Biomass Deconstruction and Conversion

Better Microbes,
Better Enzymes

Biomass Deconstruction and Conversion research is centered on consolidated bioprocessing (CBP), in which the same microorganism deconstructs and ferments biomass to yield the desired products. If the BioEnergy Science Center (BESC) can overcome biomass recalcitrance through CBP, it will reduce the need for pretreatment chemicals that are toxic to microbes as well as decrease the energy required to deconstruct and convert biomass into biofuels.

researcher with Applikon fermenter

Optimizing Microbes for Biomass Deconstruction and Conversion. Kelsey Yee operates a process-controlled Applikon fermenter to evaluate how well Caldicellulosiruptor obsidiansis (a consolidated bioprocessing microbe) ferments simple sugars derived from poplar pretreated with dilute acid. [Image courtesy Oak Ridge National Laboratory]

Two key hypotheses drive this BESC research effort:

  • Microorganisms can be engineered to enable CBP.
  • Enzymes and microbial biocatalysts can be understood and engineered to synergize with recalcitrance-reducing plant modifications to achieve better biomass deconstruction.

To test these hypotheses, BESC targets three microbial CBP platforms: yeast, Clostridium thermocellum, and Caldicellulosiruptor species. In yeast, a robust industrial ethanol producer, researchers have pursued genome modifications aimed at improving the expression and activity of enzymes that will digest cellulose. Already natural cellulose degraders, the other two microbes are thermophilic anaerobes whose metabolism is being manipulated by BESC to produce useful products such as ethanol or butanol. BESC is also demonstrating the synergistic action of improved CBP on modified plant cells.

Studies of microbial cellulose utilization at all levels—including enzyme components, enzyme systems, and pure and mixed cultures—show the increased effectiveness of microbial cultures compared with free enzymes acting in the absence of cells. BESC has extended this CBP proof of concept by genetically engineering C. thermocellum to make isobutanol from cellulose.

BESC Progress Snapshot: Microbial Consolidated Bioprocessing

2007: Where Research Was Then

  • Few cellulases expressed in yeast
  • Functional genetic systems for cellulolytic thermophiles not available
  • Modes of ethanol inhibition or tolerance in C. thermocellum not understood
  • Caldicellulosiruptor not well characterized
  • Few models and mechanisms available for multifunctional cellulolytic enzymes

Where Research Is Now

  • Improved ethanol yields in C. thermocellum
  • Multiple new structures and models for cellulosomes along with chimeric cellulosomal enzymes
  • Development and use of genetic systems for C. thermocellum and Caldicellulosiruptor
  • Modified yeast as the basis of commercial development
  • Production of isobutanol directly from cellulose


Lee Lynd

Lee Lynd

Biomass Deconstruction and Conversion Lead

Dr. Lee Lynd is a professor of engineering and biological sciences at Dartmouth College. He is a recipient of the National Science Foundation's Presidential Young Investigator Award, as well as a two-time recipient of the Charles A. Lindbergh Award for his efforts to promote balance between technological progress and preservation of the natural and human environments. He has received the Charles D. Scott Award for outstanding contributions to the field of biotechnology for fuels and chemicals and is the inaugural winner of the Lemelson-Massachusetts Institute of Technology Sustainability Award.

