EJ, VH Payne, J Moncet, JS Delamere, MJ Alvarado, and DD Tobin. 2012. "Development and recent evaluation of the MT_CKD model of continuum absorption." Philosophical Transactions of The Royal Society A, 370, doi:

  7. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Pollution + Storm Clouds = Warmer Atmosphere Download a printable PDF Submitter: Fan, J., Pacific Northwest National Laboratory Area of Research: Cloud-Aerosol-Precipitation Interactions Working Group(s): Cloud-Aerosol-Precipitation Interactions Journal Reference: Fan J, D Rosenfeld, Y Ding, L Leung, and Z Li. 2012. "Potential aerosol indirect effects on atmospheric circulation and radiative forcing through deep convection." Geophysical Research Letters, 39, L09806,

  8. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    How to Catch Aerosols in the Act Download a printable PDF Submitter: Wang, M., Pacific Northwest National Laboratory Area of Research: Cloud Processes Working Group(s): Cloud Life Cycle Journal Reference: Wang M, S Ghan, X Liu, TS L'Ecuyer, K Zhang, H Morrison, M Ovchinnikov, R Easter, R Marchand, D Chand, Y Qian, and JE Penner. 2012. "Constraining cloud lifetime effects of aerosols using A-Train satellite observations." Geophysical Research Letters, 39, L15709, doi:

  9. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    "Invisible" Giants in the Sky Download a printable PDF Submitter: Kassianov, E., Pacific Northwest National Laboratory Area of Research: Radiation Processes Working Group(s): Aerosol Life Cycle Journal Reference: Kassianov E, M Pekour, and J Barnard. 2012. "Aerosols in central California: Unexpectedly large contribution of coarse mode to aerosol radiative forcing." Geophysical Research Letters, 39, L20806, doi:10.1029/2012GL053469. Daily averaged values of (a, b) the direct

  10. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Quantifying the Magnitude of Anomalous Solar Absorption Submitter: Ackerman, T. P., University of Washington Area of Research: General Circulation and Single Column Models/Parameterizations Working Group(s): Cloud Modeling Journal Reference: N/A Figure 1 Spurred by a series of articles published in 1995 claiming solar absorption in cloudy atmospheres far exceeded model predictions, Atmospheric Radiation Measurement (ARM) Program researchers at the Southern Great Plains (SGP) site in Oklahoma

  11. Research Highlights - Joint Center for Energy Storage Research

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    March 2, 2015, Research Highlights A Lewis Acid-free and Phenolate-based Magnesium Electrolyte for Rechargeable Magnesium Batteries A novel Lewis acid-free all magnesium electrolyte containing 2,6-di-tert-butylphenoxidemagnesium chloride ((DTBP)MgCl + MgCl2) has been deliberately developed. The obtained electrolyte possesses the oxidative stability of up to 2.3 V (vs Mg/Mg2+) with 100% coulombic efficiency, which is comparable to its AlCl3 counterpart. Read More Multivalent Intercalation

  12. Reactive Distillation for Esterification of Bio-based Organic Acids

    SciTech Connect (OSTI)

    Fields, Nathan; Miller, Dennis J.; Asthana, Navinchandra S.; Kolah, Aspi K.; Vu, Dung; Lira, Carl T.

    2008-09-23

    The following is the final report of the three year research program to convert organic acids to their ethyl esters using reactive distillation. This report details the complete technical activities of research completed at Michigan State University for the period of October 1, 2003 to September 30, 2006, covering both reactive distillation research and development and the underlying thermodynamic and kinetic data required for successful and rigorous design of reactive distillation esterification processes. Specifically, this project has led to the development of economical, technically viable processes for ethyl lactate, triethyl citrate and diethyl succinate production, and on a larger scale has added to the overall body of knowledge on applying fermentation based organic acids as platform chemicals in the emerging biorefinery. Organic acid esters constitute an attractive class of biorenewable chemicals that are made from corn or other renewable biomass carbohydrate feedstocks and replace analogous petroleum-based compounds, thus lessening U.S. dependence on foreign petroleum and enhancing overall biorefinery viability through production of value-added chemicals in parallel with biofuels production. Further, many of these ester products are candidates for fuel (particularly biodiesel) components, and thus will serve dual roles as both industrial chemicals and fuel enhancers in the emerging bioeconomy. The technical report from MSU is organized around the ethyl esters of four important biorenewables-based acids: lactic acid, citric acid, succinic acid, and propionic acid. Literature background on esterification and reactive distillation has been provided in Section One. Work on lactic acid is covered in Sections Two through Five, citric acid esterification in Sections Six and Seven, succinic acid in Section Eight, and propionic acid in Section Nine. Section Ten covers modeling of ester and organic acid vapor pressure properties using the SPEAD (Step Potential Equilibrium and Dynamics) method.

  13. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    China's Aerosol Malady Submitter: Bhattacharya, A., Pacific Northwest National Laboratory Area of Research: Radiation Processes Working Group(s): Cloud-Aerosol-Precipitation Interactions Journal Reference: Qiu Y, Q Wang, and F Hu. 2012. "Shouxian aerosol radiative properties measured by DOE AMF and compared with CERES-MODIS." Advanced Materials Research, 518-523(2), doi:10.4028/www.scientific.net/AMR.518-523.1973. Tiananmen tower enveloped by heavy fog and haze in January 2013. Many of

  14. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Madden-Julian Oscillation Heating: to Tilt or Not to Tilt Download a printable PDF Submitter: Schumacher, C., Texas A&M University Area of Research: Cloud Processes Working Group(s): Cloud Life Cycle Journal Reference: Lappen C and C Schumacher. 2014. "The role of tilted heating in the evolution of the MJO." Journal of Geophysical Research - Atmospheres, , 10.1002/2013JD020638. ACCEPTED. In this figure, November through April wavenumber frequency spectrum of OLR (colors) and 850

  15. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Validation of CERES-MODIS Cloud Retrievals Using the Azores Data Download a printable PDF Submitter: Dong, X., University of North Dakota Area of Research: Cloud Processes Working Group(s): Cloud Life Cycle Journal Reference: Xi B, P Minnis, and S Sun-Mack. 2014. "Comparison of marine boundary layer cloud properties from CERES-MODIS edition 4 and DOE ARM AMF measurements at the Azores." Journal of Geophysical Research - Atmospheres, 119, doi:10.1002/2014JD021813. Figure 1. The ARM

