Thermophilic and thermoacidophilic glycosylation genes and enzymes from Alicyclobacillus acidocaldarius and related organisms, methods

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

Title: Thermophilic and thermoacidophilic glycosylation genes and enzymes from Alicyclobacillus acidocaldarius and related organisms, methods

Abstract

Isolated and/or purified polypeptides and nucleic acid sequences encoding polypeptides from Alicyclobacillus acidocaldarius are provided. Further provided are methods for glycosylating and/or post-translationally modifying proteins using isolated and/or purified polypeptides and nucleic acid sequences from Alicyclobacillus acidocaldarius.

Inventors:: Thompson, David N.; Apel, William A.; Thompson, Vicki S.; Reed, David W.; Lacey, Jeffrey A.

Issue Date:: 2016-01-12

Research Org.:: Idaho National Laboratory (INL), Idaho Falls, ID (United States)

Sponsoring Org.:: USDOE

OSTI Identifier:: 1234645

Patent Number(s):: 9234228

Application Number:: 12/380,450

Assignee:: BATTELLE ENERGY ALLIANCE, LLC

Patent Classifications (CPCs):: C - CHEMISTRY C12 - BIOCHEMISTRY C12N - MICROORGANISMS OR ENZYMES

C - CHEMISTRY C12 - BIOCHEMISTRY C12P - FERMENTATION OR ENZYME-USING PROCESSES TO SYNTHESISE A DESIRED CHEMICAL COMPOUND OR COMPOSITION OR TO SEPARATE OPTICAL ISOMERS FROM A RACEMIC MIXTURE {

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C - CHEMISTRY C12 - BIOCHEMISTRY C12N - MICROORGANISMS OR ENZYMES
C12N9/1048 - {Glycosyltransferases
C12N9/1051 - {Hexosyltransferases
C12N9/1288 - {Transferases for other substituted phosphate groups

C - CHEMISTRY C12 - BIOCHEMISTRY C12P - FERMENTATION OR ENZYME-USING PROCESSES TO SYNTHESISE A DESIRED CHEMICAL COMPOUND OR COMPOSITION OR TO SEPARATE OPTICAL ISOMERS FROM A RACEMIC MIXTURE {
C12P21/00 - Preparation of peptides or proteins
C12P21/005 - {Glycopeptides, glycoproteins}

C - CHEMISTRY C12 - BIOCHEMISTRY C12Y - ENZYMES
C12Y204/00 - Glycosyltransferases
C12Y204/01083 - Dolichyl-phosphate beta-D-mannosyltransferase
C12Y207/08 - Transferases for other substituted phosphate groups

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DOE Contract Number:: AC07-99ID13727

Resource Type:: Patent

Resource Relation:: Patent File Date: 2009 Feb 26

Country of Publication:: United States

Language:: English

Subject:: 60 APPLIED LIFE SCIENCES

Citation Formats


                    Thompson, David N., Apel, William A., Thompson, Vicki S., Reed, David W., and Lacey, Jeffrey A. Thermophilic and thermoacidophilic glycosylation genes and enzymes from Alicyclobacillus acidocaldarius and related organisms, methods.  United States: N. p., 2016. 
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                    Thompson, David N., Apel, William A., Thompson, Vicki S., Reed, David W., & Lacey, Jeffrey A. Thermophilic and thermoacidophilic glycosylation genes and enzymes from Alicyclobacillus acidocaldarius and related organisms, methods.  United States.

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                    Thompson, David N., Apel, William A., Thompson, Vicki S., Reed, David W., and Lacey, Jeffrey A. Tue .  
        "Thermophilic and thermoacidophilic glycosylation genes and enzymes from Alicyclobacillus acidocaldarius and related organisms, methods".  United States.  https://www.osti.gov/servlets/purl/1234645.