Biomass Deconstruction and Conversion Research Results


Publication Date Citation
07/07/2016 Healey, A.L., Lupoi, J.S., Lee, D.J., Sykes, R.W., Guenther, J.M., Tran, K., Decker, S.R., Singh, S., Simmons, B.A., Henry, R.J., "Effect of aging on lignin content, composition and enzymatic saccharification in Corymbia hybrids and parental taxa between years 9 and 12", Biomass and Biotechnology, 93:50-59, 2016.
DOI: 10.1016/j.biombioe.2016.06.016
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06/20/2016 Herring, C.D., Kenealy, W., Shaw, J., Corvalla, S., Olson, D., Zhang, J., Sillers, R., Tsakraklides, V., Bardsley, J., Throne, P., Rogers, S., Johnson, J., Foster, A., Shikhare, I., Klingeman, D., Brown, S., Davison, B., Lynd, L., Hogsett, D., "Strain and bioprocess improvement of a thermophilic anaerobe for the production of ethanol from wood", Biotechnology for Biofuels, 2016
DOI: 10.1186/s13068-016-0536-8
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06/07/2016 Tian, L., Papanek, B., Olson, D.G., Rydzak, T., Holwerda, E.K., Zheng, T., Zhou, J., Maloney, M., Jiang, N., Giannone, R.J., Hettich, R.L., Guss, A.M., Lynd, L.R., "Simultaneous achievement of high ethanol yield and titer in Clostridium thermocellum", Biotechnology for Biofuels, 9:116, 2016.
DOI: 10.1186/s13068-016-0528-8
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05/10/2016 Shao, X., Zhou, J., Olson, D.G., Lynd, L.R., "A markerless gene deletion and integration system for Thermoanaerobacter ethanolicus", Biotechnology for Biofuels, 9(100), 2016.
DOI: 10.1186/s13068-016-0514-1
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04/26/2016 Hon, S., Lanahan, A.A., Tian, L., Giannone, R.J., Hettich, R.L., Olson, D.G., Lynd, L.R., "Development of a plasmid-based expression system in Clostridium thermocellum and it use to screen heterologous expression of bifunctional alcohol dehydrogenases (adhEs)", Metabolic Engineering Communications, 2016
DOI: 10.1016/j.meteno.2016.04.001
04/11/2016 Beri, D., Olson, D.G., Holwerda, E.K., Lynd, L.R., Nicotinamide cofactor ratios in engineered strains of Clostridium thermocellum and Thermoanaerobacterium saccharolyticum, FEMS Microbiology Letters, 2016
DOI: 10.1093/femsle/fnw091
04/01/2016 Lancaster, W.A., Utturkar, S.M., Poole, F.L., Klingeman, D.M., Elias, D.A., Adams, M.W.W., Brown, S.D., "Near complete sequence of Clostridium paradoxum strain JW-YL-7", Genome Announcements, 4(3):e00229-16, 2016.
DOI: 10.1128/genomeA.00229-16
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03/30/2016 Liao, J., Mi, L., Pontrelli, S., Luo, S., "Fueling the future: microbial engineering for the production of sustainable biofuels", 2016
DOI: 10.1038/nrmicro.2016.32
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02/05/2016 Xu, Q., Resch, M.G., Podkaminer, K., Yang, S-H., Baker, J.O., Donohoe, B.S., Wilson, C., Klingeman, D.M., Olson, D.G., Decker, S.R., Giannone, R.J., Hettich, R.L., Brown, S.D., Lynd, L.R., Bayer, E.A., Himmel, M.E., Bomble, Y.J., "Dramatic performance of Clostridium thermocellum explained by its wide range of cellulase modalities", Science Advances, 2, 2016
DOI: 10.1126/sciadv.1501254
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02/03/2016 Guilliams, A., Pattathil, S., Willies, D., Richards, M., Pu, Y., Kandermkavil, S., Wiswall, E., "Physical and chemical differences between one stage and two stage hydrothermal pretreated hardwood substrates for use in cellulosic ethanol production", Biotechnology for Biofuels, 9(30), 2016.
DOI: 10.1186/s13068-016-0446-9
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02/02/2016 Groom, J., Chung, D., Olson, D.G., Lynd, L.R., Guss, A.M., Westpheling, J., "Promiscuous plasmid replication in thermophiles: use of a novel hyperthermophilic replicon for genetic manipulation of clostridium thermocellum its optimum growth temperature", Metabolic Engineering Communications, 3:30-38, 2016.
DOI: 10.1016/j.meteno.2016.01.004
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01/26/2016 Conway, J.M., Pierce, W.S., Le, J.H., Harper, G.W., Wright, J.H., Tucker, A.L., Zurawski, J.V., Lee, L.L., Blumer-Schuette, S.E., Kelly, R.M., "Multi-domain, surface layer associated glycoside hydrolases contribute to plant polysaccharide degradation by Caldicellulosiruptor species", The Journal of Biological Chemistry, 2016
DOI: 10.1074/jbc.M115.707810
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01/12/2016 Paye, J.M.D., Lynd, L., Guseva, A., Hammer, S.K., Gjersing, E., Davis, M.F., Davison, B.H., Olstad, J., Donohoe, B.S., Nguyen, T.Y., Wyman, C.E., Pattathil, S., Hahn, M.G., "Biological lignocellulose solubilization: comparative evaluation of biocatalysts and enhancement via cotreatment", Biotechnology for Biofuels, 9(8), 2016.
DOI: 10.1186/s13068-015-0412-y
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12/26/2015 Herring, C.D., Thorne, P.G., Lynd, L.R., "Clostridium thermocellum releases coumaric acid during degradation of untreated grasses by the action of an unknown enzyme", Applied Microbiology and Biotechnology, 8(224):2907-15, 2016.
DOI: 10.1007/s00253-016-7294-1
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12/22/2015 Chen, M., Himmel, M.E., Wilson, D.B., Brady, J.W., "Simulation studies of substrate recognition by the exocelllulase CelF from Clostridium cellulolyticum", Biotechnology and Bioengineering, 2015
DOI: 10.1002/bit.25909
11/24/2015 Chen, M., Bu, L., Alahuhta, M., Brunecky, R., Xu, Q., Lunin, V.V., Brady, J.W., Crowley, M.F., Himmel, M.E., Bomble, Y.J., "Strategies to reduce end-product inhibition in family 48 glycoside hydrolases", Proteins: Structure, Function, and Bioinformatics, 84(3):295-304, 2015.
DOI: 10.1002/prot.24965
11/10/2015 Donohoe, B.S., Resch, M.G., "Mechanisms employed by cellulase systems to gain access through the complex architecture of lignocellulosic substrates", Current Opinion in Chemical Biology, 29:100-107, 2015.
DOI: 10.1016/j.cbpa.2015.08.014
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11/06/2015 Cha, M., Chung, D., Westpheling, J., "Deletion of a Gene Cluster for [Ni-Fe] Hydrogenase Maturation in the Anaerobic Hyperthermophilic Bacterium Caldicellulosiruptor bescii Identifies Its Role in Hydrogen Metabolism", Applied Microbiology and Biotechnology, 100(4):1823-1831 2015.
DOI: 10.1007/s00253-015-7025-z
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11/05/2015 Zeldes, B.M., Keller, M.W., Loder, A.J., Straub, C.T., Adams, M.W.W., Kelly, R.M., "Exremely thermophilic microorganisms as metabolic engineering platforms for production of fuels and industrial chemicals", Frontiers in Microbiology, 6:1209, 2016.
DOI: 10.3389/fmicb.2015.01209
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10/13/2015 Thompson, R.A., Layton, D.S., Guss, A.M., Olson, D.G., Lynd, L.R., Trinh, C.T., "Elucidating central metabolic redox obstacles hindering ethanol production in clostridium thermocellum", Metabolic Engineering, 32:207-219, 2015.
DOI: 10.1016/j.ymben.2015.10.004
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10/06/2015 Chung, D., Cha, M., Elkins, J.G., Guss, A., Westpheling, J., "Cellulosic Ethanol Production via Consolidated Bioprocessing at 75 ̊ C by Engineered Caldicellulosiruptor bescii", Biotechnology for Biofuels, 8(163), 2015.
DOI: 10.1186/s13068-015-0346-4
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09/28/2015 Dassa, B., Utturkar, S., Hurt, R.A., Klingeman, D.M., Keller, M., Xu, J., Reddy, H.K., Borovok, I., Rozman, I., Grinberg, R.L., Zhivin, O., Bayer, E.A., Brown, S.D., "Near-complete genome sequence of the cellulolytic bacterium", Genome Announcements, 3(5):e01022-15, 2015.
DOI: 10.1128/genomeA.01022-15
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09/21/2015 Zhou, J., Olson, D.G., Lanahan, A.A., Tian, L., Murphy, S.J-L., Lo, J., Lynd, L.R., "Physiological roles of pyruvate ferredoxin oxidoreductase and pyruvate formate-lyase in Thermoanaerobacterium saccharolyticum JW/SL-YS485", Biotechnology for Biofuels, 8(138) 2015.
DOI: 10.1186/s13068-015-0304-1
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09/21/2015 Shaw, A.J., Miller, B.B., Rogers, S.R., Kenealy, W.R., Meola, A., Bhandiwad, A., Sillers, W.R., Shikhare, I., Hogsett, D.A., Herring, C.D., "Anaerobic detoxification of acetic acid in a thermophilic ethanologen", Biotechnology for Biofuels, 8(75), 2015.
DOI: 10.1186/s13068-015-0257-4
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09/18/2015 Henningsen, B.M., Hon, S., Covalla, S.F., Sonu, C., Argyros, D.A., Barrett, T.F., Wiswall, E., Froehlich, A.C., Zelle, R. M., "Increasing anaerobic acetate consumption and ethanol yield in Saccharomyces cerevisiae with NADPH-specific alcohol dehydrogenase", Applied and Environmental Microbiology, 81(23):8108-17, 2015
DOI: 10.1128/AEM.01689-15
09/15/2015 Decker, S.R., Sykes, R.W., Turner, G.B., Lupoi, J.S., Doepkke, C., Tucker, M.P., Schuster, L.A., Mazza, K., Himmel, M.E., Davis, M.F., Gjersing, E., "High-throughput screening of recalcitrance variations in lignocellulosic biomass: total lignin, lignin monomers, and enzymatic sugar release", Journal of Visualized Experiments, 103, 2015.
DOI: 10.3791/53163
09/01/2015 Papanek, B., Biswas, R., Rydzak, T., Guss, A.M., "Elimination of metabolic pathways to all traditional fermentation products increases ethanol yields in Clostridium thermocellum", Metabolic Engineering, 32:49-54, 2015.
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09/01/2015 Lin, P.P., Mi, L., Morioka, A.H., Yoshino, K.M., Konishi, S., Xu, S.C., Papanek, B.A., Riley, L.A., Guss, A.M., Liao, J.C., "Consolidated bioprocessing of cellulose to isobutanol using Clostridium thermocellum", Metabolic Engineering, 31:44-52, 2015
DOI: 10.1016/j.ymben.2015.07.001
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08/29/2015 Sand, A., Holwerda, E.K., Ruppertsberger, N.M., Maloney, M.B., Olson, D.G., Nataf, Y., Borovok, I., Sonenshein, A.L., Bayer, E.A., Lamed, R., Lynd, L.R., Shoham, Y., "Three cellulosomal xylanase genes in C. thermocellum are regulated by both vegetative SigA (σA) and alternative SigI6 (σI6) factors", FEBS Letters, 589(20:B):3133-3140, 2015.
DOI: 10.1016/j.febslet.2015.08.026
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08/27/2015 Zeng, Y., Zhao, S., Wei, H., Tucker, M.P., Himmel, M.E., Mosier, N.S., Meilan, R., Ding, S-Y., "In situ micro-spectroscopic investigation of lignin in poplar cell walls pretreated by maleic acid", Biotechnology for Biofuels, 8(126), 2015.
DOI: 10.1186/s13068-015-0312-1
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08/24/2015 Slater, S.C., Simmons, B.A., Rogers, T.S., Phillips, M.E., Nordahl, K., Davison, B.H., "The DOE Bioenergy Research Centers: history, operations and scientific output," Bioenergy Research, 8(3):881-896, 2015.
DOI: 10.1007/s12155-015-9660-8
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08/01/2015 Chung, D., Young, J., Cha, M., Brunecky, R., Bomble, Y.J., Himmel, M.E., Westpheling, J., "Expression of the Acidothermus cellulolyticus E1 endoglucanase in Caldicellulosiruptor bescii enhances its ability to deconstruct crystalline cellulose", Biotechnology for Biofuels, 8(113), 2015.
DOI: 10.1186/s13068-015-0296-x
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08/01/2015 Rooney, et. al., "Draft genome sequence of the cellulolytic and xylanolytic thermophile Clostridum clariflavum Strain 4-2a", Genome Announcements, 3(4), 2015.
DOI: 10.1128/genomeA.00797-15
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08/01/2015 Wilson, D.B., Processive Cellulases, "Direct Microbial Conversion of Biomass to Advanced Biofuels", 5:91-110, 2015.