  16. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Climate Warming Due to Soot and Smoke? Maybe Not. Submitter: Penner, J. E., University of Michigan Area of Research: Aerosol Properties Working Group(s): Aerosol Journal Reference: Penner, J.E., S.Y. Zhang, and C.C. Chuang, Soot and smoke aerosol may not warm climate, J. Geophys. Res., 108(D21), 4657, doi:10.1029/2003JD003409, 2003. New research results from the Department of Energy's Atmospheric Radiation Measurement (ARM) Program suggest that fossil fuel soot emissions and biomass smoke may

  17. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    ARM Program Achieves Milestone in Global Cloud Properties Research Submitter: Revercomb, H. E., University of Wisconsin, Madison Area of Research: Radiation Processes Working Group(s): Radiative Processes Journal Reference: Knuteson, R.O., Best, F.A., Dedecker, R.G., Feltz, W.F., Revercomb, H.E., and Tobin, D.C., 2004: "10 Years of AERI Data from the DOE ARM Southern Great Plains Site," In Proceedings from the Fourteenth ARM Science Team Meeting, U.S. Department of Energy,Washington,

  18. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Bimodal CCN Spectra Download a printable PDF Submitter: Hudson, J. G., Desert Research Institute Area of Research: Cloud Processes Working Group(s): Cloud-Aerosol-Precipitation Interactions Journal Reference: N/A Figure 1. Differential CCN concentrations (per cm3) against critical supersaturation (Sc) for MASE below cloud CCN spectra for each of the 8 modal categories. (a) cat 1, (b) cat 2, (c) cat 3, (d) cat 4, (e) cat 5, (f) cat 6, (g) cat 7, (h) cat 8. Sc in percent for, Hoppel minima are

  19. RESEARCH QUARTERLY

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    RESEARCH QUARTERLY First Quarter 2015 Th 90 Ac 89 Pa 91 U 92 Np 93 Pu 94 Am 95 Cm 96 Bk 97 Cf 98 Es 99 Fm 100 Md 101 No 102 Lr 103 Glenn T. Seaborg Institute for Transactinium Science/Los Alamos National Laboratory Actinide Research Quarterly About the cover The crystalline structure of plutonium in its elemental form, and in molecules and compounds with other elements, is the basis for understanding the intriguing chemistry, physics, and engineering of plutonium molecules and compounds. Colored

  20. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    ARM M-PACE Data Used to Evaluate and Improve Arctic Mixed-Phase Clouds Simulated in Climate Models Download a printable PDF Submitter: Xie, S., Lawrence Livermore National Laboratory Area of Research: General Circulation and Single Column Models/Parameterizations Working Group(s): Cloud Modeling Journal Reference: Xie, S, J Boyle, SA Klein, X Liu, and S Ghan. 2008. "Simulations of Arctic mixed-phase clouds in forecasts with CAM3 and AM2 for M-PACE." Journal of Geophysical Research 113,

  1. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    The Apparent Bluing of Aerosols Near Clouds Download a printable PDF Submitter: Marshak, A., NASA - Goddard Space Flight Center Area of Research: Radiation Processes Working Group(s): Radiative Processes Journal Reference: Marshak, A, G Wen, JA Coakley, LA Remer, NG Loeb, and RF Cahalan. 2008. "A simple model of the cloud adjacency effect and the apparent bluing of aerosols near clouds." Journal of Geophysical Research 113, D14S17, doi: 10.1029/2007JD009196. (upper panel) A schematic

  2. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Remote Sensing of Mineral Dust Using AERI Download a printable PDF Submitter: Hansell, R. A., University of California, Los Angeles Area of Research: Radiation Processes Working Group(s): Aerosol Journal Reference: Hansell R, KN Liou, SC Ou, SC Tsay, Q Ji, and JS Reid. 2008. "Remote sensing of mineral dust aerosol using AERI during the UAE2: A modeling and sensitivity study." Journal of Geophysical Research - Atmospheres, 113, D18202, doi:10.1029/2008JD010246. BT sensitivity to dust

  3. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Long-Term Observations of Convective Boundary Layer Using Insect Returns at SGP Download a printable PDF Submitter: Chandra, A. S., McGill University Area of Research: Vertical Velocity Working Group(s): Cloud Life Cycle Journal Reference: Chandra AS, P Kollias, SE Giangrande, and SA Klein. 2010. "Long-term observations of the convective boundary layer using insect radar returns at the SGP ARM Climate Research Facility." Journal of Climate, 23, 5699-5714. Example of time-height mapping

  4. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Improving the Treatment of Radiation in Climate Models Download a printable PDF Submitter: Delamere, J. S., Tech-X Corporation Area of Research: Radiation Processes Working Group(s): Aerosol Life Cycle, Cloud Life Cycle Journal Reference: Delamere JS, SA Clough, VH Payne, EJ Mlawer, DD Turner, and RR Gamache. 2010. "A far-infrared radiative closure study in the Arctic: Application to water vapor." Journal of Geophysical Research - Atmospheres, 115, D17106, 10.1029/2009JD012968. The

  5. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Predicting Arctic Sea Ice Loss Download a printable PDF Submitter: Liu, X., University of Wyoming Area of Research: Cloud-Aerosol-Precipitation Interactions Working Group(s): Cloud-Aerosol-Precipitation Interactions Journal Reference: Liu X, S Xie, J Boyle, SA Klein, X Shi, Z Wang, W Lin, SJ Ghan, M Earle, PS Liu, and A Zelenyuk. 2011. "Testing cloud microphysics parameterizations in NCAR CAM5 with ISDAC and M-PACE observations." Journal of Geophysical Research, 116, D00T11,

  6. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    New Method for Three-Dimensional Imaging of Cirrus Clouds Submitter: Liou, K., University of California, Los Angeles Area of Research: Cloud Distributions/Characterizations Working Group(s): Cloud Properties Journal Reference: Liou, K.N, S.C. Ou, Y. Takano, J. Roskovensky, G.G. Mace, K. Sassen, and M. Poellot, 2002: "Remote sensing of three-dimensional inhomogeneous cirrus clouds using satellite and mm-wave cloud radar data," Geophysical Research Letters 29(9): 1360. Figure 1 ARM Data

  7. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Partly Cloudy with a Chance of Aerosol Download a printable PDF Submitter: Chand, D., Pacific Northwest National Laboratory Area of Research: Aerosol Properties Working Group(s): Aerosol Life Cycle Journal Reference: Chand D, R Wood, SJ Ghan, M Wang, M Ovchinnikov, PJ Rasch, S Miller, B Schichtel, and T Moore. 2012. "Aerosol optical depth increase in partly cloudy conditions." Journal of Geophysical Research, 117, D17207, doi:10.1029/2012JD017894. The sky can appear nearly clear or