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@article{osti_1234645,

  title        = {Thermophilic and thermoacidophilic glycosylation genes and enzymes from Alicyclobacillus acidocaldarius and related organisms, methods},

  author       = {Thompson, David N. and Apel, William A. and Thompson, Vicki S. and Reed, David W. and Lacey, Jeffrey A.},

  abstractNote = {Isolated and/or purified polypeptides and nucleic acid sequences encoding polypeptides from Alicyclobacillus acidocaldarius are provided. Further provided are methods for glycosylating and/or post-translationally modifying proteins using isolated and/or purified polypeptides and nucleic acid sequences from Alicyclobacillus acidocaldarius.},

  doi          = {},

  journal      = {},
number       = ,

  volume       = ,

  place        = {United States},

  year         = {2016},

  month        = {1}

}

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Synthesis of oligosaccharides, glycolipds, and glycoproteins using bacterial glycosyltransferases
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Thompson, David N.; Apel, William A.; Thompson, Vicki S.
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Lee, Brady D.; Thompson, David N.; Apel, William A.
US Patent Application 12/380008; 20090215168
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Thompson, David N.; Thompson, Vicki S.; Schaller, Kastli D.
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Thermophilic and thermoacidophilic sugar transporter genes and enzymes from alicyclobacillus acidocaldarius and related organisms, methods
patent-application, October 2009

Thompson, David N.; Apel, William A.; Thompson, Vicki S.
US Patent Application 12/380554; 20090253205
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Thermophilic and thermoacidophilic metabolism genes and enzymes from alicyclobacillus acidocaldadarius and related organisms, methods
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Thompson, Vicki S.; Apel, William A.; Reed, David W
US Patent Application 12/380551; 20090269827
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Alteration and modulation of protein activity by varying post-translational modification
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Thompson, David N.; Reed, David W.; Thompson, Vicki S.
US Patent Application 12/655993; 20100203583
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Thermal and acid tolerant beta xylosidases, arabinofuranosidases, genes encoding, related organisms, and methods
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Thompson, David N.; Thompson, Vicki S.; Schaller, Kastli D.
US Patent Application 12/802911; 20100311110
URL: https://image-ppubs.uspto.gov/dirsearch-public/print/downloadPdf/20100311110

Methods of combined bioprocessing and related microorganisms, thermophilic and/or acidophilic enzymes, and nucleic acids encoding said enzymes
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Thompson, David; Apel, William; Thompson, Vicki
US Patent Application 12/587229; 20110081683
URL: https://image-ppubs.uspto.gov/dirsearch-public/print/downloadPdf/20110081683

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Title: Thermophilic and thermoacidophilic glycosylation genes and enzymes from Alicyclobacillus acidocaldarius and related organisms, methods

Abstract

Citation Formats

Deciphering the message in protein sequences: tolerance to amino acid substitutions journal, March 1990

Powers and Pitfalls in Sequence Analysis: The 70% Hurdle journal, April 2000

Maltose and Maltodextrin Transport in the Thermoacidophilic Gram-Positive Bacterium Alicyclobacillus acidocaldarius Is Mediated by a High-Affinity Transport System That Includes a Maltose Binding Protein Tolerant to Low pH journal, November 2000

Cloning and transcriptional analysis of the Thermoanaerobacter ethanolicus strain 39E maltose ABC transport system journal, March 2002

X-ray Structures of the Maltose–Maltodextrin-binding Protein of the Thermoacidophilic Bacterium Alicyclobacillus acidocaldarius Provide Insight into Acid Stability of Proteins journal, January 2004

Functional reconstitution of a maltose ATP-binding cassette transporter from the thermoacidophilic gram-positive bacterium Alicyclobacillus acidocaldarius journal, May 2004

Isolation and characterization of a new family 42 β-galactosidase from the thermoacidophilic bacterium Alicyclobacillus acidocaldarius: Identification of the active site residues journal, February 2008

Thermoacidophilic Microorganisms and their Novel Biocatalysts journal, December 2004

Yeast systems for the expression of heterologous gene products journal, October 1993