DOI: 10.1016/B978-0-444-59592-8.00005-1
08/01/2015 Kruer-Zerhusen, N., Wilson, D.B., "Bacterial AA10 Lytic Polysaccharide Monooxygenases Enhance the Hydrolytic Degradation of Recalcitrant Substrates", Direct Microbial Conversion of Biomass to Advanced Biofuels, 7:111-127, 2015.
DOI: 10.1016/B978-0-444-59592-8.00007-5
08/01/2015 Hobdey, S.E., Donohoe, B.S., Brunecky, R., Himmel, M., Bomble, Y.J., "New Insights into Microbial Strategies for Biomass Conversion", Direct Microbial Conversion of Biomass to Advanced Biofuels, 7:111-127, 2015.
DOI: 10.1016/B978-0-444-59592-8.00007-5
08/01/2015 Morais, S., Himmel, M.E., Bayer, E.A., "New Paradigms for Engineering Plant Cell Wall Degrading Enzymes", Direct Microbial Conversion of Biomass to Advanced Biofuels, 8:129-149, 2015.
DOI: 10.1016/B978-0-444-59592-8.00008-7
08/01/2015 Takasumi, J.L., Liao, J.C., "Outlook for the Production of Butanol from Cellulolytic Strains of Clostridia", Direct Microbial Conversion of Biomass to Advanced Biofuels, 14:291-306, 2015.
DOI: 10.1016/B978-0-444-59592-8.00014-2
08/01/2015 Yarbrough, J.M., Mittal, A., Bomble, Y.J., Olstad, J., Wolfrum, E.J., Hobdey, S.E., Himmel, M.E., Vinzant, T.B., "Influence of Particle Size on Direct Microbial Conversion of Hot Water Pretreated Poplar by Clostridium thermocellum", Direct Microbial Conversion of Biomass to Advanced Biofuels, 15:307-319, 2015.
DOI: 10.1016/B978-0-444-59592-8.00015-4
08/01/2015 Brown, S.D., Sander, K.B., Wu, C-W., Guss, A.M., "Clostridium thermocellum: Engineered for the Production of Bioethanol", Direct Microbial Conversion of Biomass to Advanced Biofuels, 16:321-333, 2015.
DOI: 10.1016/B978-0-444-59592-8.00016-6
08/01/2015 Chung, D., Verbeke, T.J., Cross, K.L., Westpheling, J., Elkins, J.G., "Expression of a heat-stable NADPH-dependent alcohol dehydrogenase in Caldicellulosiruptor bescii results in furan aldehyde detoxification", Biotechnology for Biofuels, 8(102), 2015.
DOI: 10.1186/s13068-015-0287-y
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07/27/2015 Scott, I.M., Rubinstein, G.M., Lipscomb, G.L., Basen, M., Schut, G.J., Rhaesa, A.M., Lancaster, W.A., Poole II, F.L., Kelly, R.M., Adams, M.W.W., "A new class of tungsten-containing oxidoreductase in the genus of the plant biomass-degrading, thermophilic bacteria Caldicellulosiruptor", Applied Environmental Microbiology, 81(20):7339-7347, 2015.
DOI: 10.1128/AEM.01634-15
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07/24/2015 Zurawski, J.V., Conway, J.M., Lee, L.L., Simpson, H., Izquierdo, J.A., Blumer-Schuette, S., Nookaew, I., Adams, M.W.W., Kelly, R.M., "Comparative analysis of extremely thermophilic caldicellulosiruptor species reveals common and unique cellular strategies for plant biomass utilization", Applied and Environmental Microbiology, 81(20):7159-7171, 2015.
DOI: 10.1128/AEM.01622-15
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07/20/2015 Alahuhta, M., Taylor II, L.E., Brunecky, R., Sammond, D.W., Michener, W., Adams, M.W.W., Himmel, M.E., Bomble, Y.J., Lunin, V.,"The catalytic mechanism and unique low pH optimum of Caldicellulosiruptor bescii family 3 pectate lyase, Acta Crystallography, D71:1946-1954, 2015.
DOI: 10.1107/S1399004715013760
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07/15/2015 Yu, M., Ji, L., Neumann, D.A., Chung, D-H., Groom, J., Westpheling, J., He, C., Schmitz, R.J., "Base-resolution detection of N4-methylcytosine in genomic DNA using 4mC-Tet-assisted-bisulfite-sequencing", Nucleic Acids Research, 43(21), 2015.
DOI: 10.1093/nar/gkv738
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07/15/2015 Rydzak, T., Lynd, L.R., Guss, A.M., "Elimination of formate production Clostridium thermocellum", Journal of Industrial Biotechnology, 42(9):1263-1272, 2015.
DOI: 10.1007/s10295-015-1644-3
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06/29/2015 Lo, J., Zheng T., Olson, D.G., Ruppertsberger, N., Truipathi, S.A., Guss, A.M., Lynd, L.R., "Deletion of nfnAB in Thermoanaerobacterium saccharolyticum and its effect on metabolism", Journal of Bacteriology, 197(18):2920-2929, 2015.
DOI: 10.1128/JB.00347-15
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06/26/2015 Currie, D.H., Raman, B., Gowen, C.M., Tschaplinski, T.., Land, M.L., Brown, Steven D., Covalla, S.L., Klingeman, D.M., Yang, Z.K., Engle, N.L., Johnson, C.M., Rodriguez, M., Shaw, A.J., Kenealy, W.R., Lynd, L.R., Fong, S.S., Mielenz, J.R., Davison, B.H., Hogsett, D.A., Herring, C.D., "Genome-scale resources for Thermoanaerobacterium saccharolyticum", BMC Systems Biology, 9(30), 2015.
DOI: 10.1186/s12918-015-0159-x
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06/26/2015 Zheng, T., Olson, D.G., Tian, L., Bomble, Y.J., Himmel, M.E., Lo, J., Hon, S., Shaw, A.J., van Dijken, J.P., Lynd, L.R., "Cofactor specificity of the bifunctional alcohol and aldehyde dehydrogenase (AdhE) in wild-type and mutants of Clostridium thermocellum and Thermoanaerobacterium saccharolyticum", Journal of Bacteriology, 197(15):2610-2619, 2015.
DOI: 10.1128/JB.00232-15
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06/08/2015 Fulton, L.M., Lynd, L.R., Korner, A., Greene, N., Tonachel, L.R., "The need for biofuels as part of a low carbon energy future", Biofuels, Bioproducts & Biorefining, 9(5):476-483 2015.
DOI: 10.1002/bbb.1559
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06/08/2015 Morrell-Falvey, J.L., Elkins, J.G., Wang, Z-W., "Determination of the cellulase activity distribution in Clostridium thermocellum and Caldicellulosiruptor obsidiansis cultures using fluorescent substrate", Journal of Environmental Sciences, 34:212-218, 2015.
DOI: 10.1016/j.jes.2015.03.009
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06/01/2015 Lee, L.L., et al, "Complete genome sequences of Caldicellulosiruptor sp. Strain Rt8.B8, Caldicellulosiruptor sp. Strain Wai35.B1, and Thermoanaaerobacter cellulolyticus", Genome Announcements, 3(3), 2015.
DOI: 10.1128/genomeA.00440-15
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05/21/2015 Mearls, E.B., Olson, D.G., Herring, C.D., Lynd, L.R., "Development of a regulatable plasmid-based gene expression system for Clostridium thermocellum", Applied Genetics and Molecular Biotechnology, 99(8):7589-7599, 2015.
DOI: 10.1007/s00253-015-6610-5
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05/20/2015 Mielenz, J.R., Rodriguez, M., Thompson, O.A., Yang, X., Yin, H., "Development of Agave as a dedicated biomass source: production of biofuels from whole plants", Biotechnology for Biofuels, 8(79), 2015.
DOI: 10.1186/s13068-015-0261-8
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05/14/2015 Davison, B.H., Brandt, C.C., Guss, A.M., Kaluri, U.C., Palumbo, A.V., Stouder, R.L., Webb, E.G., "The impact of biotechnological advances on the future of U.S. bioenergy", Biofuels, Bioproducts and Biorefining, 9(5):454-467, 2015.
DOI: 10.1002/bbb.1549
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04/14/2015 Utturkar, S.M., Klingeman, D.M., Bruno-Barcena, J.M., Chinn, M.S., Grunden, A.M., Kopke, M., Brown, S.D., "Sequence data for clostridium autoethanogenum using three generations of sequencing technologies", Scientific Data, 2:150014, 2015.
DOI: 10.1038/sdata.2015.14
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04/07/2015 Olson, D.G., Maloney, M., Lanahan, A.A., Hon, S., Hauser, L.J., Lynd, L.R., "Identifying promoters for gene expression in Clostridium thermocellum", Metabolic Engineering Communications, 2:23-29, 2015.
DOI: 10.1016/j.meteno.2015.03.002
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03/23/2015 Chung, D., Young, J., Bomble, Y.J., Vander Wall, Todd A., Groom, J., Himmel, M.E., Westpheling, J., "Homologous expression of the Caldicellulosiruptor bescii CelA reveals that the extracellular protein is glycosylated", PLOS ONE, 10(3) 2015.
DOI: 10.1371/journal.pone.0119508
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03/05/2015 Olson, D.G., Sparling, R., Lynd, L.R., "Ethanol production by engineered thermophiles", Current Opinion in Biotechnology, 33:130-141, 2015.
DOI: 10.1016/j.copbio.2015.02.006
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03/01/2015 Blumer-Schuette, S.E., Alahuhta, M., Conway, J.M., Lee, L.L., Zurawski, J.V., Giannone, R.J., Hettich, R.L., Lunin, V.V., Himmel, M.E., Kelly, R.M., "Discrete and structurally unique proteins (tapirins) mediate attachment of extremely thermophilic Calcicellulosiruptor species to cellulose", Journal of Biological Chemistry, 290(17):10645-10656, 2015.
DOI: 10.1074/jbc.M115.641480
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02/18/2015 Lo, J., Zheng, T., Olson, D.G., Ruppertsberger, N., Tripathi, S.A., Tian, L., Guss, A.M., Lynd, L.R., "The bifuncational alcohol and aldehyde dehydrogenase gene, adhE, is necessary for ethanol production in Clostridium thermocellum and Thermoanaerobacterium saccharolyticum", Journal of Bacteriology, 197(18):2920, 2015.
DOI: 10.1128/JB.02450-14
01/30/2015 Biswas, R., Zheng, T., Olson, D.G., Lynd, L.R., Guss, A.M., "Elimination of hydrogenase active site assembly blocks H2 production and increases ethanol yield in Clostridium thermocellum" Biotechnology for Biofuels, 8(20), 2015.
DOI: 10.1186/s13068-015-0204-4
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01/30/2015 Keller, M., Loder, A., Basen, M., Izquierdo, J., Kelly, R.M., Adams, M.W.W., "Production of lignofuels and electrofuels by extremely thermophilic microbes", Biofuels, 5(5):499-515, 2014.
DOI: 10.1080/17597269.2014.996729
12/03/2014 Clarkson, S.M., Hamilton-Brehm, S.D., Giannone, R.J., Engle, N.L., Tschaplinski, T.J., Hettich, R.L., Elkins, J.G., "A comparative multidimensional LC-MS proteomic analysis reveals mechanisms for furan aldehyde detoxification in Thermoanaerobacter pseudethanolicus 39E", Biotechnology for Biofuels, 7(165) 2014.
DOI: 10.1186/s13068-014-0165-z
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11/18/2014 Izquierdo, J.A., Pattathil, S., Guseva, A., Hahn, Michael G., Lynd, L.R., "Comparative analysis of the ability of Clostridium clariflavum strains and Clostridium thermocellum to utilize hemicellulose and unpretreated plant material", Biotechnology for Biofuels, 7(136), 2014.
DOI: 10.1186/s13068-014-0136-4
View PDF
11/11/2014 Basen, M., Schut, G.J., Nguyen D.M.N., Lipscomb, G.L., Benn, R.A., Prybol, C.J., Vaccaro, B.J., Poole, F.L., Kelly, R.M., Adams, M.W.W., "Single gene insertion drives bioalcohol production by a thermophilic archaeon", PNAS, 111(49):17618-17623, 2014.
DOI: 10.1073/pnas.1413789111
View PDF
11/10/2014 Archambault-Léger, V., Losordo, Z. and Lynd, L. R., "Energy, sugar dilution, and economic analysis of hot water flow-through pre-treatment for producing biofuel from sugarcane residues", Biofuels Bioproducts and Biorefining, 9(1):95-108, 2015.
DOI: 10.1002/bbb.1524
View PDF
10/21/2014 Holwerda, E.K., Thorne, P.G., Olson, D.G., Amador-Noguez, D., Engle, N.L., Tschaplinski, T.J., van Dijken, J.P., Lynd, L.R., The exometabolome of Clostridium thermocellum reveals overflow metabolism at high cellulose loading, Biotechnology for Biofuels, 7(155), 2014.
DOI: 10.1186/s13068-014-0155-1
View PDF
10/16/2014 Vishnivetskaya, T.A., Hamilton-Brehm, S.D., Podar, M., Mosher, J.J., Palumbo, A.V., Phelps, T.J., Keller, M., Elkins, J.G., "Community analysis of plant biomass-degrading microorganisms from Obsidian Pool, Yellowstone National Park", Microbial Ecology, 69(2):333-345 2014.
DOI: 10.1007/s00248-014-0500-8