  8. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    The Short and the Long of Storms: Tracing a Deep Convective System's Life in the Midlatitude Download a printable PDF Submitter: Feng, Z., Pacific Northwest National Laboratory Area of Research: Cloud Processes Working Group(s): Cloud Life Cycle Journal Reference: Feng Z, X Dong, B Xi, S McFarlane, A Kennedy, B Lin, and P Minnis. 2012. "Life cycle of midlatitude deep convective systems in a Lagrangian framework." Journal of Geophysical Research - Atmospheres, 117(D23), D23201,

  9. Errvironmentaf Research

    Office of Legacy Management (LM)

    online at www.sciencedirect.com Environmental Research 10 1 (2006) 3 4 4 1 Errvironmentaf Research Do scientists and fishermen collect the same size fish? Possible implications for exposure assessment Joanna urger^^^^', Michael ~ o c h f e l d ~ ~ ~ , Sean Christian W. ~ e i t n e r ~ . ~ , Stephen ~ e w e t t ~ , Daniel SnigarofP, Ronald snigarofff, Tim Starnrng, Shawn ~ a r ~ e f , Max ~ o b e r ~ * , Heloise chenelotd, Robert patrickh, Conrad D. volzi, James ~ e s t o d 'Division of Life

  10. Postdoctoral Research Awards Annual Research Meeting: Brandon...

    Office of Energy Efficiency and Renewable Energy (EERE) Indexed Site

    Brandon Mercado Postdoctoral Research Awards Annual Research Meeting: Brandon Mercado Poster Presentation at 2012 EERE Annual Research Meeting, Postdoctoral Research Awards, from ...

  11. Postdoctoral Research Awards Annual Research Meeting: Padmaja...

    Office of Energy Efficiency and Renewable Energy (EERE) Indexed Site

    Padmaja Gunda Postdoctoral Research Awards Annual Research Meeting: Padmaja Gunda Poster Presentation at 2012 EERE Annual Research Meeting, Postdoctoral Research Awards, from the ...

  12. Postdoctoral Research Awards Annual Research Meeting: Joseph...

    Office of Energy Efficiency and Renewable Energy (EERE) Indexed Site

    Joseph Mondloch Postdoctoral Research Awards Annual Research Meeting: Joseph Mondloch Postdoctoral Research Awards Annual Research Meeting: Joseph Mondloch poster presentation. PDF ...

  13. Jointly Sponsored Research Program Energy Related Research

    SciTech Connect (OSTI)

    Western Research Institute

    2009-03-31

    Cooperative Agreement, DE-FC26-98FT40323, Jointly Sponsored Research (JSR) Program at Western Research Institute (WRI) began in 1998. Over the course of the Program, a total of seventy-seven tasks were proposed utilizing a total of $23,202,579 in USDOE funds. Against this funding, cosponsors committed $26,557,649 in private funds to produce a program valued at $49,760,228. The goal of the Jointly Sponsored Research Program was to develop or assist in the development of innovative technology solutions that will: (1) Increase the production of United States energy resources - coal, natural gas, oil, and renewable energy resources; (2) Enhance the competitiveness of United States energy technologies in international markets and assist in technology transfer; (3) Reduce the nation's dependence on foreign energy supplies and strengthen both the United States and regional economies; and (4) Minimize environmental impacts of energy production and utilization. Under the JSR Program, energy-related tasks emphasized enhanced oil recovery, heavy oil upgrading and characterization, coal beneficiation and upgrading, coal combustion systems development including oxy-combustion, emissions monitoring and abatement, coal gasification technologies including gas clean-up and conditioning, hydrogen and liquid fuels production, coal-bed methane recovery, and the development of technologies for the utilization of renewable energy resources. Environmental-related activities emphasized cleaning contaminated soils and waters, processing of oily wastes, mitigating acid mine drainage, and demonstrating uses for solid waste from clean coal technologies, and other advanced coal-based systems. Technology enhancement activities included resource characterization studies, development of improved methods, monitors and sensors. In general the goals of the tasks proposed were to enhance competitiveness of U.S. technology, increase production of domestic resources, and reduce environmental impacts associated with energy production and utilization. This report summarizes the accomplishments of the JSR Program.

  14. ASU EFRC - Center researchers

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Center researchers Chad Simmons Academic Professional Gerdenis Kodis Research Assistant Professor Raimund Fromme Faculty Research Associate Yuichi Terazono Faculty Research...

  15. ARM - Funded Research Proposals

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Research Proposals Science Research Themes Research Highlights Journal Articles Collaborations Atmospheric System Research (ASR) Earth System Modeling Regional &...

  16. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Diagnosing Raindrop Evaporation, Breakup, and Coalescence in Vertical Radar Observations PI Contact: Williams, C. R., University of Colorado Area of Research: Cloud Processes Working Group(s): Cloud Life Cycle Journal Reference: Williams CR. 2016. "Reflectivity and Liquid Water Content Vertical Decomposition Diagrams to Diagnose Vertical Evolution of Raindrop Size Distributions." Journal of Atmospheric and Oceanic Technology, 33(3), doi: 10.1175/jtech-d-15-0208.1. Example of

  17. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Microphysical Piggybacking: Understanding the Coupling Between Cloud Dynamics and Microphysics PI Contact: Grabowski, W., NCAR Area of Research: Cloud-Aerosol-Precipitation Interactions Working Group(s): Cloud-Aerosol-Precipitation Interactions Journal Reference: Grabowski WW. 2014. "Extracting microphysical impacts in large-eddy simulations of shallow convection." Journal of the Atmospheric Sciences, 71(12), 10.1175/JAS-D-14-0231.1. Grabowski WW. 2015. "Untangling microphysical

  18. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Regime Dependence of Cloud Water Variability Observed at the ARM Sites PI Contact: Ahlgrimm, M., European Centre for Medium-Range Weather Forecasts Area of Research: General Circulation and Single Column Models/Parameterizations Working Group(s): Cloud Life Cycle Journal Reference: Ahlgrimm M and RM Forbes. 2016. "Regime dependence of cloud condensate variability observed at the Atmospheric Radiation Measurement sites." Quarterly Journal Royal Meteorological Society, ,

  19. Research Opportunities

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Opportunities /collaboration/_assets/images/icon-collaboration.jpg Research Opportunities Partnering with respected universities, LANL Centers provide exceptional educational opportunities and support staff recruitment, revitalization, and retention. Center for Nonlinear Studies» Quantum Institute» Energy Security Center» Seaborg Institute» Center for Space and Earth Science» TOP STORIES - highlights of our science, people, technologies close Science on the Hill: Why space weather matters