Single molecule detection of RNA reporter probes by amplification with Qβ replicase journal, August 1996

Synthesis of an amplifiable reporter RNA for bioassays journal, January 1986

Current applications of COS cell based transient expression systems journal, October 1993

Manufacture of Xylose-Based Fermentation Media from Corncobs by Posthydrolysis of Autohydrolysis Liquors journal, January 2001

Ethanol from lignocellulosic biomass techno-economic performance in short-, middle- and long-term journal, April 2005

Immunogenicity and protective efficacy of a tuberculosis DNA vaccine journal, August 1996

Biochemistry and genetics of microbial xylanases journal, June 1996

Continuous cultures of fused cells secreting antibody of predefined specificity journal, August 1975

The acid hydrolysis of sugarcane bagasse hemicellulose to produce xylose, arabinose, glucose and other products journal, November 2002

The Effect of Flow Rate of Compressed Hot Water on Xylan, Lignin, and Total Mass Removal from Corn Stover journal, September 2003

Baculovirus systems for the expression of human gene products journal, October 1993

Microbial Cellulose Utilization: Fundamentals and Biotechnology journal, September 2002

Lignocellulose biodegradation: Fundamentals and applications journal, June 2002

Analytical strategies for the use of DNA probes journal, February 1988

The Synthesis of Bovine Insulin by the Solid Phase Method journal, November 1966

Autocatalytic replication of a recombinant RNA journal, December 1983

A general method applicable to the search for similarities in the amino acid sequence of two proteins journal, March 1970

Recent advances in heterologous gene expression in Escherichia coli journal, October 1993

Prokaryotic glycosylation journal, February 2001

Strand displacement amplification—an isothermal, in vitro DNA amplification technique journal, January 1992

Microbial β-Glucosidases: Cloning, Properties, and Applications journal, January 2002

Catalytic Plasticity of Fatty Acid Modification Enzymes Underlying Chemical Diversity of Plant Lipids journal, November 1998

Practical limits of function prediction journal, January 2000

Melamine Deaminase and Atrazine Chlorohydrolase: 98 Percent Identical but Functionally Different journal, April 2001

Conversion of a β-Ketoacyl Synthase to a Malonyl Decarboxylase by Replacement of the Active-Site Cysteine with Glutamine journal, September 1999

Xylanases, xylanase families and extremophilic xylanases journal, January 2005

Purification and Properties of Acid Stable Xylanases from Aspergillus kawachii journal, January 1992

Microbial hemicellulases journal, June 2003

Gene cloning, sequencing, and characterization of a family 9 endoglucanase (CelA) with an unusual pattern of activity from the thermoacidophile Alicyclobacillus acidocaldarius ATCC27009 journal, December 2002

A new class of biodegradable materials: Poly-3-hydroxy-butyrate/steam exploded straw fiber composites. I. Thermal and impact behavior journal, September 1993

Interlaboratory testing of methods for assay of xylanase activity journal, May 1992

Molecular diversity of thermophilic cellulolytic and hemicellulolytic bacteria journal, February 1999

Glycosidases and glycosyl transferases in glycoside and oligosaccharide synthesis journal, February 1998

The nature of lignocellulosics and their pretreatments for enzymatic hydrolysis book, January 1982

Development of gas phase bioreactors for the removal of nitrogen oxides from synthetic flue gas streams journal, October 2002

Crystallographic and mutational analyses of an extremely acidophilic and acid-stable xylanase: biased distribution of acidic residues and importance of Asp37 for catalysis at low pH journal, December 1998

Transformation of Acidiphilium by electroporation and conjugation journal, May 1992

Pretreatment for enhanced hydrolysis of cellulosic biomass journal, January 1984

Comparison of the economics of acid and enzymatic hydrolysis of newsprint journal, April 1978

Lignochemicals journal, February 1982

Fungal Upgrading of Wheat Straw for Straw-Thermoplastics Production journal, January 2004