View PDF
10/14/2014 Young, J., Chung, D., Bomble, Y.J., Himmel, M.E., Westpheling, J., "Deletion of Caldicellulosiruptor bescii CelA reveals its crucial role in the deconstruction of lignocellulosic biomass", Biotechnology for Biofuels, 7(142), 2014.
DOI: 10.1186/s13068-014-0142-6
View PDF
10/01/2014 Chung, D., Pattathil, S., Biswal, A.K., Hahn, M.G., Mohnen, D., Westpheling, J., "Deletion of a Gene Cluster Encoding Pectin Degrading Enzymes in Caldicellulosiruptor bescii Reveals an Important Role for Pectin in Plant Biomass Recalcitrance", Biotechnology for Biofuels, 7(147) 2014
DOI: 10.1186/s13068-014-0147-1
View PDF
09/16/2014 Groom, J., Chung, D., Young, J., Westpheling, J., "Heterologous complementation of a pyrF deletion in Caldicellulosiruptor hydrothermalis generates a new host for the analysis of biomass deconstruction", Biotechnology for Biofuels, 7(132), 2014.
DOI: 10.1186/s13068-014-0132-8
View PDF
08/01/2014 Kyrpides, et al., "Genomic encyclopedia of bacteria and archaea: sequencing a myriad of type strains", PLOS ONE, 12(8):e1001920, 2014.
DOI: 10.1371/journal.pbio.1001920
View PDF
08/01/2014 Archambault-Leger, V., Shao, X., Lynd, L.R., "Simulated performance of reactor configurations for hot-water pretreatment of sugarcane bagasse", ChemSusChem, 7(9):2721-7, 2014.
DOI: 10.1002/cssc.201402087
View PDF
07/22/2014 Xiao, L., Wei, H., Himmel, M.E., Jameel, H., Kelley, S.S., "NIR and Py-mbms coupled with multivariate data analysis as a high-throughput biomass characterization technique: a review", Frontiers in Plant Science, 5:388, 2014.
DOI: 10.3389/fpls.2014.00388
View PDF
06/06/2014 Currie, D.H., Guss, A.M., Herring, C.D., Giannone, R.J., Johnson, C.M., Lankford, P.K., Brown, S.D., Hettich, R.L., Lynd, L.R., "Profile of secreted hydrolases, associated proteins, and SipA in thermoanaerobacterium saccharolyticum during the degradation of hemicellulose", Applied and Environmental Microbiology, 80(16):5001-5011, 2014.
DOI: 10.1128/AEM.00998-14
View PDF
06/05/2014 Mearls, E.B., Lynd, L.R., "The identification of four histidine kinases that influence sporulation in Clostridium thermocellum", Anaerobe, 1(11):109-19, 2014
DOI: 10.1016/j.anaerobe.2014.06.004
View PDF
06/02/2014 Chung, D., Cha, M., Guss, A.M., Westpheling, J., "Direct conversion of plant biomass to ethanol by engineered Caldicellulosiruptor bescii", PNAS, 111(24):8931-8936, 2014.
DOI: 10.1073/pnas.1402210111
View PDF
05/01/2014 Brunecky, R., Alahuhta, M., Xu, Q., Donohoe, B.S., Crowley, M.F., Kataeva, I.A., Yang, S-J., Resch, M.G., Adams, M.W.W., Lumin, V.V., Himmel, M.E., Bomble, Y.J., Response to Comment on "Revealing Nature's Cellulase Diversity: The Digestion Mechanism of Caldicellulosiruptor bescii CelA", Science, 344, 2014.
DOI: 10.1126/science.1251701
View PDF
04/30/2014 Lin, P.P., Rabe, K.S., Takasumi, J.L., Kadisch, M., Arnold, F.H., Liao, J.C., "Isobutanol production at elevated temperatures in thermophilic Geobacillus thermoglucosidasius", Metabolic Engineering, 24:1-8, 2014.
DOI: 10.1016/j.ymben.2014.03.006
View PDF
04/13/2014 Myung, S., Rollin, J., You, C., Sun, F., Chandrayan, S., Adams, M.W.W., Zhang, Y.-H P., "In vitro metabolic engineering of hydrogen production at theoretical yield from sucrose", Metabolic Engineering, 24:70-77, 2014.
DOI: 10.1016/j.ymben.2014.05.006
View PDF
04/04/2014 Li, H., Pattathil, S., Foston, M.B., Ding, S.Y., Kumar, R., Gao, X., Mittal, A., Yarbrough, J.M., Himmel, M.E., Ragauskas, A.J., Hahn, M.G., Wyman, C.E., "Agave proves to be a low recalcitrant lignocellulosic feedstock for biofuels production on semi-arid lands", Biotechnology for Biofuels, 7(50), 2014.
DOI: 10.1186/1754-6834-7-50
View PDF
04/04/2014 Biswas, R., Persad, A., Bisaria, V.S., "Production of Cellulolytic Enzymes", Bioprocessing of Renewable Resources to Commodity Bioproducts, 5:105-132, 2014.
DOI: 10.1002/9781118845394.ch5
View PDF
04/01/2014 Kostylev, M., Alahuhta, M., Chen, M., Brunecky, R., Himmel, M.E., Lunin, V.V., Brady, J., Wilson, D.B., "Cel48A From Thermobifida fusca: Structure and Site Directed Mutagenesis of Key Residues", Biotechnology and Bioengineering, 114(4):664-673, 2013.
DOI: 10.1002/bit.25139
View PDF
02/07/2014 Biswas, R., Prabhu, S., Lynd, L.R., Guss, A. M., "Increase in ethanol yield via elimination of lactate production in an ethanol-tolerant mutant of clostridium thermocellum", PLOS ONE, 9(2):e86386, 2014.
DOI: 10.1371/journal.pone.0086389
View PDF
01/29/2014 Chen, M., Kostylev, M., Bomble, Y.J., Crowley, M.F., Himmel, M.E., Wilson, D.B., Brady, J.W., "Experimental and modeling studies of an unusual water-filled pore structure with possible mechanistic implications in family 48 cellulases", The Journal of Physical Chemistry B, 118(9):2306-2315 2014.
DOI: 10.1021/jp408767j
View PDF
01/14/2014 Kostylev, M., Wilson D., "A Distinct Model of Synergism between a Processive Endocellulase (TfCel9A) and an Exocellulase (TfCel48A) from Thermobifida fusca", Applied and Environmental Microbiology, 80(1):339-344, 2014.
DOI: 10.1128/AEM.02706-13
View PDF
01/12/2014 Archambault-Leger, V., Lynd, L.R., "Fluid mechanics relevant to flow through pretreatment of cellulosic biomass," Bioresource Technology, 157:278-283 2014.
DOI: 10.1016/j.biortech.2014.01.035
View PDF
01/12/2014 Basen, M., Rhaesa, A.M., Kataeva, I., Prybol, C.J., Scott, I.M., Pools, F.L., Adams, M.W.W., "Degradation of high loads of crystalline cellulose and of unpretreated plant biomass by the thermophilic bacterium Caldicellulosiruptor bescii", Bioresource Technology, 152:384-392 2014.
DOI: 10.1016/j.biortech.2013.11.024
View PDF
01/01/2014 Zurawski, J.W., Blumer-Schuette, S.E., Conway, J.M., Kelly, R.M., "The Extremely Thermophilic Genus Caldicellulosiruptor: Physiological and Genomic Characteristics for Complex Carbohydrate Conversion to Molecular Hydrogen", Microbial BioEnergy: Hydrogen Production, 8:177-195, 2014.
ISBN 978-94-017-8553-2
View PDF
01/01/2014 Brunecky, R., Donohoe, B.S., Selig, M.H., Wei, H., Resch, M., Himmel, M.E., "Basic Biological Research Relevant to Feestock Conversion", Compendium of Bioenergy Plants: Corn, 2:33-69, 2014.
ISBN: 978-1-4822-1058-3 eBook ISBN: 978-1-4822-1059-0
01/01/2014 You, C., Zhang, Y.-H. P., "Simple Cloning and DNA Assembly in Escherichia coli by Prolonged Overlap Extension PCR", DNA Cloning and Assembly Methods Methods in Molecular Biology, 1116:183-192, 2014.
DOI: 10.1007/978-1-62703-764-8_13
12/20/2013 Brunecky, R., Alahuhta, M., Xu, Q., Donohoe, B.S., Crowley, M.F., Kataeva, I.A., Yang, S.J., Resch, M. G., Adams, M.W.W., Lunin, V.V., Himmel, M.E., Bomble, Y.J., "Revealing nature's cellulase diversity: the digestion mechanism of caldicellulosiruptor bescii celA", Science, 342(6165):1513-1516, 2013.
DOI: 10.1126/science.1244273
View PDF
12/12/2013 Reed, P.T., Izquierdo, J.A., Lynd, L.R., "Cellulose fermentation by C. thermocellum and a mixed consortium in an automated repetitive batch reactor", Bioresource Technology, 155:50-56, 2013.
DOI: 10.1016/j.biortech.2013.12.051
View PDF
11/30/2013 Alahuhta, M., Adney, W.S., Himmel, M.E., Lunin, V.V., "Structure of Acidothermus cellulolyticus family 74 glycoside hydrolase at 1.82 A resolution", Acta Crystallographica Section F Structural Biology and Crystallization Communications, 69(12):1335-1338, 2013.
DOI: 10.1107/S1744309113030005
View PDF
11/29/2013 Dumitrache, A., Wolfaardt, G.M., Allen, D.G., Liss, S.N., Lynd, L.R., "Tracking the cellulolytic activity of clostridium thermocellum biofilms", Biotechnology for Biofuels, 6(175) 2013.
DOI: 10.1186/1754-6834-6-175
View PDF
11/18/2013 Ding, S.Y., "Overview of Lignocellulose: Structure and Chemistry", Biological Concerstion of Biomass for Fuels and Chemicals: Exploration from Natural Utilization Systems, 10(2):14-25, 2013.
DOI: 10.1039/9781849734738-00014
View PDF
11/15/2013 Dykstra, A., St. Brice, L., Rodriguez Jr., M., Raman, B., Izquierdo, J., Cook, K.D., Lynd, L.R., Hettich, R.L., "Development of a multi-point quantitation method to simultaneously measure enzymatic and structural components of the Clostridium thermocellum Cellulosome protein complex", Journal of Proteome Research, 13(2):692-701, 2013.
DOI: 10.1021/pr400788e
View PDF
11/09/2013 Bhandiwad, A., Shaw, A.J., Guss, A., Guseva, A., Bahl, H., Lynd, L.R., "Metabolic engineering of Thermoanaerobacterium saccharolyticum for n-butanol production", Metabolic Engineering, 21:71-25, 2014.
DOI: 10.1016/j.ymben.2013.10.012
View PDF
10/01/2013 Zhao, N., Yao, J., Chaiprasongsuk, M., Li, G., Guan, J., Tschaplinski, T.J., Guo, H., Chen, F., Molecular and biochemical characterization of the jasmonic acid methyltransferase gene from black cottonwood (Populus trichocarpa), Phytochemistry, 94:74-81, 2014.
DOI: 10.1016/j.phytochem.2013.06.014
View PDF
10/01/2013 Cha, M., Wang, H., Chung, D., Bennetzen, J.L., Westpheling, J., Isolation and bioinformatic analysis of a novel transposable element, ISCbe4, from the hyperthermophilic bacterium, caldicellulosiruptor bescii, Journal of Industrial Microbiology and Biotechnology, 40(12):1443-8, 2013.
DOI: 10.1007/s10295-013-1345-8
View PDF
09/27/2013 Sathitsuksanoh, N., Xu, B., Zhao, B., Zhang, Y.-H. P., Overcoming biomass recalcitrance by combining genetically modified switchgrass and cellulose solvent-based lignocellulose pretreatment, PLOS ONE, 8(9):e73523 2013.
DOI: 10.1371/journal.pone.0073523
View PDF
08/30/2013 Xi, Q., Ding,S.Y., Brunecky, R., Bomble, Y.J., Himmel, M.E., Baker, J.O., Improving activity of minicellulosomes by integration of intra- and intermolecular synergies, Biotechnology for Biofuels, 6(126), 2013.
DOI: 10.1186/1754-6834-6-126
View PDF
08/08/2013 Taghavi, S., Izquierdo, J.A., van der Lelie, D., Complete Genome Sequence of Clostridium sp. Strain DL-VIII, a Novel Solventogenic Clostridium Species Isolated from Anaerobic Sludge, Genome Announcements, 1(4), 2013.
DOI: 10.1128/genomeA.00605-13
View PDF
08/01/2013 Blumer-Schuette, S.E., Sander, K.E., Bayer, E.A., Zurawski, J.V., Conway, J.M., Adams, M.W.W., Kelly, R.M., Thermophilic lignocellulose deconstruction, FEMS Microbial Review, 38(3):393-448, 2014.
DOI: 10.1111/1574-6976.12044
View PDF
07/12/2013 Zhang, X.Z., Zhang, Y.H.P., Cellulases: Characteristics, sources, production, and applications, Bioprocessing Technologies in Biorefinery for Sustainable Production of Fuels, Chemicals, and Polymers, 8:131-146, 2014.
DOI: 10.1002/9781118642047.ch8
View PDF
07/09/2013 Kostylev, M., Wilson, D., Two-parameter kinetic model based on a time-dependent activity coefficient accurately describes enzymatic cellulose digestion, Biochemistry, 52(33):5656–5664, 2013.
DOI: 10.1021/bi400358v
View PDF
06/15/2013 Atalla, R.S., Crowley, M.F., Himmel, M.E., Atalla, R.H., "Irreversible transformations of native celluloses, upon exposure to elevated temperatures", Carbohydrate Polymers, 100:(2-8), 2013.
DOI: 10.1016/j.carbpol.2013.06.007
View PDF
06/01/2013 Gilna, P., Cellulosic biofuels, Science Omega Review Europe, 2, 2013.
View PDF
06/01/2013 Brown, S.D., Klingeman, D.M., Johnson, C.M., Clum, A., Aerts, A., Salamov, A., Sharma, A., Zane, M., Barry, K., Grigoriev, I.V., Davison, B.D., Lynd, L.R., Gilna, P., Hau, H., Hogsett, D.A., Froehlich, A.C., Genome sequences of industrially relevant Saccharomyces cerevisiae Strain M3707, isolated from a sample of distillers yeast and four haploid derivatives, Genome Announcements, 1(3), 2013.
DOI: 10.1128/genomeA.00323-13
View PDF
06/01/2013 Chung, D., Farkas, J., Westpheling, J., "Overcoming restriction as a barrier to DNA transformation in Caldicellulosiruptor species results in efficient marker replacement," Biotechnology for Biofuels, 6(82), 2013.