  20. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Modeling Aerosols in Fair-Weather Clouds During CHAPS Download a printable PDF Submitter: Shrivastava, M., Pacific Northwest National Laboratory Area of Research: Cloud-Aerosol-Precipitation Interactions Working Group(s): Cloud-Aerosol-Precipitation Interactions Journal Reference: Shrivastava M, LK Berg, J Fast, R Easter, A Laskin, WI Gustafson, Y Liu, and CM Berkowitz. 2013. "Modeling aerosols and their interactions with shallow cumuli during the 2007 CHAPS field study." Journal of

  1. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Fair-Weather Clouds Hold Dirty Secret Download a printable PDF Submitter: Shrivastava, M., Pacific Northwest National Laboratory Area of Research: Cloud-Aerosol-Precipitation Interactions Working Group(s): Cloud-Aerosol-Precipitation Interactions Journal Reference: Shrivastava MB, JD Fast, RC Easter, WI Gustafson, RA Zaveri, JL Jimenez, P Saide, and A Hodzic. 2011. "Modeling organic aerosols in a megacity: Comparison of simple and complex representations of the volatility basis set

  2. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Statistics of Vertical Velocities from Monsoonal Convection with Verification Download a printable PDF Submitter: Collis, S. M., Argonne National Laboratory Area of Research: Vertical Velocity Working Group(s): Cloud Life Cycle Journal Reference: Collis S, A Protat, PT May, and C Williams. 2013. "Statistics of storm updraft velocities from TWP-ICE including verification with profiling measurements." Journal of Applied Meteorology and Climatology, 52(8), 10.1175/jamc-d-12-0230.1. A

  3. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    What Controls the Vertical Extent of Continental Shallow Cumulus? Download a printable PDF Submitter: Zhang, Y., Lawrence Livermore National Laboratory Area of Research: Cloud Processes Working Group(s): Cloud Life Cycle Journal Reference: Zhang Y and SA Klein. 2013. "Factors controlling the vertical extent of fair-weather shallow cumulus clouds over land: investigation of diurnal-cycle observations collected at the ARM Southern Great Plains site." Journal of the Atmospheric Sciences,

  4. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Importance of Environmental Instability to the Sensitivity of the Rimed Ice Species in Convection Download a printable PDF Submitter: Van Weverberg, K., Brookhaven National Laboratory Vogelmann, A. M., Brookhaven National Laboratory Area of Research: Cloud Processes Working Group(s): Cloud Life Cycle Journal Reference: Van Weverberg K. 2013. "Impact of environmental instability on convective precipitation uncertainty associated with the nature of the rimed ice species in a bulk microphysics

  5. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Different Strokes for Different Folks-Not Any More, Say Scientists at the UK Met Office Submitter: Morcrette, C., Met Office Bhattacharya, A., Pacific Northwest National Laboratory Area of Research: Cloud Processes Working Group(s): Cloud Life Cycle Journal Reference: Morcrette CJ, EJ O'Connor, and JC Petch. 2012. "Evaluation of two cloud parametrization schemes using ARM and Cloud-Net observations." Quarterly Journal Royal Meteorological Society, 138(665), doi:10.1002/qj.969. Errors

  6. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    A Finer Mesh to Improve Cloud Representation in Climate Models? Submitter: Bhattacharya, A., Pacific Northwest National Laboratory Area of Research: Cloud Processes Working Group(s): Cloud Life Cycle Journal Reference: Boutle IA, SJ Abel, PG Hill, and CJ Morcrette. 2013. "Spatial variability of liquid cloud and rain: observations and microphysical effects." Quarterly Journal Royal Meteorological Society, , doi:10.1002/qj.2140. Different sizes of water droplets as well as varying water

  7. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Cloud Survey over West Africa Reveals Climate Impact of Mid-Level Clouds Submitter: Bhattacharya, A., Pacific Northwest National Laboratory Area of Research: Cloud Processes Working Group(s): Cloud Life Cycle Journal Reference: Bouniol D, F Couvreux, PH Kamsu-Tamo, M Leplay, F Guichard, F Favot, and EJ O'Connor. 2012. "Diurnal and seasonal cycles of cloud occurrences, types, and radiative impact over West Africa." Journal of Applied Meteorology and Climatology, 51(3),

  8. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Tropical Ice Cloud Simulations Using Scripps Single Column Model (SCM) Reveal Range of Model Uncertainties Submitter: McFarquhar, G., University of Illinois, Urbana Area of Research: General Circulation and Single Column Models/Parameterizations Working Group(s): Cloud Modeling Journal Reference: McFarquhar, G.M., S. Iacobellis, R.C.J. Somerville. SCM Simualtions of Tropical Ice Clouds Using Observationally Based Parameterizations of Microphysics, Journal of Climate: Vol 15, No. 11, pp.

  9. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    The Role of Microphysics Parameterization in Simulating Tropical Mesoscale Convective Systems Download a printable PDF Submitter: Van Weverberg, K., Brookhaven National Laboratory Vogelmann, A. M., Brookhaven National Laboratory Area of Research: Cloud Processes Working Group(s): Cloud Life Cycle Journal Reference: Van Weverberg K, AM Vogelmann, W Lin, EP Luke, AT Cialella, P Minnis, MM Khaiyer, ER Boer, and MP Jensen. 2013. "The role of cloud microphysics parameterization in the simulation

  10. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    An Application of Linear Programming Techniques to ARM Polarimetric Radar Processing Download a printable PDF Submitter: Giangrande, S., Brookhaven National Laboratory Area of Research: Cloud Processes Working Group(s): Cloud Life Cycle Journal Reference: Giangrande SE, R McGraw, and L Lei. 2013. "An application of linear programming to polarimetric radar differential phase processing." Journal of Atmospheric and Oceanic Technology, , . ACCEPTED. C-band scanning ARM precipitation radar

  11. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    New Insights Into Deep Convective Core Vertical Velocities Using ARM UHF Wind Profilers Download a printable PDF Submitter: Giangrande, S., Brookhaven National Laboratory Area of Research: Vertical Velocity Working Group(s): Cloud Life Cycle Journal Reference: Giangrande SE, S Collis, J Straka, A Protat, C Williams, and S Krueger. 2013. "A summary of convective core vertical velocity properties using ARM UHF wind profilers in Oklahoma." Journal of Applied Meteorology and Climatology, ,

  12. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Linking Ice Nucleation to Aerosols and Its Impact on CAM5 Simulated Arctic Clouds and Radiation Download a printable PDF Submitter: Xie, S., Lawrence Livermore National Laboratory Area of Research: General Circulation and Single Column Models/Parameterizations Working Group(s): Cloud Life Cycle Journal Reference: Xie S, X Liu, C Zhao, and Y Zhang. 2013. "Sensitivity of CAM5 simulated arctic clouds and radiation to ice nucleation parameterization." Journal of Climate, 26(16),

  13. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Wildfires Lead to More Warming Than Climate Models Predict, a New Mexico Fire Study Reports Download a printable PDF Submitter: Bhattacharya, A., Pacific Northwest National Laboratory Area of Research: Aerosol Properties Working Group(s): Aerosol Life Cycle Journal Reference: China S, C Mazzoleni, K Gorkowski, AC Aiken, and MK Dubey. 2013. "Morphology and mixing state of individual freshly emitted wildfire carbonaceous particles." Nature Communications, 4, 2122, doi:10.1038/ncomms3122.

