Method and apparatus for purifying nucleic acids and performing polymerase chain reaction assays using an immiscible fluid

Koh, Chung-Yan; Light, Yooli Kim; Piccini, Matthew Ernest; Singh, Anup K.

Method and apparatus for purifying nucleic acids and performing polymerase chain reaction assays using an immiscible fluid

Patent · Tue Oct 31 04:00:00 EDT 2017

OSTI ID:1406570

Koh, Chung-Yan; Light, Yooli Kim; Piccini, Matthew Ernest; Singh, Anup K.

Embodiments of the present invention are directed toward devices, systems, and methods for purifying nucleic acids to conduct polymerase chain reaction (PCR) assays. In one example, a method includes generating complexes of silica beads and nucleic acids in a lysis buffer, transporting the complexes through an immiscible fluid to remove interfering compounds from the complexes, further transporting the complexes into a density medium containing components required for PCR where the nucleic acids disassociate from the silica beads, and thermocycling the contents of the density medium to achieve PCR. Signal may be detected from labeling agents in the components required for PCR.

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Research Organization:: Sandia National Laboratories (SNL-NM), Albuquerque, NM (United States)

Sponsoring Organization:: USDOE

DOE Contract Number:: AC04-94AL85000

Assignee:: National Technology & Engineering Solutions of Sandia, LLC

Patent Number(s):: 9,803,238

Application Number:: 14/090,040

OSTI ID:: 1406570

Country of Publication:: United States

Language:: English

References (29)