DOI: 10.1186/1754-6834-6-82
View PDF
06/01/2013 Cha, M., Chung, D., Elkins, J.G., Guss, A.M., Westpheling, J., Metabolic engineering of Caldicellulosiruptor bescii yields increased hydrogen production from lignocellulosic biomass, Biotechnology for Biofuels, 6(85), 2013.
DOI: 10.1186/1754-6834-6-85
View PDF
05/01/2013 Lynd, L., Laser, M., Cellulosic Biofuels: Importance, Recalcitrance, and Pretreatment, Aqueous Pretreatment of Plant Biomass for Biological and Chemical Conversion to Fuels and Chemicals, (ed Wyman, C.E.), 2:17-21, 2013.
DOI: 10.1002/9780470975831.ch2
View PDF
05/01/2013 Kataeva, I., Foston, M.B., Yang, S., Pattathil, S., Biswal, A.K., Poole, F.L., Basen, M., Rhaesa, A.M., Thomas, T.P., Azadi, P., Olman, V., Safford, T.D., Mohler, K.E., Lewis, D.L., Doeppke, C., Zeng, Y., Tschaplinski, T.J., York, W., Davis, M., Mohnen, D., Xu, Y., Ragauskas, A.J., Ding, S.Y., Kelly, R.M., Hahn, M.G., Adams, W.W.M., Carbohydrate and lignin are simultaneously solubilized from unpretreated switchgrass by microbial action at high temperature, Energy and Environmental Science, 6(7):2186-2195, 2013
DOI: 10.1039/C3EE40932E
View PDF
04/15/2013 van der Veen, D., Lo, J., Brown, S.D., Johnson, C.M., Tschaplinski, T.J., Martin,k M., Engle, N.L., van den Berg, R.A., Argyros, A.D., Caiazza, N.C., Guss, A.M., Lynd, L.R., Characterization of Clostridium thermocellum strains with disrupted fermentation end product pathways, 40(7):725-734, 2013.
DOI: 10.1007/s10295-013-1275-5
View PDF
04/15/2013 Wang, Z.W., Lee, S.H., Elkins, J.G., Li, Y., Hamilton-Brehm, S., Morrell-Falvey, J.L., Continuous live cell imaging of cellulose attachment by microbes under anaerobic and thermophilic conditions using confocal microscopy, Journal of Environmental Sciences, 25(5):849-856, 2013.
DOI: 10.1016/S1001-0742(12)60104-1
View PDF
04/11/2013 Holwerda, E.K., Lynd, L.R., Testing alternative kinetic models for utilization of crystalline cellulose (Avicel) by batch cultures of Clostridium thermocellum, Biotechnology and Bioengineering, 110(9):2389-94, 2013.
DOI: 10.1002/bit.24914
View PDF
04/11/2013 Holwerda, E.K., Ellis, L.D., Lynd, L.R., Development and evaluation of methods to infer biosynthesis and substrate consumption in cultures of cellulolytic microorganisms, Biotechnology and Bioengineering, 110(9):2380-8, 2013.
DOI: 10.1002/bit.24915
View PDF
04/11/2013 Elkins, J.G., Hamilton-Brehm, S.D., Lucas, S., Han, J., Lapidus, A., Cheng, J.F., Goodwin, L.A., Pitluck, S., Peters, L., Mikhailova, N., Davenport, K.W., Detter, J.C., Han, C.S., Tapia, R., Land, M.L., Hauser, L., Kyrpides, N.C., Ivanova, N.N., Pagani, I., Bruce, D., Woyke, T., Cottingham, R.W., Complete genome sequence of the hyperthermophilic sulfate-reducing bacterium thermodesulfobacterium geofontis OPF15, Genome Announcements, 1(2):e00162-13, 2013.
DOI: 10.1128/genomeA.00162-13
View PDF
04/08/2013 Resch, M.G., Donohoe, B.S., Baker, J.O., Decker, S.R., Bayer, E.A., Beckham, G.T., Himmel, M.E., Fungal cellulases and complexed cellulosomal enzymes exhibit synergistic mechanisms in cellulose deconstruction, Energy and Environmental Science, 6(6):1858-1867, 2013.
DOI: 10.1039/C3EE00019B
View PDF
04/03/2013 Chung, D., Cha, M., Farkas, J., Westpheling, J., "Construction of a stable replicating shuttle vector for Caldicellulosiruptor species: use for extending genetic methodologies to other members of this genus," PLOS ONE, 8(5):e62881, 2013.
DOI: 10.1371/journal.pone.0062881
View PDF
04/01/2013 You, C., Chen, H., Myung, S., Sathitsuksanoh, N., Ma. H., Zhang, X.Z., Li, J., Zhang, Y.-H.P., Enzymatic transformation of nonfood biomass to starch, PNAS, 110(18):7182-7187, 2013.
DOI: 10.1073/pnas.1302420110
View PDF
03/19/2013 Martin del Camp, J.S., Rollin, J., Myung, S., Chun, Y., Chandrayan, S., Patino, R., Adams, M.W.W., Zhang, Y.H., High-yield production of dihydrogen from xylose by using a synthetic enzyme cascade in a cell-free system, Angewandte Chemie, 52(17):1-5, 2013.
DOI: 10.1002/anie.201300766
View PDF
03/10/2013 Chung, D., Farkas, J., Westpheling, Detection of a novel active transposable element in Caldicellulosiruptor hydrothermalis and a new search for elements in this genus, Journal of Industrial Microbiology and Biotechnology, 40:517-521, 2013.
DOI: 10.1007/s10295-013-1244-z
View PDF
03/01/2013 Bhandiwad, A., Guseva, A., Lynd, L. R., "Metabolic engineering of thermoanaerobacterium thermosaccharolyticum for n-butanol production", Advances in Microbiology, 3(1), 2013.
DOI: 10.4236/aim.2013.31007
View PDF
03/01/2013 Alahuhta, M., Brunecky, R., Chandrayan, P., Kataeva, I., Adams, M.W.W., Himmel, M.E., Lunin, V.V., The structure and mode of action of Caldicellulosiruptor bescii family 3 pectate lyase in biomass deconstruction, Acta Crystallographica Section D, D69:(534-539), 2013.
DOI: 10.1107/S0907444912050512
View PDF
02/22/2013 Zhou, J., Olson, D.G., Argyros, D.A., Deng, Y., van Gulik, W.M., van Dijken, J.P., Lynd, L.R., An atypical glycolysis in Clostridium thermocellum, Applied and Environmental Microbiology, 79(9):3000-8, 2013.
DOI: 10.1128/AEM.04037-12
View PDF
02/01/2013 Currie, D.H., Herring, C.D., Guss, A.M., Olson, D.G., Hogsett, D.A., Lynd, L.R., Functional heterologous expression of an engineered full length CipA from Clostridium thermocellum in Thermoanaerobacterium saccharolytim, Biotechnology for Biofuels, 6(32), 2013.
DOI: 10.1186/1754-6834-6-32
View PDF
02/01/2013 GhattyVenkataKrishna, P.K., Alekozai, E.M., Beckham, G.T., Schulz, R., Crowley, M.F., Uberbacher, E.C., Cheng, X., Initial recognition of a cellodextrin chain in the cellulose-binding tunnel may affect cellobiohydrolase directional specificity, Biophysical Journal, 104(4):904-912, 2013.
DOI: 10.1016/j.bpj.2012.12.052
View PDF
02/01/2013 Fried, D.B., Morais, S., Xu, Q., Ding, S.Y., Baker, J.O., Bomble, Y.J., Himmel, M.E., Bayer, E.A., Self-assembly and application of cellulosomal components, Bionanotechnology: Biological Self-assembly and its Applications, 2, 2013.
ISBN: 978-1-908230-16-4
01/04/2013 Hamilton-Brehm, S.D., Gibson, R.A., Green, S.J., Hopmans, E.C., Schouten, S., van der Meer, M.T.J., Shields, J.P., Damste, J.S.S., Elkins, J.G., Thermodesulfobacterium geofontis sp. Nov., a hyperthermophilic, sulfate-reducing bacterium isolated from Obsidian Pool, Yellowstone National Park, Extremophiles, 17(2):251-63, 2013.
DOI: 10.1007/s00792-013-0512-1
View PDF
12/10/2012 Shao, X., Lynd, L., Kinetic modeling of xylan hydrolysis in co- and countercurrent liquid hot water flow-through pretreatments, Bioresource Technology, 130:117-124, 2012.
DOI: 10.1016/j.biortech.2012.11.109
View PDF
12/01/2012 Xu, B., Sathitsuksanoh, N., Tang, Y., Udvardi, M.K., Zhang, J.Y., Shen, Z., Balota, M., Harich, K., Zhang, P.Y.H., Zhao, B., Overexpression of AtLOV1 in Switchgrass alters plant architecture, lignin content, and flowering time, PLOSONE, 7(12):e47399, 2012.
DOI: 10.1371/journal.pone.0047399
View PDF
12/01/2012 Olson, D.G., Giannone, R.J., Hettich, R.L., Lynd, L.R., The role of the CipA scaffoldin protein in cellulose solubilization as determined by targeted gene deletion and complementation in Clostridium thermocellum, Journal of Bacteriology, 195(4):733-9, 2012.
DOI: 10.1128/JB.02014-12
View PDF
12/01/2012 Deng, Y., Olson, D.G., Zhou, J., Herring, C.D., Shaw, A., Lynd, L.R., Redirecting carbon Flux through exogenous pyruvate kinase to achieve high ethanol yields in Clostridium thermocellum, Metabolic Engineering, 15:151-8, 2012.
DOI: 10.1016/j.ymben.2012.11.006
View PDF
12/01/2012 Li, L.L., Taghavi, S., Izquierdo, J.A., van der Lelie, D., Complete genome sequence of Clostridium sp. Strain BNL1100, a cellulolytic mesophile isolated from corn stover, Journal of Bacteriology, 194(24):6982-6983, 2012.
DOI: 10.1128/JB.01908-12
View PDF
11/30/2012 Sathitsuksanoh, N., George, A., Zhang, Y-H P., New lignocellulose pretreatments using cellulose solvents: a review, Journal of Chemical Technology and Biotechnology, 88(2),169-180, 2012.
DOI: 10.1002/jctb.3959
View PDF
11/23/2012 Ding, S.Y., Liu, Y.S., Zeng, Y., Himmel, M.E., Baker, J.O., Bayer, E.A., "How Does Plant Cell Wall Nanoscale Architecture Correlate With Enzymatic Digestibility?", Science, 338(6110):1055-1060, 2012.
DOI: 10.1126/science.1227491
View PDF
11/12/2012 Yee, K.L., Rodriguez Jr. M., Tschaplinski, T.J., Engle, N.L., Martin, M.Z., Fu, C., Wang, Z.Y., Hamilton-Brehm, S.D., Mielenz, J.R., Evaluation of the bioconversion of genetically modified switchgrass using simultaneous saccharification and fermentation and a consolidated bioprocessing approach, Biotechnology for Biofuels, 5(81), 2012.
DOI: 10.1186/1754-6834-5-81
View PDF
10/10/2012 Sukharnikov, L, Alahuhta, M., Brunecky, R., Upadhyay, A., Himmel, M., Lunin, V.V., Zhulin, I, Sequence , Structure, and Evolution of Cellulases in the Glycoside Hydrolase Family 48, The Journal of Biological Chenistry, 287(49):41068-77, 2012.
DOI: 10.1074/jbc.M112.405720
View PDF
10/10/2012 Waller, B.H., Olson, D.G., Currie, D.H., Guss, A.M., Lynd, L.R., Exchange of type II dockerin-containing subunits of the Clostridium thermocellum cellulosome as revealed by SNAP-tags , FEMS Microbiology Letters, 338(1):46-53, 2012.
DOI: 10.1111/1574-6968.12029
View PDF
09/28/2012 Podkaminer, K.K., Guss, A.M., Trajano, H.L., Hogsett, D.A., Lynd, L.R., Characterization of xylan utilization and discovery of a new endoxylanase in Thermoanaerobacterium saccharolyticum through targeted gene deletions, Applied and Environmental Microbiology, 78(23):8441-7, 2012
DOI: 10.1128/AEM.02130-12
View PDF
09/19/2012 Farkas, J., Chung, D., Cha, M., Copeland, J., Grayeski, P., Westpheling, J., Improved growth media and culture techniques for genetic analysis and assessment of biomass utilization by Caldicellulosiruptor bescii, Journal of Industrial Microbiology and Biotechnology, 40(1):41-9, 2012.
DOI: 10.1007/s10295-012-1202-1
View PDF
08/22/2012 Chung, D., Farkas, J., Huddleston, J., Olivar, E., Westpheling, J., "Methylation by a unique α-class N4-Cytosine Methyltransferase is Required for DNA Transformation of Caldicellulosiruptor bescii DSM6725," PLOS ONE, 7(8):e43844, 2012.
DOI: 10.1371/journal.pone.0043844
View PDF
08/16/2012 Mearls, E.B., Izquierdo, J.A., Lynd, L.E., "Formation and characterization of non-growth states in Clostridium thermocellum: spores and L-forms," BMC Microbiology, 12(180), 2012.
DOI: 10.1186/1471-2180-12-180
View PDF
08/01/2012 Himmel, M.E., Decker, S.R., Johnson, D.K., Challenges for Assessing the Performance of Biomass Degrading Biocatalysts, Methods in Molecular Biology Biomass Conversion: Methods and Protocols, 908:1-8, 2012.
DOI: 10.1007/978-1-61779-956-3_1
08/01/2012 Ding, S.Y., Liu, Y.S., Imaging Cellulose Using Atomic Force Microscopy, Methods in Molecular Biology Biomass Conversion: Methods and Protocols, 908:23-30, 2012.
DOI: 10.1007/978-1-61779-956-3_3
08/01/2012 Zeng, Y., Himmel, M.E., Ding, S.Y., Coherent Raman Microscopy Analysis of Plant Cell Walls, Methods in Molecular Biology Biomass Conversion: Methods and Protocols, 908:49-60, 2012.
DOI: 10.1007/978-1-61779-956-3_5
08/01/2012 Pattathil, S., Avci, U., Miller, J.S., Hahn, M.G., Immunological Approaches to Plant Cell Wall and Biomass Characterization: Glycome Profiling, Methods in Molecular Biology Biomass Conversion: Methods and Protocols, 908:61-72, 2012.
DOI: 10.1007/978-1-61779-956-3_6
08/01/2012 Wilson, D.B., Kostylev, M., Cellulase Processivity, Methods in Molecular Biology Biomass Conversion: Methods and Protocols, 908:93-99, 2012.