  14. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    The Impact of Instrument Selection and Sampling on Cloud Fraction at the ARM Southern Great Plains Site Download a printable PDF Submitter: Kennedy, A. D., University of North Dakota Area of Research: Cloud Distributions/Characterizations Working Group(s): Cloud Life Cycle Journal Reference: Kennedy AD, X Dong, and B Xi. 2013. "Cloud Fraction at the ARM SGP Site: Instrument and sampling considerations from 14 years of ARSCL." Theoretical and Applied Climatology (Springer), 115(1-2),

  15. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Modified Climate Model Better Replicates Global Rainfall Submitter: Bhattacharya, A., Pacific Northwest National Laboratory Area of Research: Cloud-Aerosol-Precipitation Interactions Working Group(s): Cloud-Aerosol-Precipitation Interactions Journal Reference: Song X, GJ Zhang, and JF Li. 2012. "Evaluation of microphysics parameterization for convective clouds in the NCAR Community Atmosphere Model CAM5." Journal of Climate, 25(24), doi:10.1175/JCLI-D-11-00563.1. Rainfall in the

  16. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    A Tall Order: Climate Models Fall Short in Predicting African Sahel Rainfall Download a printable PDF Submitter: Roehrig, R., Meteo-France CNRM/GMME/MOANA Area of Research: General Circulation and Single Column Models/Parameterizations Working Group(s): Cloud-Aerosol-Precipitation Interactions Journal Reference: Roehrig R, D Bouniol, F Guichard, F Hourdin, and JL Redelsperger. 2013. "The present and future of the West African Monsoon: A process-oriented assessment of CMIP5 simulations along

  17. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    First Comes the Thunder: Precursors to Local Rainfall in the West African Monsoon Download a printable PDF Submitter: Roeder, L. R., Pacific Northwest National Laboratory Area of Research: Cloud Processes Working Group(s): Cloud Life Cycle Journal Reference: Dione C, M Lothon, D Badiane, B Campistron, F Couvreau, F Guichard, and S Sall. 2013. "Phenomenology of Sahelian convection observed in Niamey during the early monsoon." Quarterly Journal Royal Meteorological Society, , . ACCEPTED.

  18. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Addressing the "Light Precipitation Problem" in the ECMWF Global Model Download a printable PDF Submitter: Ahlgrimm, M., European Centre for Medium-Range Weather Forecasts Area of Research: General Circulation and Single Column Models/Parameterizations Working Group(s): Cloud Life Cycle Journal Reference: Ahlgrimm M and R Forbes. 2013. "Improving the representation of low clouds and drizzle in the ECMWF model based on ARM observations from the Azores." Monthly Weather Review,

  19. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Determining the Future of CO2 Using an Earth System Model Download a printable PDF Submitter: Keppel-Aleks, G., University of Michigan Area of Research: General Circulation and Single Column Models/Parameterizations Working Group(s): Aerosol Life Cycle Journal Reference: Keppel-Aleks G, JT Randerson, K Lindsay, BB Stephens, JK Moore, SC Doney, PE Thornton, NM Mahowald, FM Hoffman, C Sweeney, PP Tans, PO Wennberg, and SC Wofsy. 2013. "Atmospheric carbon dioxide variability in the Community

  20. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Ground Stations Likely Get a Boost from Satellites to Estimate Carbon Dioxide Emissions Download a printable PDF Submitter: Roeder, L. R., Pacific Northwest National Laboratory Area of Research: Surface Properties Working Group(s): Aerosol Life Cycle Journal Reference: Basu S, S Guerlet, A Butz, S Houweling, OP Hasekamp, I Aben, PB Krummel, LP Steele, RL Langenfelds, MS Torn, SC Biraud, B Stephens, A Andrews, and D Worthy. 2013. "Global CO2 fluxes estimated from GOSAT retrievals of total

  1. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    All Mixed Up-Probing Large and Small Scale Turbulence Structures in Continental Stratocumulus Clouds Download a printable PDF Submitter: Fang, M., University of Miami Albrecht, B. A., University of Miami Area of Research: Radiation Processes Working Group(s): Cloud Life Cycle Journal Reference: Fang M, BA Albrecht, VP Ghate, and P Kollias. 2013. "Turbulence in continental stratocumulus, Part I: External forcings and turbulence structures." Boundary-Layer Meteorology, 149(454),

  2. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Does Glyoxal Contribute Significantly to Regional SOA Formation? Download a printable PDF Submitter: Knote, C., Atmospheric Chemistry Division Hodzic, A., NCAR Area of Research: Aerosol Processes Working Group(s): Aerosol Life Cycle Journal Reference: Knote C, A Hodzic, J Jimenez, R Volkamer, JJ Orlando, S Baidar, J Brioude, J Fast, DR Gentner, AH Goldstein, PL Hayes, BW Knighton, H Oetjen, A Setyan, H Stark, R Thalman, G Tyndall, R Washenfelder, E Waxman, and Q Zhang. 2014. "Simulation of

  3. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Marine Stratocumulus Clouds: Turbulence-Raidation-Thermodynamics Coupling Download a printable PDF Submitter: Ghate, V. P., Argonne National Laboratory Area of Research: Radiation Processes Working Group(s): Cloud Life Cycle Journal Reference: Ghate VP, BA Albrecht, MA Miller, A Brewer, and CW Fairall. 2014. "Turbulence and radiation in stratocumulus-topped marine boundary layers: A case study from VOCALS-REx." Journal of Applied Meteorology and Climatology, 53, 117-135. Figure 1.