Microbial Pretreatment of Biomass: Potential for Reducing Severity of Thermochemical Biomass Pretreatment journal, January 2003

journal, October 2003

Partial acid hydrolysis of cellulosic materials as a pretreatment for enzymatic hydrolysis journal, July 1980

Molecular and biotechnological aspects of xylanases journal, July 1999

Characterization of a β-glycosidase from the thermoacidophilic bacterium Alicyclobacillus acidocaldarius journal, April 2006

Oxygen effects on thermophilic microbial populations in biofilters treating nitric oxide containing off-gas streams journal, October 2001

Overview and Evaluation of Fuel Ethanol from Cellulosic Biomass: Technology, Economics, the Environment, and Policy journal, November 1996

Specificity of the protein secretory apparatus: secretion of the heat-labile enterotoxin B subunit pentamers by different species of Gram- bacteria journal, January 1995

Industrial Scale-Up of pH-Controlled Liquid Hot Water Pretreatment of Corn Fiber for Fuel Ethanol Production journal, January 2005

Purification and characterization of an acidophilic xylanase from Aureobasidium pullulans var. melanigenum and sequence analysis of the encoding gene journal, January 2001

Simultaneous saccharification and fermentation of cellulose: Effect of ethanol on enzymatic saccharification of cellulose journal, April 1985

Generation of transposon insertion mutant libraries for Gram-positive bacteria by electroporation of phage Mu DNA transposition complexes journal, April 2005

Biotransformation of Toxic Organic and Inorganic Contaminants by Halophilic Bacteria book, January 2004

The Path Forward for Biofuels and Biomaterials journal, January 2006

Biomechanical and Biochemical Pulping of Sugarcane Bagasse with Ceriporiopsis subvermispora Fungal and Xylanase Pretreatments journal, March 2001

Quantitative Saccharification of Wood and Cellulose journal, January 1945

Dilute Acid Pretreatment, Enzymatic Saccharification, and Fermentation of Rice Hulls to Ethanol journal, January 2005

Rapid production of thermostable cellulase-free xylanase by a strain of Bacillus subtilis and its properties journal, June 2002

Dilute-Sulfuric Acid Pretreatment of Corn Stover in Pilot-Scale Reactor book, January 2003

An extremely thermostable xylanase from the thermophilic eubacterium Thermotoga journal, July 1991

Cellulase-free xylanases from Bacillus and other microorganisms journal, February 2000

Glycosyl hydrolases from hyperthermophiles journal, February 1997

Production of a cellulase-free xylanase from agricultural waste materials by a thermotolerant Streptomyces sp. journal, October 2001

Comparison of pretreatment methods on the basis of available surface area journal, January 1992

In vitro degradation of natural insoluble lignin in aqueous media by the extracellular peroxidases of Phanerochaete chrysosporium journal, March 1998

Measurement of fumonisins in corn with a fiber optic fluoroimmunosensor conference, May 1997

Preliminary Investigation of Fungal Bioprocessing of Wheat Straw for Production of Straw-Thermoplastic Composites book, January 2003

Deciphering the message in protein sequences: tolerance to amino acid substitutions
journal, March 1990

Powers and Pitfalls in Sequence Analysis: The 70% Hurdle
journal, April 2000

Maltose and Maltodextrin Transport in the Thermoacidophilic Gram-Positive Bacterium Alicyclobacillus acidocaldarius Is Mediated by a High-Affinity Transport System That Includes a Maltose Binding Protein Tolerant to Low pH
journal, November 2000

Cloning and transcriptional analysis of the Thermoanaerobacter ethanolicus strain 39E maltose ABC transport system
journal, March 2002

X-ray Structures of the Maltose–Maltodextrin-binding Protein of the Thermoacidophilic Bacterium Alicyclobacillus acidocaldarius Provide Insight into Acid Stability of Proteins
journal, January 2004

Functional reconstitution of a maltose ATP-binding cassette transporter from the thermoacidophilic gram-positive bacterium Alicyclobacillus acidocaldarius
journal, May 2004