DOI: 10.1007/978-1-61779-956-3_9
08/01/2012 Liu, Y.S., Ding, S.Y., Himmel, M.E., Single-Molecule Tracking of Carbohydrate-Binding Modules on Cellulose Using Fluorescence Microscopy, Methods in Molecular Biology Biomass Conversion: Methods and Protocols, 908:129-140, 2012.
DOI: 10.1007/978-1-61779-956-3_13
08/01/2012 Gilbert, J., Li, Luen-Luen, Taghavi, S., McCorkle, S.M., Tringe, S., van der Lelie, D., Bioprospecting Metagenomics for New Glycoside Hydrolases, Methods in Molecular Biology Biomass Conversion: Methods and Protocols, 908:141-151, 2012.
DOI: 10.1007/978-1-61779-956-3_14
08/01/2012 Hamilton-Brehm, S.D., Vishnivetskaya, T.A., Allman, S.L., Mielenz, J.R., Elkins, J.G., Anaerobic High-Throughput Cultivation Method for Isolation of Thermophiles Using Biomass-Derived Substrates, Methods in Molecular Biology Biomass Conversion: Methods and Protocols, 908:153-168, 2012.
DOI: 10.1007/978-1-61779-956-3_15
08/01/2012 Decker, S.R., Carlile, M., Selig, M.J., Doeppke, C., Davis, M., Sykes, R., Turner, G., Ziebell, A., Reducing the Effect of Variable Starch Levels in Biomass Recalcitrance Screening, Methods in Molecular Biology Biomass Conversion: Methods and Protocols, 908:181-198, 2012.
DOI: 10.1007/978-1-61779-956-3_17
08/01/2012 Brunecky, R., Baker, J.O., Wei, H., Taylor, L.E., Himmel, M.E., Decker, S.R., Analysis of Transgenic Glycoside Hydrolases Expressed in Plants: T. reesei CBH I and A. celluloyticus EI, Methods in Molecular Biology Biomass Conversion: Methods and Protocols, 908:197-211, 2012.
DOI: 10.1007/978-1-61779-956-3_18
08/01/2012 Corea, O.R.A., Ki, C., Cardenas, C.L., Davin, L.B., Lewis, N.G., Laser Microdissection and Genetic Manipulation Technologies to Probe Lignin Heterogeneity and Configuration in Plant Cell Walls, Methods in Molecular Biology Biomass Conversion: Methods and Protocols, 908:229-250, 2012.
DOI: 10.1007/978-1-61779-956-3_20
08/01/2012 Chen, Y.R., Sarkanen, S., Wang, Y.Y., Lignin-Degrading Enzyme Activities, Methods in Molecular Biology Biomass Conversion: Methods and Protocols, 908:251-268, 2012.
DOI: 10.1007/978-1-61779-956-3_21
07/25/2012 Frock, A.D., Kelly, R.M., Extreme thermophiles: moving beyond single-enzyme biocatalysis, Current Opinion in Chemical Engineering, 1(4):363-372, 2012.
DOI: 10.1016/j.coche.2012.07.003
View PDF
07/23/2012 Yang, S., Giannone, R.J., Dice, L., Yang, Z.K., Engle, N.L., Tschaplinski, T.J., Hettich, R.L., Brown, S.D., Clostridium thermocellum ATCC27405 transcriptomic, metabolomic and proteomic profiles after ethanol stress, BMC Genomics, 13(336), 2012.
DOI: 10.1186/1471-2164-13-336
View PDF
07/23/2012 You, C., Myung, S., Zhang, Y.-H. P., Facilitated Sustrate Channeling in a Self-Assembled Trifunctional Enzyme Complex, Angewandte Chemie International Edition, 51:1-5, 2012.
DOI: 10.1002/anie.201202441
View PDF
07/19/2012 Archambault-Leger, V., Show, X., Lynd, L.R., Integrated analysis of hydrothermal flow through pretreatment, Biotechnology for Biofuels, 5(49), 2012.
DOI: 10.1186/1754-6834-5-49
View PDF
06/15/2012 Podkaminer, K.K., Kenealy, W.R., Herring, C.D., Hogsett, D.A., Lynd, L.R., Ethanol and anaerobic conditions reversibly inhibit commercial cellulase activity in thermophilic simultaneous saccharification and fermentation (tSSF), Biotechnology for Biofuels, 5(43), 2012.
DOI: 10.1186/1754-6834-5-43
View PDF
05/25/2012 Brown, S.D., Lamed, R., Morag, E., Borovok, I., Shoham, Y., Klingeman, D.M., Johnson, C.M., Yang, Z., Land, M.L., Utturkar, S.M., Keller, M., Bayer, E.A., Draft Genome Sequences for Clostridium thermocellum Wild-Type Strain YS and Derived Cellulose Adhesion-Defective Mutant Strain AD2, Journal of Bacteriology, 194(12):3290-3291, 2012.
DOI: 10.1128/JB.00473-12
View PDF
05/25/2012 Blumer-Schuette, S.E., Giannone, R.J., Zurawski, J.V., Ozdemir, I., Ma, Q., Yin, Y., Xu, Y., Kataeva, I., Poole II, F.L., Adams, M.W.W., Hamilton-Brehm, S.D., Elkins, J.G., Larimer, F.W., Land, M.L., Hauser, L., Cottingham, R.W., Hettich, R.L., Kelly, R.M., Caldicellulosiruptor core and pan genomes reveal determinants for non-cellulosomal thermophilic deconstruction of plant biomass, Journal of Bacteriology, 194(15):4015-28, 2012.
DOI: 10.1128/JB.00266-12
View PDF
05/22/2012 You, C., Zhang, Y.H.P, Easy preparation of a large-size random gene mutagenesis library in Escherichia coli, Analytical Biochemistry, 428(1):7-12, 2012.
DOI: 10.1016/j.ab.2012.05.022
View PDF
05/17/2012 Olson, D.G., Lynd, L.R., "Transformation of Clostridium thermocellum by electroporation, Methods in Enzymology," 510:317-330, 2012.
DOI: 10.1016/B978-0-12-415931-0.00017-3
View PDF
05/14/2012 Cui, Z., Wan, C., Shi, J., Sykes, R.W., Li, Y., Enzymatic Digestibility of Corn Stover Fractions in Response to Fungal Pretreatment, Industrial and Engineering Chemistry Research, 51(21):7153–7159, 2012.
DOI: 10.1021/ie300487z
View PDF
05/11/2012 Olson, D., Lynd, L.R., "Computational design and characterization of a temperature-sensitive plasmid replicon for gram positive thermophiles," Journal of Biological Engineering, 6(5), 2012.
DOI: 10.1186/1754-1611-6-5
View PDF
05/06/2012 Guss, A.M., Olson, D.G., Caiazza, N.C., Lynd, L.R., Dcm methylation is detrimental to plasmid transformation in Clostridium thermocellum, Biotechnology for Biofuels, 5(30), 2012.
DOI: 10.1186/1754-6834-5-30
View PDF
05/01/2012 van der Lelie, D., Taghavi, S., McCorkle, S.M., Li, L.L., Malfatti, S.A., Monteleone, D., Donohoe, B.S., Ding, S.Y., Adney, W.S., Himmel, M.E., Tringe, S.G., The metagenome of an anaerobic microbial community decomposing poplar wood chips, PLOS ONE, 7(5):e36740, 2012.
DOI: 10.1371/journal.pone.0036740
View PDF
04/27/2012 Basen, M., Sun, J., Adams, M.W.W., "Engineering a Hyperthermophilic Archaeon for Temperature-Dependent Product Formation", mBio, 3(2):e00053, 2012.
DOI: 10.1128/mBio.00053-12
View PDF
04/21/2012 Sathitsuksanoh, N., Zhu, Z., Zhang, Y-H.P., Cellulose solvent - and organic solvent-based lignocellulose fractionation enabled efficient sugar release from a variety of lignocellulosic feedstocks, Bioresource Technology, 117:228-33, 2012.
DOI: 10.1016/j.biortech.2012.04.088
View PDF
04/11/2012 Zhu, Z., Sun, F., Zhang, X., Zhang, Y.-H.P., Deep oxidation of glucose in enzymatic fuel cells through a synthetic enzymatic pathway containing a cascade of two thermostable dehydrogenases, Biosensors and Bioelectronics, 36(1):110-5, 2012.
DOI: 10.1016/j.bios.2012.04.001
View PDF
04/10/2012 Wei, H., Tucker, M., Baker, J., Harris, M., Luo, Y., Xu, Q., Himmel, M., Ding, S-Y., Tracking dynamics of plant biomass composting by changes in substrate structure, microbial community, and enzyme activity, Biotechnology for Biofuels, 5(20), 2012.
DOI: 10.1186/1754-6834-5-20
View PDF
04/01/2012 Farkas, J., Stirrett, K., Lipscomb, G.L., Nixon, W., Scott, R.A., Adams, M.W.W., Westpheling, J., The Recombinogenic Properties of the Pyrococcus furiosus COM1 Strain Enable Rapid Selection of Targeted Mutants, Applied Environmental Microbiology, 78(13):4669-4676, 2012.
DOI: 10.1128/AEM.00936-12
View PDF
04/01/2012 Hu, F., Jung, S., Ragauskas, A., Pseudo-lignin formation and its impact on enzymatic hydrolysis, Bioresource Technology, 117:7-12, 2012.
DOI: 10.1016/j.biortech.2012.04.037
View PDF
04/01/2012 Ye, X., Zhang, C., Zhang, Y-H.P., Engineering a large protein by combined rational and random approaches: stabilizing the Clostridium thermocellum cellobiose phosphorylase, Molecular BioSystems, 8(6):1815-1823, 2012.
DOI: 10.1039/c2mb05492b
View PDF
04/01/2012 Sathitsuksanoh, N., Zhu, Z., Zhang, Y.H.P., Cellulose solvent-based pretreatment for corn stover and avicel: concentrated phosphoric acid versus ionic liquid [BMIM]C1, Cellulose, 19(4):1161-1172, 2012.
DOI: 10.1007/s10570-012-9719-z
View PDF
03/12/2012 Izquierdo, J. A., L. Goodwin, et al. "Complete Genome Sequence of Clostridium clariflavum DSM 19732." Standards In Genomic Sciences, 6(1):104-115, 2012.
DOI: 10.4056/sigs.2535732
View PDF
03/03/2012 Percival Zhang, Y.-H., J.-H. Xu, et al., A new high-energy density hydrogen carrier—carbohydrate—might be better than methanol, International Journal of Energy Research, 37(7):769-779, 2013.
DOI: 10.1002/er.2897
View PDF
03/01/2012 Brunecky, R., M. Alahuhta, et al. "Structure and function of the Clostridium thermocellum cellobiohydrolase A X1-module repeat: enhancement through stabilization of the CbhA complex." Acta Crystallographica Section D 68(3): 292-299, 2012.
DOI: 10.1107/S0907444912001680
View PDF
02/15/2012 You, C., Zhang, X.Z., Zhang, Zhang, Y.H.P., Mini-scaffoldin enhanced mini-cellulosome hydrolysis performance on low -accessibility cellulose (Avicel) more than on high-accessibility amorphous cellulose, Biochemical Engineering Journal, 63:57-65, 2012.
DOI: 10.1016/j.bej.2012.01.011
View PDF
02/14/2012 Holwerda, E., K. Hirst, et al. (2012). "A defined growth medium with very low background carbon for culturing Clostridium thermocellum." Journal of Industrial Microbiology and Biotechnology, 39(6):943-947, 2012.
DOI: 10.1007/s10295-012-1091-3
View PDF
02/08/2012 Sun, F., Zhang, X.Z., Myung, S., Zhang, Y.-H.P, Thermophilic Thermotoga maritima ribose-5 phosphate isomerase RpiB: Optimized heat treatment purification and basic characterization, Protein Expression and Purification, 8(2):302-307, 2012.
DOI: 10.1016/j.pep.2012.01.017
View PDF
01/11/2012 Syed, M.H., Karpinets, T.V., Parang, M., Leuze, M.R., Park, B.H., Hyatt, D., Brown, S.D., Moulton, S., Galloway, M.D., Uberbacher, E.C., BESC knowledgebase public portal, Bioinformatics., 28(5):750-751, 2012.
DOI: 10.1093/bioinformatics/bts016
View PDF
01/04/2012 Yongchao Li, Timothy J Tschaplinski, Nancy L Engle, Choo Y Hamilton, Miguel Rodriguez, James C Liao, Christopher W Schadt, Adam M Guss, Yunfeng Yang and David E Graham. "Combined inactivation of the Clostridium cellulolyticum lactate and malate dehydrogenase genes substantially increases ethanol yield from cellulose and switchgrass fermentations." Biotechnology for Biofuels 5(2), 2012.
DOI: 10.1186/1754-6834-5-2
View PDF
01/01/2012 Kostylev, M. and D. Wilson, "Synergistic interactions in cellulose hydrolysis." Biofuels, 3(1):61-70, 2011.
DOI: 10.4155/bfs.11.150
View PDF
01/01/2012 Yang, S., Keller, M., Brown, S.D., "Microbial Stress Tolerance for Biofuels," Microbiology Monographs, 22:161-175:, 2012.
DOI: 10.1007/978-3-642-21467-7_7
View PDF
01/01/2012 Vishnivetskaya T.A., Raman B., Phelps T.J., Podar M., Elkins J.G. Cellulolytic Microorganisms from Thermal Environments. 2012. In book "Extremophiles: Microbiology and Biotechnology” (ed. Anitori R.), Caister Academic Press, Norfolk, UK, 7:131-158.
ISBN: 978-1-904455-98-1
View PDF
01/01/2012 Yang, S., Klingeman, D, Brown, S.D., "Ethanol-tolerant Gene Identification in Clostridium thermocellum using Pyro-resequencing for Metabolic Engineering," Methods in Molecular Biology, 834:111-36, 2012.
DOI: 10.1007/978-1-61779-483-4_9
12/14/2011 Olson, D.G., McBride, J.E., Joe, Shaw, Olson, D. G., J. E. McBride, Lynd, L.L., Recent progress in consolidated bioprocessing, Current Opinion in Biotechnology, 23(3):396-405, 2012.
DOI: 10.1016/j.copbio.2011.11.026
View PDF
12/08/2011 Chen, M., Y. J. Bomble,t al. "Molecular dynamics simulations of the interaction of glucose with imidazole in aqueous solution." Carbohydrate Research 349:73–77, 2012
DOI: 10.1016/j.carres.2011.12.008
View PDF
12/01/2011 You, C., Zhang, X.Z., Sathitsuksanon, N., Lynd, L.R., Zhang, Y.H.P "Enhanced microbial cellulose utilization of recalcitrant cellulose by an ex vivo cellulosome-microbe complex", Applied and Environmental Microbiology, 78(5):1437-1444, 2012.