  4. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Initial Aerosol Concentration Is Key Contributor to Low-Level Cloud Reflectivity Submitter: Penner, J. E., University of Michigan Area of Research: Aerosol Properties Working Group(s): Aerosol Journal Reference: Penner, J., Dong, X., Chen. Y., Observational evidence of a change in radiative forcing due to the indirect aerosol effect, Nature, Vol. 427, 15 January 2004. Cloud optical depth, as determined from the parcel model, is indicated by the dots. Red lines show best fit data of cloud liquid

  5. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Most Systematic Errors in Climate Models Appear in Only a Few Days of Model Integration Download a printable PDF Submitter: Ma, H., Lawrence Livermore National Laboratory Area of Research: Cloud Distributions/Characterizations Working Group(s): Cloud Life Cycle Journal Reference: Ma H, S Xie, SA Klein, KD Williams, JS Boyle, S Bony, H Douville, S Fermepin, B Medeiros, S Tyteca, M Watanabe, and DL Williamson. 2014. "On the correspondence between mean forecast errors and climate errors in

  6. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Reality Check: Estimates for Human-Caused Methane Emissions in the U.S. Appear Off by 50% Download a printable PDF Submitter: Biraud, S. C., Lawrence Berkeley National Laboratory Area of Research: Aerosol Properties Working Group(s): Aerosol Life Cycle Journal Reference: Miller SM, SC Wofsy, AM Michalak, EA Kort, AE Andrews, SC Biraud, EJ Dlugokencky, J Elszkeiwicz, ML Fischer, G Janssens-Maenhout, BR Miller, JB Miller, SA Montzka, T Nehrkorn, and C Sweeney. 2013. "Anthropogenic emissions

  7. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Arctic Winter Frost Flowers Have Negligible Influence on Cloud Longwave Warming Download a printable PDF Submitter: Xu, L., University of California, San Diego Russell, L. M., Scripps Institution of Oceanography Area of Research: Aerosol Processes Working Group(s): Aerosol Life Cycle, Cloud-Aerosol-Precipitation Interactions Journal Reference: Xu L, LM Russell, RC Somerville, and PK Quinn. 2013. "Frost flower aerosol effects on Arctic wintertime longwave cloud radiative forcing."

  8. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Multi-scale Variations of Decade-long Cloud Fractions from Six Different Platforms over the SGP Download a printable PDF Submitter: Wu, W., Brookhaven National Laboratory Area of Research: Cloud Distributions/Characterizations Working Group(s): Cloud Life Cycle Journal Reference: Wu W, Y Liu, MP Jensen, T Toto, MJ Foster, and CN Long. 2014. "A comparison of multiscale variations of decade-long cloud fractions from six different platforms over the Southern Great Plains in the United

  9. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    The Organic Molecules Explaining New Particle Growth in the Boreal Forest Download a printable PDF Submitter: Thornton, J., University of Washington Area of Research: Aerosol Processes Working Group(s): Aerosol Life Cycle Journal Reference: Ehn M, JA Thornton, E Kleist, M Sipila, H Junninen, I Pullinen, M Springer, F Rubach, R Tillmann, B Lee, F Lopez-Hilfiker, S Andres, I Acir, M Rissanen, T Jokinen, S Schobesberger, J Kangasluoma, J Kontkanen, T Nieminen, T Kurten, LB Nielsen, S Jorgensen, HG

  10. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Which Absorption Model Should Be Used for Supercooled Liquid Water in the Microwave? Download a printable PDF Submitter: Kneifel, S., McGill University Area of Research: Radiation Processes Working Group(s): Cloud Life Cycle Journal Reference: Kneifel S, S Redl, E Orlandi, U Löhnert, MP Cadeddu, DD Turner, and M Chen. 2014. "Absorption properties of supercooled liquid water between 31 and 225 GHz: evaluation of absorption models using ground-based observations." Journal of Applied

  11. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    The Emergence of Open Source Software for the Weather Radar Community Download a printable PDF Submitter: Collis, S. M., Argonne National Laboratory Area of Research: Cloud Processes Working Group(s): Cloud Life Cycle, Cloud-Aerosol-Precipitation Interactions Journal Reference: Heistermann M, S Collis, MJ Dixon, SE Giangrande, JJ Helmus, B Kelley, J Koistinen, DB Michelson, P Markus, T Pfaff, and DB Wolff. 2014. "The Emergence of Open Source Software for the Weather Radar Community."

  12. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Merging Cloud and Precipitation Radar Data Provides a Better View of Tropical Rain Clouds Download a printable PDF Submitter: Comstock, J. M., Pacific Northwest National Laboratory Area of Research: Cloud Processes Working Group(s): Cloud Life Cycle Journal Reference: Feng Z, SA McFarlane, C Schumacher, S Ellis, J Comstock, and N Bharadwaj. 2014. "Constructing a merged cloud-precipitation radar dataset for tropical convective clouds during the DYNAMO/AMIE experiment at Addu Atoll."

  13. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Scientists Uncover Combustion Mechanism to Better Predict Warming by Wildfires Download a printable PDF Submitter: Dubey, M. K., Los Alamos National Laboratory Donahue, N., Carnegie Mellon University Area of Research: Radiation Processes Working Group(s): Aerosol Life Cycle Journal Reference: Saleh R, E Robinson, D Tkacik, A Ahern, S Liu, A Aiken, R Sullivan, A Presto, M Dubey, R Yokelson, N Donahue, and A Robinson. 2014. "Brownness of organics in aerosols from biomass burning linked to

  14. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Phase State and Physical Properties of Ambient and Lab Generated Aerosols: X-ray Microscopy Download a printable PDF Submitter: OBrien, R. E., Lawrence Berkeley National Laboratory Gilles, M., Lawrence Berkeley National Laboratory Area of Research: Aerosol Properties Working Group(s): Aerosol Life Cycle Journal Reference: O'Brien RE, A Neu, SA Epstein, AC MacMillan, B Wang, ST Kelly, SA Nizkorodov, A Laskin, RC Moffet, and MK Gilles. 2014. "Physical properties of ambient and

  15. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Ice Concentration Retrieval in Stratiform Mixed-Phase Clouds Using Cloud Radar Measurements Download a printable PDF Submitter: Zhang, D., University of Wyoming Wang, Z., University of Wyoming Area of Research: Cloud Processes Working Group(s): Cloud Life Cycle Journal Reference: Zhang D, Z Wang, A Heymsfield, J Fan, and T Luo. 2014. "Ice concentration retrieval in stratiform mixed-phase clouds using cloud radar reflectivity measurements and 1-D ice-growth model simulations." Journal