Isolation and characterization of a new family 42 β-galactosidase from the thermoacidophilic bacterium Alicyclobacillus acidocaldarius: Identification of the active site residues
journal, February 2008

Thermoacidophilic Microorganisms and their Novel Biocatalysts
journal, December 2004

Yeast systems for the expression of heterologous gene products
journal, October 1993

Single molecule detection of RNA reporter probes by amplification with Qβ replicase
journal, August 1996

Synthesis of an amplifiable reporter RNA for bioassays
journal, January 1986

Current applications of COS cell based transient expression systems
journal, October 1993

Manufacture of Xylose-Based Fermentation Media from Corncobs by Posthydrolysis of Autohydrolysis Liquors
journal, January 2001

Ethanol from lignocellulosic biomass techno-economic performance in short-, middle- and long-term
journal, April 2005

Immunogenicity and protective efficacy of a tuberculosis DNA vaccine
journal, August 1996

Biochemistry and genetics of microbial xylanases
journal, June 1996

Continuous cultures of fused cells secreting antibody of predefined specificity
journal, August 1975

The acid hydrolysis of sugarcane bagasse hemicellulose to produce xylose, arabinose, glucose and other products
journal, November 2002

The Effect of Flow Rate of Compressed Hot Water on Xylan, Lignin, and Total Mass Removal from Corn Stover
journal, September 2003

Baculovirus systems for the expression of human gene products
journal, October 1993

Microbial Cellulose Utilization: Fundamentals and Biotechnology
journal, September 2002

Lignocellulose biodegradation: Fundamentals and applications
journal, June 2002

Analytical strategies for the use of DNA probes
journal, February 1988

The Synthesis of Bovine Insulin by the Solid Phase Method
journal, November 1966

Autocatalytic replication of a recombinant RNA
journal, December 1983

A general method applicable to the search for similarities in the amino acid sequence of two proteins
journal, March 1970

Recent advances in heterologous gene expression in Escherichia coli
journal, October 1993

Prokaryotic glycosylation
journal, February 2001

Strand displacement amplification—an isothermal, in vitro DNA amplification technique
journal, January 1992

Microbial β-Glucosidases: Cloning, Properties, and Applications
journal, January 2002

Catalytic Plasticity of Fatty Acid Modification Enzymes Underlying Chemical Diversity of Plant Lipids
journal, November 1998

Practical limits of function prediction
journal, January 2000

Melamine Deaminase and Atrazine Chlorohydrolase: 98 Percent Identical but Functionally Different
journal, April 2001

Conversion of a β-Ketoacyl Synthase to a Malonyl Decarboxylase by Replacement of the Active-Site Cysteine with Glutamine
journal, September 1999

Xylanases, xylanase families and extremophilic xylanases
journal, January 2005

Purification and Properties of Acid Stable Xylanases from Aspergillus kawachii
journal, January 1992

Microbial hemicellulases
journal, June 2003

Gene cloning, sequencing, and characterization of a family 9 endoglucanase (CelA) with an unusual pattern of activity from the thermoacidophile Alicyclobacillus acidocaldarius ATCC27009
journal, December 2002

A new class of biodegradable materials: Poly-3-hydroxy-butyrate/steam exploded straw fiber composites. I. Thermal and impact behavior
journal, September 1993

Interlaboratory testing of methods for assay of xylanase activity
journal, May 1992

Molecular diversity of thermophilic cellulolytic and hemicellulolytic bacteria
journal, February 1999

Glycosidases and glycosyl transferases in glycoside and oligosaccharide synthesis
journal, February 1998

The nature of lignocellulosics and their pretreatments for enzymatic hydrolysis
book, January 1982

Development of gas phase bioreactors for the removal of nitrogen oxides from synthetic flue gas streams
journal, October 2002

Crystallographic and mutational analyses of an extremely acidophilic and acid-stable xylanase: biased distribution of acidic residues and importance of Asp37 for catalysis at low pH
journal, December 1998