Plasma DNA concentration as a predictor of mortality and sepsis in critically ill patients Rhodes, Andrew; Wort, Stephen J.; Thomas, Helen Critical Care, Vol. 10, Issue 2, Article No. R60 https://doi.org/10.1186/cc4894	journal	April 2006
Shiga toxin 1 acting on DNA in vitro is a heat-stable enzyme not requiring proteolytic activation Brigotti, Maurizio; Carnicelli, Domenica; Vara, Antonio González Biochimie, Vol. 86, Issue 4-5, p. 305-309 https://doi.org/10.1016/j.biochi.2004.03.009	journal	April 2004
Polyethyleneimine functionalized iron oxide nanoparticles as agents for DNA delivery and transfection McBain, S. C.; Yiu, H. H. P.; El Haj, A. Journal of Materials Chemistry, Vol. 17, Issue 24, p. 2561-2565 https://doi.org/10.1039/B617402G	journal	January 2007
Bioinformatic processing to identify single nucleotide polymorphism that potentially affect Ape1 function Yu, Eizadora T.; Hadi, Masood Z. Mutation Research/Genetic Toxicology and Environmental Mutagenesis, Vol. 722, Issue 2, p. 140-146 https://doi.org/10.1016/j.mrgentox.2010.06.015	journal	June 2011
A molecular approach to bioseparations: Protein–protein and protein–salt interactions Curtis, R. A.; Lue, L. Chemical Engineering Science, Vol. 61, Issue 3, p. 907-923 https://doi.org/10.1016/j.ces.2005.04.007	journal	February 2006
How Hofmeister ion interactions affect protein stability Baldwin, R. L. Biophysical Journal, Vol. 71, Issue 4, p. 2056-2063 https://doi.org/10.1016/S0006-3495(96)79404-3	journal	October 1996
A B Cell-Based Sensor for Rapid Identification of Pathogens Rider, Todd H.; Petrovick, Martha S.; Nargi, Frances E. Science, Vol. 301, Issue 5630, p. 213-215 https://doi.org/10.1126/science.1084920	journal	July 2003
Fully integrated lab-on-a-disc for simultaneous analysis of biochemistry and immunoassay from whole blood Lee, Beom Seok; Lee, Yang Ui; Kim, Han-Sang Lab on a Chip, Vol. 11, Issue 1, p. 70-78 https://doi.org/10.1039/C0LC00205D	journal	January 2011
Ricin A-Chain Activity on Stem−Loop and Unstructured DNA Substrates Amukele, Tim K.; Roday, Setu; Schramm, Vern L. Biochemistry, Vol. 44, Issue 11, p. 4416-4425 https://doi.org/10.1021/bi0474362	journal	March 2005
Centrifugal microfluidics for biomedical applications Gorkin, Robert; Park, Jiwoon; Siegrist, Jonathan Lab on a Chip, Vol. 10, Issue 14, p. 1758-1773 https://doi.org/10.1039/B924109D	journal	January 2010
Measurement of Circulating Cell-Free DNA Levels by a New Simple Fluorescent Test in Patients With Primary Colorectal Cancer Czeiger, David; Shaked, Gad; Eini, Hadar American Journal of Clinical Pathology, Vol. 135, Issue 2, p. 264-270 https://doi.org/10.1309/AJCP4RK2IHVKTTZV	journal	February 2011
Detection of Listeria monocytogenes and the toxin listeriolysin O in food Churchill, Robin L. T.; Lee, Hung; Hall, J. Christopher Journal of Microbiological Methods, Vol. 64, Issue 2, p. 141-170 https://doi.org/10.1016/j.mimet.2005.10.007	journal	February 2006
Comparison of sample fixation and the use of LDS-751 or anti-CD45 for leukocyte identification in mouse whole blood for flow cytometry Maes, Melissa L.; Davidson, Lisa B.; McDonagh, Paul F. Journal of Immunological Methods, Vol. 319, Issue 1-2, p. 79-86 https://doi.org/10.1016/j.jim.2006.10.016	journal	January 2007
A fully automated immunoassay from whole blood on a disc Lee, Beom Seok; Lee, Jung-Nam; Park, Jong-Myeon Lab on a Chip, Vol. 9, Issue 11, p. 1548-1555 https://doi.org/10.1039/B820321K	journal	January 2009
Photopolymerized diffusion-defined polyacrylamide gradient gels for on-chip protein sizing Lo, Catherine T.; Throckmorton, Daniel J.; Singh, Anup K. Lab on a Chip, Vol. 8, Issue 8, p. 1273-1279 https://doi.org/10.1039/B804485F	journal	January 2008
Infrared controlled waxes for liquid handling and storage on a CD-microfluidic platform Abi-Samra, Kameel; Hanson, Ryan; Madou, Marc Lab on a Chip, Vol. 11, Issue 4, p. 723-726 https://doi.org/10.1039/C0LC00160K	journal	January 2011
Bead-based microfluidic immunoassays: The next generation Lim, C. T.; Zhang, Y. Biosensors and Bioelectronics, Vol. 22, Issue 7, p. 1197-1204 https://doi.org/10.1016/j.bios.2006.06.005	journal	February 2007
One-step purification of nucleic acid for gene expression analysis via Immiscible Filtration Assisted by Surface Tension (IFAST) Berry, Scott M.; Alarid, Elaine T.; Beebe, David J. Lab on a Chip, Vol. 11, Issue 10, p. 1747-1753 https://doi.org/10.1039/C1LC00004G	journal	January 2011
Cell-Free DNA—A Marker to Predict Ischemic Brain Damage in a Rat Stroke Experimental Model Boyko, Matthew; Ohayon, Sharon; Goldsmith, Tomer Journal of Neurosurgical Anesthesiology, Vol. 23, Issue 3, p. 222-228 https://doi.org/10.1097/ANA.0b013e31821b536a	journal	January 2011
Parallel Nanoliter Microfluidic Analysis System Andersson, Per; Jesson, Gerald; Kylberg, Gunnar Analytical Chemistry, Vol. 79, Issue 11, p. 4022-4030 https://doi.org/10.1021/ac061692y	journal	June 2007
Cell-Free Plasma DNA as a Predictor of Outcome in Severe Sepsis and Septic Shock Saukkonen, K.; Lakkisto, P.; Pettila, V. Clinical Chemistry, Vol. 54, Issue 6, p. 1000-1007 https://doi.org/10.1373/clinchem.2007.101030	journal	April 2008
Functional integration of DNA purification and concentration into a real time micro-PCR chip Min, Junhong; Kim, Joon-Ho; Lee, Youngsun Lab on a Chip, Vol. 11, Issue 2, p. 259-265 https://doi.org/10.1039/C0LC00320D	journal	January 2011
A new biodosimetric method: branched DNA-based quantitative detection of B1 DNA in mouse plasma Zhang, L.; Zhang, M.; Yang, S. The British Journal of Radiology, Vol. 83, Issue 992, p. 694-701 https://doi.org/10.1259/bjr/49886569	journal	August 2010
Leukocyte analysis and differentiation using high speed microfluidic single cell impedance cytometry Holmes, David; Pettigrew, David; Reccius, Christian H. Lab on a Chip, Vol. 9, Issue 20, p. 2881-2889 https://doi.org/10.1039/B910053A	journal	January 2009
Circulating DNA: a new diagnostic gold mine? Ziegler, Annemarie; Zangemeister-Wittke, Uwe; Stahel, Rolf A. Cancer Treatment Reviews, Vol. 28, Issue 5, p. 255-271 https://doi.org/10.1016/S0305-7372(02)00077-4	journal	October 2002
Depurination of A4256 in 28 S rRNA by the Ribosome-inactivating Proteins from Barley and Ricin Results in Different Ribosome Conformations Holmberg, Lovisa; Nygård, Odd Journal of Molecular Biology, Vol. 259, Issue 1, p. 81-94 https://doi.org/10.1006/jmbi.1996.0303	journal	May 1996
Characterization of EBV-genome negative “null” and “T” cell lines derived from children with acute lymphoblastic leukemia and leukemic transformed non-Hodgkin lymphoma Schneider, Ulrich; Schwenk, Hans-Ulrich; Bornkamm, Georg International Journal of Cancer, Vol. 19, Issue 5, p. 621-626 https://doi.org/10.1002/ijc.2910190505	journal	May 1977
Read-out concepts for multiplexed bead-based fluorescence immunoassays on centrifugal microfluidic platforms Riegger, L.; Grumann, M.; Nann, T. Sensors and Actuators A: Physical, Vol. 126, Issue 2, p. 455-462 https://doi.org/10.1016/j.sna.2005.11.006	journal	February 2006
Micro freef-low IEF enhanced by active cooling and functionalized gels Albrecht, Jacob W.; Jensen, Klavs F. ELECTROPHORESIS, Vol. 27, Issue 24, p. 4960-4969 https://doi.org/10.1002/elps.200600436	journal	December 2006

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