  16. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    The Anatomy and Physics of ZDR Columns Submitter: Kumjian, M., Pennsylvania State University Area of Research: Cloud Processes Working Group(s): Cloud Life Cycle, Cloud-Aerosol-Precipitation Interactions Journal Reference: Kumjian MR, AP Khain, N Benmoshe, E Ilotoviz, AV Ryzhkov, and VT Phillips. 2014. "The anatomy and physics of ZDR columns: Investigating a polarimetric radar signature with a spectral bin microphysical model." Journal of Applied Meteorology and Climatology, 53(7),

  17. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    A New Theory of Time-dependent Freezing and Its Application to Investigation of Formation of Hail Download a printable PDF Submitter: Khain, A., The Hebrew University of Jerusalem Phillips, V., University of Leeds Area of Research: Cloud Processes Working Group(s): Cloud-Aerosol-Precipitation Interactions Journal Reference: Phillips VT, A Khain, N Benmoshe, E Ilotoviz, and A Ryzhkov. 2014. "Theory of time-dependent freezing. II: Scheme for freezing raindrops and simulations by a cloud model

  18. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    First Observations of Tracking Clouds Using Scanning ARM Cloud Radars Download a printable PDF Submitter: Borque, P., McGill University Area of Research: Cloud Processes Working Group(s): Cloud Life Cycle Journal Reference: Borque P, P Kollias, and S Giangrande. 2014. "First observations of tracking clouds using scanning ARM cloud radars." Journal of Applied Meteorology and Climatology, , . ONLINE. A 2.5-hour long observing sequence from 25 May 2011 of (a) the Total Sky Imager (TSI)

  19. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Clouds, Aerosol, and Precipitation in the Marine Boundary Layer: an ARM Mobile Facility Deployment Download a printable PDF Submitter: Wood, R., University of Washington Area of Research: Cloud-Aerosol-Precipitation Interactions Working Group(s): Cloud-Aerosol-Precipitation Interactions Journal Reference: N/A Composite seasonal cycles of (a) cloud droplet concentration retrieved using a variety of methods; (b) surface measured cloud condensation nuclei concentrations at four supersaturations.

  20. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Growing More Effective Ways to Measure Climate Change Download a printable PDF Submitter: Maseyk, K. S., Universite Pierre et Marie Curie, Paris 6 Area of Research: Surface Properties Working Group(s): Cloud-Aerosol-Precipitation Interactions Journal Reference: Maseyk K, JA Berry, D Billesbach, JE Campbell, MS Torn, M Zahniser, and U Seibt. 2014. "Sources and sinks of carbonyl sulfide in an agricultural field in the Southern Great Plains." Proceedings of the National Academy of

  1. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Hail Generation and Melting in Deep Convective Clouds from the Perspective of Dual-polarization Download a printable PDF Submitter: Ryzhkov, A., National Severe Storms Laboratory Area of Research: Cloud Processes Working Group(s): Cloud Life Cycle Journal Reference: Ryzhkov AV, MR Kumjian, SM Ganson, and AP Khain. 2014. "Polarimetric radar characteristics of melting hail. Part I: Theoretical simulations using spectral microphysical modeling." Journal of Applied Meteorology and

  2. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Validation of Climate Model Ice Cloud Properties Download a printable PDF Submitter: Eidhammer, T., NCAR Area of Research: Cloud Processes Working Group(s): Cloud Life Cycle Journal Reference: Eidhammer T, H Morrison, A Bansemer, A Gettelman, and AJ Heymsfield. 2014. "Comparison of ice cloud properties simulated by the Community Atmosphere Model (CAM5) with in situ observations." Atmospheric Chemistry and Physics, 14(18), doi:10.5194/acp-14-10103-2014. Mass weighted terminal fall

  3. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Modeling Dust as Component Minerals in the Community Atmosphere Model Download a printable PDF Submitter: Ghan, S. J., Pacific Northwest National Laboratory Area of Research: Radiation Processes Working Group(s): Cloud-Aerosol-Precipitation Interactions Journal Reference: Scanza R, N Mahowald, S Ghan, CS Zender, JF Kok, Y Zhang, and S Albani. 2015. "Modeling dust as component minerals in the Community Atmosphere Model: development of framework and impact on radiative forcing."

  4. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Overly Intense Convective Updrafts Exposed as a Significant Contributor to Model Biases Submitter: Varble, A., University of Utah Zipser, E., University of Utah Area of Research: Cloud Processes Working Group(s): Cloud Life Cycle Journal Reference: Varble A, EJ Zipser, AM Fridlind, P Zhu, AS Ackerman, J Chaboureau, S Collis, J Fan, A Hill, and B Shipway. 2014. "Evaluation of cloud-resolving and limited area model simulations using TWP-ICE observations. Part 1: Deep convective updraft

  5. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Finding the Causes for Consistently Low Biased Stratiform Rainfall in Models Submitter: Varble, A., University of Utah Zipser, E., University of Utah Area of Research: Cloud Processes Working Group(s): Cloud Life Cycle Journal Reference: Varble A, EJ Zipser, AM Fridlind, P Zhu, AS Ackerman, J Chaboureau, J Fan, A Hill, B Shipway, and C Williams. 2014. "Evaluation of cloud-resolving and limited area model simulations using TWP-ICE observations. 2. Precipitation microphysics." Journal of

  6. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Filling Gaps Within Instrument Records Submitter: Kennedy, A. D., University of North Dakota Area of Research: Cloud Distributions/Characterizations Working Group(s): Cloud Life Cycle Journal Reference: Kennedy AD, X Dong, and B Xi. 2015. "Cloud fraction at the ARM SGP site: reducing uncertainty with self-organizing maps." Theoretical and Applied Climatology, , . ONLINE. Example of a large, 40x30 (1200 class) SOM generated from 14 years of synoptic states provided by the North American

  7. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Satellite Inference of Thermals and Cloud Base Updraft Speeds Download a printable PDF Submitter: Zheng, Y., University of Maryland Area of Research: Vertical Velocity Working Group(s): Cloud-Aerosol-Precipitation Interactions Journal Reference: Zheng Y, D Rosenfeld, and Z Li. 2015. "Satellite inference of thermals and cloud base updraft speeds based on retrieved surface and cloud base temperatures." Journal of the Atmospheric Sciences, , . ONLINE. Validation of satellite-estimated

  8. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Intersecting Cold Pools: Convective Cloud Organization by Cold Pools over Tropical Ocean Download a printable PDF Submitter: Feng, Z., Pacific Northwest National Laboratory Area of Research: Cloud Processes Working Group(s): Cloud Life Cycle Journal Reference: Feng Z, S Hagos, AK Rowe, CD Burleyson, MN Martini, and SP de Szoeke. 2015. "Mechanisms of convective cloud organization by cold pools over tropical warm ocean during the AMIE/DYNAMO field campaign." Journal of Advances in