Transformation of Acidiphilium by electroporation and conjugation
journal, May 1992

Pretreatment for enhanced hydrolysis of cellulosic biomass
journal, January 1984

Comparison of the economics of acid and enzymatic hydrolysis of newsprint
journal, April 1978

Lignochemicals
journal, February 1982

Fungal Upgrading of Wheat Straw for Straw-Thermoplastics Production
journal, January 2004

Microbial Pretreatment of Biomass: Potential for Reducing Severity of Thermochemical Biomass Pretreatment
journal, January 2003

Partial acid hydrolysis of cellulosic materials as a pretreatment for enzymatic hydrolysis
journal, July 1980

Molecular and biotechnological aspects of xylanases
journal, July 1999

Characterization of a β-glycosidase from the thermoacidophilic bacterium Alicyclobacillus acidocaldarius
journal, April 2006

Oxygen effects on thermophilic microbial populations in biofilters treating nitric oxide containing off-gas streams
journal, October 2001

Overview and Evaluation of Fuel Ethanol from Cellulosic Biomass: Technology, Economics, the Environment, and Policy
journal, November 1996

Specificity of the protein secretory apparatus: secretion of the heat-labile enterotoxin B subunit pentamers by different species of Gram- bacteria
journal, January 1995

Industrial Scale-Up of pH-Controlled Liquid Hot Water Pretreatment of Corn Fiber for Fuel Ethanol Production
journal, January 2005

Purification and characterization of an acidophilic xylanase from Aureobasidium pullulans var. melanigenum and sequence analysis of the encoding gene
journal, January 2001

Simultaneous saccharification and fermentation of cellulose: Effect of ethanol on enzymatic saccharification of cellulose
journal, April 1985

Generation of transposon insertion mutant libraries for Gram-positive bacteria by electroporation of phage Mu DNA transposition complexes
journal, April 2005

Biotransformation of Toxic Organic and Inorganic Contaminants by Halophilic Bacteria
book, January 2004

The Path Forward for Biofuels and Biomaterials
journal, January 2006

Biomechanical and Biochemical Pulping of Sugarcane Bagasse with Ceriporiopsis subvermispora Fungal and Xylanase Pretreatments
journal, March 2001

Quantitative Saccharification of Wood and Cellulose
journal, January 1945

Dilute Acid Pretreatment, Enzymatic Saccharification, and Fermentation of Rice Hulls to Ethanol
journal, January 2005

Rapid production of thermostable cellulase-free xylanase by a strain of Bacillus subtilis and its properties
journal, June 2002

Dilute-Sulfuric Acid Pretreatment of Corn Stover in Pilot-Scale Reactor
book, January 2003

An extremely thermostable xylanase from the thermophilic eubacterium Thermotoga
journal, July 1991

Cellulase-free xylanases from Bacillus and other microorganisms
journal, February 2000

Glycosyl hydrolases from hyperthermophiles
journal, February 1997

Production of a cellulase-free xylanase from agricultural waste materials by a thermotolerant Streptomyces sp.
journal, October 2001

Comparison of pretreatment methods on the basis of available surface area
journal, January 1992

In vitro degradation of natural insoluble lignin in aqueous media by the extracellular peroxidases of Phanerochaete chrysosporium
journal, March 1998

Measurement of fumonisins in corn with a fiber optic fluoroimmunosensor
conference, May 1997

Preliminary Investigation of Fungal Bioprocessing of Wheat Straw for Production of Straw-Thermoplastic Composites
book, January 2003

Purification and Characterization of a Novel Thermo-Alkali-Stable Catalase from Thermus brockianus
journal, January 2003

Potential and utilization of thermophiles and thermostable enzymes in biorefining
journal, January 2007

The first description of an archaeal hemicellulase: the xylanase from Thermococcus zilligii strain AN1
journal, November 1999

Xylanases in bleaching: From an idea to the industry
journal, March 1994