DOI: 10.1128/AEM.07138-11
View PDF
12/01/2011 You, C., Zhang, Y.-H. P., Simple Cloning and DNA Assembly in Escherichia coli by Prolonged Overlap Extension PCR, DNA Cloning and Assembly MethodsMethods in Molecular Biology, 1116:183-192, 2014
DOI: 10.1128/AEM.07105-11
View PDF
11/24/2011 Wilson, D. , "Processive and nonprocessive cellulases for biofuel production—lessons from bacterial genomes and structural analysis." Applied Microbiology and Biotechnology 93(2):497-502, 2012.
DOI: 10.1007/s00253-011-3701-9
View PDF
11/19/2011 Ozdemir, I., S. E. Blumer-Schuette, et al. "S-layer homology (SLH) domain proteins Csac_0678 and Csac_2722 implicated in plant polysaccharide deconstruction by the extremely thermophilic bacterium Caldicellulosiruptor saccharolyticus." Applied and Environmental Microbiology 78(3):768-777, 2012.
DOI: 10.1128/AEM.07031-11
View PDF
11/18/2011 Yin, Y., Huang, J., Gu, X., Bar-Peled, M., Xu, Y. (2011) "Evolution of Plant Nucleotide-Sugar Interconversion Enzymes." PLOS ONE, 6(11), 2011
DOI: 10.1371/journal.pone.0027995
View PDF
11/01/2011 Alahuhta, M., Chandrayan, P., Kataeva, I., Adams, M. W. W., Himmel, M. E. and Lunin, V. V. , “A 1.5 Å resolution X-ray structure of the catalytic module of Caldicellulosiruptor bescii family 3 pectate lyase.” Acta Crystallographica Section F, 67(12), 1498-1500, 2011.
DOI: 10.1107/S1744309111038449
View PDF
10/11/2011 Lochner, A., Giannone, R.J., Keller, M., Antranikian, G., Graham, D.E., Hettich, R.L., Label-free Quantitative Proteomics for the Extremely Thermophilic Bacterium Caldicellulosiruptor obsidiansis Reveal Distinct Abundance Patterns upon Growth on Cellobiose, Crystalline Cellulose, and Switchgrass, Journal of Proteome Research, 10(12):5302-5314, 2011.
DOI: 10.1021/pr200536j
View PDF
10/01/2011 Wang, Z.W., Lee, S.H., Elkins, J.G., Morrell-Falvey, J.L., Spatial and temporal dynamics of cellulose degradation and biofilm formation by Caldicellulosiruptor obsidiansis and Clostridium thermocellum, AMB Express, 1(30), 2011.
DOI: 10.1186/2191-0855-1-30
View PDF
10/01/2011 Ellis, L.D., Holwerda, E.K., Hogsett, D., Rogers, S., Shao, X., Tschaplinski, T., Thorne, P., Lynd, L.R., Closing the Carbon Balance for Fermentation by Clostridium thermocellum (ATCC 27405), Bioresource Technology, 103(1):293-299, 2011
DOI: 10.1016/j.biortech.2011.09.128
View PDF
09/30/2011 Argyrosa, D.A., Tripathia, S.A., Barretta, T.F., Rogers, S.R., Feinberg, L.F., Olson, D.G., Fodena, J.M., Miller, B.B., Lynd, L.R., Hogsett, D.A., Caiazza, N.C., "High Ethanol Titers from Cellulose using Metabolically Engineered Thermophilic, Anaerobic Microbes", Applied Environmental Microbiology, 77:8288-8294, 2011.
DOI: 10.1128/AEM.00646-11
View PDF
09/06/2011 DeMartini, J.D., Pattathil, S., Uvci, U., Szekalski, K., Mazumder, K., Hahn, M.G., Wyman, C.E., Application of monoclonal antibodies to investigate plant cell wall deconstruction for biofuels production, Energy and Environmental Science, 4(10):4332-4339, 2011.
DOI: 10.1039/C1EE02112E
View PDF
08/30/2011 Wang, Q.Q., He, Z., Zhu, Z., Zhang, Y-H.P., Ni, Y., Luo, X.L., Zhu, J.Y., Evaluations of Cellulose Accessibilities of Lignocelluloses by Solute Exclusion and Protein Adsorption Techniques, Biotechnology and Bioengineering, 109(2):381-389, 2012
DOI: 10.1002/bit.23330
View PDF
08/27/2011 Shao, X., Raman, B., Zhu, M., Mielenz, J.R., Brown, S.D., Guss, A.M., Lynd, L.R., Mutant selection and phenotypic and genetic characterization of ethanol-tolerant strains of Clostridium thermocellum, Applied Microbiology and Biotechnology, 92(3):641-652, 2011
DOI: 10.1007/s00253-011-3492-z
View PDF
08/25/2011 Samuel, R., Foston, M., Jiang, N., Allison, L., Ragauskas, A.J., Structural Changes in Switchgrass Lignin and Hemicelluloses during Pretreatments by NMR Analysis Polymer Degradation and Stability, Polymer Degradation and Stability, 96(11):2002-2009, 2011.
DOI: 10.1016/j.polymdegradstab.2011.08.015
View PDF
08/16/2011 Brown, S.D., Shao, X., Guss, A.M., Bhandiwad, A., Karpinets, T.V., Parks, J.M., Smolin, N., Yang, S., Land, M.L., Klingemen, D.M., Rodriguez Jr., M., Raman, B., Zhu, M., Mielenz, J.R., Smith, J.C., Tschaplinski, T.J., Engle, N.L., Giannone, R.J., Hettich, R.L., Keller, M., Lynd, L.R., Mutant alcohol dehydrogenase leads to improved ethanol tolerance in Clostridium thermocellum, PNAS, 108(33):13752-13757, 2011.
DOI: 10.1073/pnas.1102444108
View PDF
08/05/2011 Xu, Q., Y. Luo, et al. (2011). 3.03 - Multifunctional Enzyme Systems for Plant Cell Wall Degradation. Comprehensive Biotechnology (Second Edition). M.-Y. Editor-in-Chief: Murray. Burlington, Academic Press: 15-25.
DOI: 10.1016/B978-0-08-088504-9.00167-7
08/04/2011 Li, L.L., Taghavi, S., McCorkle, S.M., Zhang, Y.B., Blewitt, M.G., Bruneck, R., Adney, W.S., Himmel, M.E., Brumm, P., Drinkwater, C., Mead, D.A., Tringe, S.G., van der Lelie, D., Bioprospecting metagenomics of decaying wood: mining for new glycoside hydrolases, Biotechnology for Biofuels, 4(23), 2011.
DOI: 10.1186/1754-6834-4-23
View PDF
08/01/2011 Dagel, D.J., Liu, Y.S., Zong, L., Luo, Y., Zeng, Y., Himmel, M., Ding, S.Y., Smith, S., DOPI and PALM Imaging of Single Carbohydrate Binding Modules Bound to Cellulose Nanocrystals, SPIE 7905:79050P, 2011.
DOI: 10.1117/12.875285
View PDF
08/01/2011 Zhang, Y.H.P., What is vital (and not vital) to advance economically-competitive biofuels production, Process Biochemistry, 46(11):2091-2110, 2011.
DOI: 10.1016/j.procbio.2011.08.005
View PDF
07/25/2011 Xu, B., Escamilla-Trevino, L.L., Sathitsuksanoh, N., Shen, Z., Shen, H., Zhang, Y.H.P, Dixon, R.A., Zhao, B., Silencing of 4-coumarate:coenzyme A ligase in switchgrass leads to reduced lignin content and improved fermentable sugar yields for biofuel production, New Phytologist, 192(3):611-625, 2011.
DOI: 10.1111/j.1469-8137.2011.03830.x
View PDF
07/22/2011 Farkas, J., Chung D., DeBarry, M., Adams, Michael W.W., Westpheling, J., Defining Components of the Chromosomal Origin of Replication of the Hyperthermophilic Archaeon, Pyrococcus furiosus, needed for construction of a stable replicating shuttle vector, Applied Environmental Microbiology, 77(18):6343-6349, 2011.
DOI: 10.1128/AEM.05057-11
View PDF
07/16/2011 Liao, H.H., Myung, Suwan, Zhang, Y-HP., One-step purification and immobilization of thermophilic polyphosphate glucokinase from Thermobifida fusca YX: glucose-6-phosphate generation without ATP, Applied Microbiology and Biotechnology, 93(3):1109-1117, 2012.
DOI: 10.1007/s00253-011-3458-1
View PDF
07/15/2011 Kostylev, M., Wilson, D.B., Determination of the catalytic base in family 48 glycosyl hydrolases, Applied Environmental Microbiology, 77(17):6274-6276, 2011.
DOI: 10.1128/AEM.05532-11
View PDF
07/14/2011 Brown, S.D., Begemann, M.B., Mormile, M.R., Wall, J.D., Han, C.S., Goodwin, L.A., Pitluck, S., Land, M.L., Hauser, L.J., Elias, D.A., Complete Genome Sequence of the Haloalkaliphilic, Hydrogen Producing Halanaerobium hydrogenoformans, Journal of Bacteriology, 193(4), 2011.
DOI: 10.1128/JB.05209-11
View PDF
07/11/2011 Zhang, Y.H.P., Hydrogen Production from Carbohydrates: a mini-review, Sustainable Production of Fuels, Chemicals, and Fibers from Forest Biomass, ACS Symposium Series, V(1067):203-216.
ISBN13: 9780841226432eISBN: 9780841226449
View PDF
07/04/2011 Zhang, Y.H. Percival, Myung, Suwan, You, Chun, Zhu, Zhiguang, Rollin, J.A., Toward low-cost biomanufacturing through invitro synthetic biology: bottom-up design, Journal of Materials Chemistry, 21(47):18877-18886, 2011.
DOI: 10.1039/c1jm12078f
View PDF
07/01/2011 Zhang, Y.H. Percival, Simpler Is Better: High-Yield and Potential Low-Cost Biofuels Production through Cell-Free Synthetic Pathway Biotransformation (SyPaB), ACS Catalysis, 1:998-1009, 2011.
DOI: 10.1021/cs200218f
View PDF
07/01/2011 Liao, H.H., Zhang, X.Z., Rollin, J.A., Zhang, Y-H.P, A minimal set of bacterial cellulases for consilodated bioprocessing of lignocelluloses, Biotechnology Journals, 6(11):1409-1418, 2011.
DOI: 10.1002/biot.201100157
View PDF
07/01/2011 Huang, W.D., Zhang, Y-H.P., Energy Efficiency Analysis: Biomass-to-Wheel Efficiency Related with Biofuels Production, Fuel Distribution, and Powertrain Systems. PLOS ONE 6(7), 2011.
DOI: 10.1371/journal.pone.0022113
View PDF
06/14/2011 Raman, B., McKeown, Catherine K., Rodriguez Jr, M., Brown, Steven D., Mielenz, Jonathan R., Transcriptomic analysis of Clostridium thermocellum ATCC 27405 cellulose fermentation, BMC Microbiology, 11:134, 2011.
DOI: 10.1186/1471-2180-11-134
View PDF
06/07/2011 Zhang, Y.-H.P. "Substrate channeling and enzyme complexes for biotechnological applications." Biotechnology Advances 29:715-725, 2011
DOI: 10.1016/j.biotechadv.2011.05.020
06/01/2011 Bomble, Y.J., Beckham, G.T., Matthews, J.F., Nimlos, M.R., Himmel, M.E., Crowley, M.F., Modeling the Self-assembly of the Celluosome Enzyme Complex, The Journal of Biological Chemistry, 286(7):5614-5623, 2011.
DOI: 10.1074/jbc.M110.186031
View PDF
06/01/2011 Shao, X., Jin, M., Guseva, A., Liu, C., Balan, V., Hogsett, D., Dale, B.E., Lynd, L, Conversion for Avicel and AFEX pretreated corn stover by Clostridium thermocellum and simultaneous saccharification and fermentation: Insights into microbial conversion of pretreated cellulosic biomass, Bioresource Technology, 102(17): 8040-8045, 2011.
DOI: 10.1016/j.biortech.2011.05.021
View PDF
05/22/2011 Chung, D.H., Huddleston, J.R., Farkas, J., Westpheling, J., "Identification and characterization of CbeI, a novel thermostable restriction enzyme from Caldicellulosiruptor bescii DSM 6725 and a member of a new subfamily of HaeIII-like enzymes," Journal of Industrial Microbiology and Biotechnology, 38(11):1867-1877, 2011.
DOI: 10.1007/s10295-011-0976-x
View PDF
05/03/2011 Zhang, Xiao-Zhou, Sathitsuksanoh, Noppadon, Zhu, Zhiguang, Zhang, Y.H. Percival, One-step production of lactate from cellulose as the sole carbon source without any other organic nutrient by recombinant cellulolytic Bacillus subtilis, Metabolic Engineering, 13(4):364-372, 2011.
DOI: 10.1016/j.ymben.2011.04.003
View PDF
05/03/2011 Ye, X., Zhu, Z., Zhang, C., Zhang, Y.H.P., Fusion of a family 9 cellulose-binding module improves catalytic potential of Clostridium thermocellum cellodextrin phosphorylase on insoluble cellulose, Applied Microbiology and Biotechnology, 92(3): 551-560, 2011
DOI: 10.1007/s00253-011-3346-8
View PDF
05/01/2011 Sukharnikov, Leonid O., Cantwell, Brian J., Podar, Mircea, Zhulin, Igor B., Cellulases: ambiguous nonhomologous enzymes in a genomic perspective, Trends in Biotechnology, 29(10):473-479, 2011.
DOI: 10.1016/j.tibtech.2011.04.008
View PDF
05/01/2011 Wilson, David B., Microbial diversity of cellulose hydrolysis, Current Opinion in Microbiology, 14(3): 259-263, 2011.
DOI: 10.1016/j.mib.2011.04.004
View PDF
04/22/2011 Zhu, Zhiguang, Wang, Yiran, Minteer Shelley D., Zhang, Y.H. Percival, Maltodextrin-Powered Enzymatic Fuel Cell though a Non-Natural Enzymatic Pathway, Journal of Power Sources, 196(18):7505-7509, 2011.
DOI: 10.1016/j.jpowsour.2011.04.038
View PDF
04/15/2011 Lochner, Adriane, Giannone, Richard J., Rodriquez Jr., Miguel, Shah, Manesh, B., Mielenz, Jonathan R., Keller, Martin, Antranikian, Garabed, Graham, David E., Hettich, Roberts L., 2011, Label-free quantitative proteomics distinguish the secreted cellulolytic systems of Caldicellulosiruptor bescii and Caldicellulosiruptor obsidiansis, Applied Environmental Microbiology, 77(12):4042-4054, 2011.
DOI: 10.1128/AEM.02811-10
View PDF