  9. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Modeling Precipitating Cumulus Congestus Observed by the ARM Radar Suite During the MC3E Field Campaign Download a printable PDF Submitter: Mechem, D. B., University of Kansas Area of Research: Cloud Processes Working Group(s): Cloud Life Cycle, Cloud-Aerosol-Precipitation Interactions Journal Reference: Mechem DB, SE Giangrande, CS Wittman, P Borque, T Toto, and P Kollias. 2015. "Insights from modeling and observational evaluation of a precipitating continental cumulus event observed

  10. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Characterizing Uncertainties in Ice Particle Size Distributions Download a printable PDF Submitter: McFarquhar, G., University of Illinois, Urbana Area of Research: Cloud Distributions/Characterizations Working Group(s): Cloud Life Cycle Journal Reference: McFarquhar GM, T Hsieh, M Freer, JR Mascio, and BF Jewett. 2015. "The characterization of ice hydrometeor gamma size distributions as volumes in N0/lambda/mu phase space: implications for microphysical process modeling." Journal of

  11. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Regime Analysis to Identify the Contribution of Clouds to Surface Temperature Errors in GCMs Submitter: Van Weverberg, K., Met Office Area of Research: General Circulation and Single Column Models/Parameterizations Working Group(s): Cloud Life Cycle Journal Reference: Van Weverberg K, CJ Morcrette, H Ma, SA Klein, and JC Petch. 2015. "Using regime analysis to identify the contribution of clouds to surface temperature errors in weather and climate models." Quarterly Journal Royal

  12. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Light Absorption of Primary Organic Aerosol Paper Named ACS Editors' Choice Download a printable PDF Submitter: Lu, Z., Argonne National Laboratory Streets, D. ., Argonne National Laboratory Area of Research: Aerosol Properties Working Group(s): Aerosol Life Cycle Journal Reference: Lu Z, DG Streets, E Winijkul, F Yan, Y Chen, TC Bond, Y Feng, MK Dubey, S Liu, JP Pinto, and GR Carmichael. 2015. "Light absorption properties and radiative effects of primary organic aerosol emissions."

  13. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Liquid Water the Key to Arctic Cloud Radiative Closure Download a printable PDF Submitter: Shupe, M., University of Colorado Area of Research: Cloud Distributions/Characterizations Working Group(s): Cloud Life Cycle Journal Reference: Shupe MD, DD Turner, A Zwink, MM Thieman, EJ Mlawer, and T Shippert. 2015. "Deriving Arctic cloud microphysics at Barrow, Alaska: Algorithms, results, and radiative closure." Journal of Applied Meteorology and Climatology, 54(7),

  14. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Weather Prediction and Climate Simulation: a Meeting of the Models Submitter: Xie, S., Lawrence Livermore National Laboratory Area of Research: General Circulation and Single Column Models/Parameterizations Working Group(s): Cloud Modeling Journal Reference: Phillips, T. J. G.L. Potter, D.L. Williamson, R.T. Cederwall, J.S. Boyle, M. Fiorino, J.J. Hnilo, J.G. Olson, S. Xie, J.J. Yio, Evaluating Parameterizations in General Circulation Models: Climate Simulation Meets Weather Prediction, Bulletin

  15. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Sticky Thermals: Evidence for a Dominant Balance Between Buoyancy and Drag in Cloud Updrafts Download a printable PDF Submitter: Romps, D., Lawrence Berkeley National Laboratory Area of Research: Vertical Velocity Working Group(s): Cloud Life Cycle Journal Reference: Romps DM and AB Charn. 2015. "Sticky thermals: Evidence for a dominant balance between buoyancy and drag in cloud updrafts." Journal of the Atmospheric Sciences, , doi:10.1175/JAS-D-15-0042.1. ONLINE. Hill's vortex (shown

  16. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    A Deeper Look Into Shallow Boundary Layer Clouds Submitter: Bretherton, C. S., University of Washington Area of Research: Cloud Distributions/Characterizations Working Group(s): Cloud Modeling Journal Reference: Bretherton, C. S., J. R. McCaa, and H. Grenier. A New Parameterization for Shallow Cumulus Convection and Its Application to Marine Subtropical Cloud-Topped Boundary Layers. Part I: Description and 1D Results, Monthly Weather Review, 132(1), 864-882, 2004, doi:

  17. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Arctic Haze: Effect of Anthropogenic and Biomass Burning Aerosols Transported from Europe to the Arctic Download a printable PDF Submitter: Fast, J. ., Pacific Northwest National Laboratory Area of Research: Aerosol Properties Working Group(s): Cloud-Aerosol-Precipitation Interactions Journal Reference: Marelle L, J Raut, JL Thomas, KS Law, B Quennehen, G Ancellet, J Pelon, A Schwarzenboeck, and JD Fast. 2015. "Transport of anthropogenic and biomass burning aerosols from Europe to the

  18. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Three-Dimensional Constrained Variational Analysis: Approach and Application Download a printable PDF Submitter: Zhang, M., Stony Brook University Area of Research: Radiation Processes Working Group(s): Cloud Life Cycle Journal Reference: Tang S and M Zhang. 2015. "Three-dimensional constrained variational analysis: Approach and application to analysis of atmospheric diabatic heating and derivative fields during an ARM SGP intensive observational period." Journal of Geophysical

  19. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Out with the Old, in with the New: McICA to Replace Traditional Cloud Overlap Assumptions Submitter: Pincus, R., NOAA - CIRES Climate Diagnostics Center Area of Research: Atmospheric Thermodynamics and Vertical Structures Working Group(s): Cloud Modeling Journal Reference: Pincus, R., R. Hemler, and S.A. Klein, 2006: Using Stochastically Generated Subcolumns to Represent Cloud Structure in a Large-Scale Model. Mon. Wea. Rev., 134, 3644-3656. As shown by the difference between the two panels, the

  20. Research Highlight

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Good Is Not Enough: Improving Measurements of Atmospheric Particles Download a printable PDF Submitter: Kassianov, E., Pacific Northwest National Laboratory Area of Research: Radiation Processes Working Group(s): Aerosol Life Cycle Journal Reference: Kassianov E, LK Berg, M Pekour, J Barnard, D Chand, C Flynn, M Ovchinnikov, A Sedlacek, B Schmid, J Shilling, J Tomlinson, and J Fast. 2015. "Airborne aerosol in situ measurements during TCAP: A closure study of total scattering."