04/01/2011 Higashide, Wendy, Li, Yongchao, Yang, Yunfeng, Liao, James C., Metabolic engineering of Clostridium cellulolyticum for isobutanol production from cellulose, Applied Environmental Microbiology, 77(8):2727-2733, 2011.
DOI: 10.1128/AEM.02454-10
View PDF
04/01/2011 Petridis, L. and Xu, J. and Crowley, M. F. and Smith, J. C. and Cheng, X. Atomistic Simulation of Lignocellulosic Biomass and Associated Cellulosomal Protein Complexes. In book "ACS Symposium Series - Computational Modeling in Lignocellulosic Biofuel Production", (editors: Mark R. Nimlos and Michael F. Crowley), publisher ACS, 3:55-73, 2010.
DOI: 10.1021/bk-2010-1052.ch003
View PDF
03/21/2011 Myung, Suwan, Zhang, Xiao-Zhou, Zhang, Y.H. Percival, Ultra-stable phosphoglucose isomerase through immobilization of cellulose-binding module-tagged thermophilic enzyme on low-cost high-capacity cellulosic adsorbent, Biotechnology Progress, 27(4):969-975, 2011.
DOI: 10.1002/btpr.606
View PDF
03/11/2011 VanFossen, Amy L., Ozdemir, Inci, Zelin, Samantha L., Kelly, Robert M., Glycoside Hydrolase Inventory Drives Plant Polysaccharide Deconstruction by the Extremely Thermophilic Bacterium Caldicellulosiruptor saccharolyticus, Biotechnology and Bioengineering, 108(7):1559-1569, 2011.
DOI: 10.1002/bit.23093
View PDF
03/02/2011 Yang, Xiaohan, Tschaplinski, Timothy J., Hurst, Gregory B., Jawdy, Sara, Abraham, Paul E., Lankford, Patricia K., Adams, Rachel M., Shah, Manesh B., Hettich, Robert L., Lindquist, Erika, Kalluri, Udaya C., Gunter, Lee E., Pennacchio, Christa, Tuskan, Gerald A., Discovery and annotation of small proteins using genomics, proteomics, and computational approaches, Genome Research, 21(4):634-641, 2011.
DOI: 10.1101/gr.109280.110
View PDF
03/01/2011 Fu, Chunxiang, Mielenz, Jonathan R., Xiao, Xirong, Ge, Yaxin, Hamilton, Choo Y., Rodriguez, Jr., Miguel, Chen, Fang, Foston, Marcus, Ragauskas, Arthur, Bouton, Joseph, Dixon, Richard A., Wang, Zeng-Yu, Genetic manipulation of lignin reduces recalcitrance and improves ethanol production from switchgrass, PNAS, 108(9):3803-3808, 2011.
DOI: 10.1073/pnas.1100310108
View PDF
03/01/2011 Wang, Yiran, Huang, Weidong, Sathitsuksanoh, Noppadon, Zhu, Zhiguang, Zhang, Y.H. Percival, Biohydrogenation from Biomass mediated by in vitro synthetic enzymatic pathways, Chemistry and Biology, 18(3):372-380, 2011.
DOI: 10.1016/j.chembiol.2010.12.019
View PDF
02/11/2011 Sizova, M. V., Izquierdo, J. A., Panikow, N. S., Lynd, L. R., Cellulose- and Xylan-Degrading Thermophilic Anaerobic Bacteria from Biocompost , Applied and Environmental Microbiology, 77(7):2282-2291, 2011.
DOI: 10.1128/AEM.01219-10
View PDF
02/04/2011 Chundawat, Shishir P.S., Beckham, Gregg T., Himmel, Michael E., Dale, Bruce E., Deconstruction of Lignocellulosic Biomass to Fuels and Chemicals, The Annual Review of Chemical and Biomolecular Engineering, 2:121-145, 2011.
DOI: 10.1146/annurev-chembioeng-061010-114205
View PDF
02/02/2011 Selig, Michael J., Tucker, Melvin P., Law, Cody, Doeppke, Crissa, Himmel, Michael E., Decker, Stephen R., High throughput determination of glucan and xylan fractions in lignocelluloses, Biotechnology Letters, 33(5):961-975, 2011.
DOI: 10.1007/s10529-011-0526-7
View PDF
02/01/2011 Liu, Yu-San, Baker, John O., Zeng, Yining, Himmel, Michael E., Haas, Thomas, Ding, Shi-You, Cellobiohydrolase Hydrolyzes Crystalline Cellulose on Hydrophobic Faces, Journal of Biological Chemistry, 286(13):11195-11201, 2011.
DOI: 10.1074/jbc.M110.216556
View PDF
01/31/2011 Zhang, Y-H Percival, Mielenz, Jonathan R., Renewable Hydrogen Carrier -- Carbohydrate: Constructing the Carbon-Neutral Carbohydrate Economy, energies, 4(2):254-275, 2011.
DOI: 10.3390/en4020254
View PDF
01/20/2011 Dam, Phuongan, Kataeva, Irina, Yang, Sung-Jae, Zhou, Fengfeng, Yin, Chou, Wenchi, Poole II, Farris L., Westpheling, Janet , Hettich, Robert, Giannone, Richard Giannone, Lewis, Derrick L., Kelly, Robert, Gilbert, Harry J., Henrissat, Bernard, Xu, Ying, Adams, Michael W. W, "Insights into plant biomass conversion from the genome of the anaerobic thermophilic bacterium Caldicellulosiruptor bescii DSM 6725," Nucleic Acids Research, 39(8):3240-3254, 2011.
DOI: 10.1093/nar/gkq1281
View PDF
01/04/2011 Zhang, Xiao-Zhou, Zhang, Y.H. Percival, Simple, fast and high-efficiency transformation system for directed evolution of cellulase in Bacillus subtilis, Microbial Biotechnology, 4(1):98-105, 2011.
DOI: 10.1111/j.1751-7915.2010.00230.x
View PDF
01/01/2011 Alahuhta, M., Luo, Y., Ding, S-Y, Himmel, M.E., Lunin, V.V., Structure of CBM4 from Clostridium thermocellum cellulase K, Acta Crystallographica, 67:527-530, 2011.
ISSN 1744-3091
View PDF
01/01/2011 Chen, F., Tholl, D., Bohlmann, J., Pichersky, E., The family of terpene synthases in plants: a mid-size family of genes for specialized metabolism that is highly diversified throughout the kingdom, The Plant Journal, 66:212-229, 2011.
DOI: 10.1111/j.1365-313X.2011.04520.x
View PDF
01/01/2011 Blumer-Schuette, S.E., Ozdemir, I., Mistry, D., Lucas, S., Lapidus, A., Cheng, J.F., Goodwin, L.A., Pitluck, S., Land, M.L., Hauser, L.J., Woyke, T., Mikhailova, N., Pati, A., Kyrpides, D., Ivanova, N., Detter, J.C., Walston-Davenport, K., Han, S., Adams, M.W.W., Kelly, R.M., Complete Genome Sequences for the Anaerobic, Extremely Thermophilic Plant Biomass-Degrading Bacteria Caldicellulosiruptor hydrothermalis, Caldicellulosiruptor kristjanssonii, Caldicellulosiruptor kronotskyensis, Caldicellulosiruptor owensensis, and Caldicellulosiruptor lactoaceticus, Journal of Bacteriology, 193(6):1483-1484, 2011.
DOI: 10.1128/JB.01515-10
View PDF
12/29/2010 Podkaminer, Kara K., Hogsett, David A., Shao, Xiongjun, Lynd, Lee R., Enzyme inactivation by ethanol and development of a kinetic model for thermophilic simultaneous saccharification and fermentation at 50°C with Thermoanaerobacterium saccharolyticum ALK2, Biofuels and Environmental Biotechnology, 108(6), 2011.
DOI: 10.1002/bit.23050
View PDF
12/21/2010 Atsumi, S., Wu, T. Y., Machado, I. M. P., Huang, W. C., Chen, P. Y., Pellegrini, M., Liao, J. C., "Evolution, genomic analysis, and reconstruction of isobutanol tolerance in Escherichia coli", Molecular Systems, 6(449), 2010.
DOI: 10.1038/msb.2010.98
View PDF
12/04/2010 Dagel, D. J., Liu, Y. S., Zhong, L. L., Luo, Y. H., Himmel, M. E., Xu, Q., Zeng, Y. N., Ding, S. Y., Smith, S., "In Situ Imaging of Single Carbohydrate-Binding Modules on Cellulose Microfibrils," Journal of Physical Chemistry B, 115(4):635-641, 2011.
DOI: 10.1021/jp109798p
View PDF
12/01/2010 Beckham, Gregg T., Bomble, Yannick J., Bayer, Edward A., Himmel, Michael E., "Applications of computational science for understanding enzymatic deconstruction of cellulose", Current Opinion in Biotechnology, 22(2):231-238, 2011.
DOI: 10.1016/j.copbio.2010.11.005
View PDF
12/01/2010 Huang, W. D., Zhang, Y. H. P., Analysis of biofuels production from sugar based on three criteria: Thermodynamics, bioenergetics, and product separation, Energy and Environmental Science, 4(3):784-792, 2011.
DOI: 10.1039/C0EE00069H
View PDF
11/12/2010 Sathitsuksanoh, Noppadon, Zhu, Zhiguang, Wi, Sungsool, Zhang, Y.H-P, Cellulose Solvent-Based Biomass Pretreatment Breaks Highly Ordered Hydrogen Bonds in Cellulose Fibers of Switchgrass, Biotechnology and Bioengineering, 108:521-529, 2010.
DOI: 10.1002/bit.22964
View PDF
10/22/2010 Blumer-Schuette, S.E., Lewis, D.L., Kelly, R.M., Phylogenetic, microbiological and glycoside hydrolase diversity within the extremely thermophilic, plant biomass-degrading genus Caldicellulosiruptor, Applied Environmental Microbiology, 76(24):8084-8092, 2010.
DOI: 10.1128/AEM.01400-10
View PDF
10/10/2010 Zhang, Jiayi, Lynd, L. R., Ethanol Production from Paper Sludge by Simultaneous Saccharification and Co-Fermentation Using Recombinant Xylose-Fermenting Microorganisms, Biotechnology and Bioengineering, 107(2):235-244, 2010.
DOI: 10.1002/bit.22811
View PDF
10/01/2010 Elkins, J.G., Lochner, A., Hamilton-Brehm, S.D., Davenport, K.W., Podar, M., Brown, S.D., Land, M.L., Hauser, L.J., Klingeman, D.M., Raman, B., Goodwin, L.A., Tapia, R., Meincke, L.J., Detter, J.C., Bruce, D.C., Han, C.S., Palumbo, A.V., Cottingham, R.W., Keller, M., Graham, D.E., Complete Genome Sequence of the Cellulolytic Thermophile Caldicellulosiruptor obsidiansis OB47, Journal of Bacteriology, 192(22):6099-6100, 2010.
DOI: 10.1128/JB.00950-10
View PDF
10/01/2010 Bergenstrahle, M.,Wohlert, J., Himmel, M. E., Brady, J. W., "Simulation studies of the insolubility of cellulose", Carbohydrate Research, 345(14):2060-2066, 2010.
DOI: 10.1016/j.carres.2010.06.017
View PDF
10/01/2010 Wang, Z.W., Hamilton-Brehm, S.D., Lochner, A., Elkins, J.G., Morrell-Falvey, J.L., Mathematical modeling of hydrolysate diffusion and utilization in cellulolytic biofilms of the extreme thermophile Caldicellulosiruptor obsidiansis, Bioresource Technology, 102(3):3155-3162, 2010.
DOI: 10.1016/j.biortech.2010.10.104
View PDF
08/30/2010 Rollin, J. A., Zhu, Z. G., Sathitsuksanoh, N., Zhang, Y. H. P., Increasing Cellulose Accessibility Is More Important Than Removing Lignin: A Comparison of Cellulose Solvent-Based Lignocellulose Fractionation and Soaking in Aqueous Ammonia, Biotechnology and Bioengineering, 108(1):22-30, 2011.
DOI: 10.1002/bit.22919
View PDF
08/16/2010 Olson, Daniel G., Tripathi, Shital A., Giannone, Richard J., Lo, Jonathan, Caiazza, Nicky C., Hogsett, David A.,Hettich, Robert, Guss, Adam M., Dubrovsky, Genia, Lynd, Lee R., Deletion of Cel48S from Clostridium thermocellum, PNAS, 107(41):17727-17732, 2010.
DOI: 10.1073/pnas.1003584107
View PDF
08/02/2010 Zhang, X. Z., Zhang, Y. H. P., One-step production of biocommodities from lignocellulosic biomass by recombinant cellulolytic Bacillus subtilis: Opportunities and challenges, Engineering in Life Science, 10(5):398-406, 2010.
DOI: 10.1002/elsc.201000011
View PDF
08/01/2010 Tripathi, S.A., Olson, D.G., Argyros, D.A., Miller, B.B., Barrett, T.F., Murphy, D.M., McCool, JD., Warner, A.K., Rajgarhia, V.B., Lynd, L.R., Hogsett, D.A., Caiazza, N.C., Development of pyrF-based genetic system for targeted gene deletion in Clostridium thermocellum and creation of a pta mutant, Applied and Environmental Microbiology, Volume 76(19):6591-6599, 2010.
DOI: 10.1128/AEM.01484-10
View PDF
08/01/2010 Wang, L.Q., Wang, Y.Q., Ragauskas, A.J., A novel FRET approach for in situ investigation of cellulase–cellulose interaction, Analytical and Bioanalytical Chemistry, 398(3):1257-1262, 2010.
DOI: 10.1007/s00216-010-4057-1
View PDF
07/22/2010 Moinuddin, Syed G.A., Jourdes, M., Laskas, D.D., Ki, C., Cardenas, C.L., Kim, K.W., Zhang, D., Davin, L. B., Lewis, N.G., Insights into lignin primary structure and deconstruction from Arabidopsis thaliana COMT (caffeic acid O-methyl transferase) mutant Atomt1 , Organic and Biomolecular Chemistry, 8(17):3928-3946, 2010.
DOI: 10.1039/c004817h
View PDF
07/19/2010 Bomble, Yannick J., Crowley, Michael F., Xu, Q.I., Himmel, Michael E., Computational Modeling in Lignocellulosic Biofuel Production, Modeling the Cellulosome Using Multiscale Models, 4:75-98, 2010.
DOI: 10.1021/bk-2010-1052.ch004
View PDF
07/02/2010 Vuong, T.V., Wilson, D.B., Glycoside Hydrolases: Catalytic Base/Nucleophile Diversity , Biotechnology and Bioengineering, 107(2):195-205, 2010.
DOI: 10.1002/bit.22838
View PDF
07/01/2010 Voelker, SL; Lachenbruch, B; Meinzer, FC; Jourdes, M; Ki, CY; Patten, AM; Davin, LB; Lewis, NG; Tuskan, GA; Gunter, L; Decker, SR; Selig, MJ; Sykes, R; Himmel, ME; Kitin, P; Shevchenko, O; Strauss, S.H., Antisense Down‐Regulation of 4CL Expression Alters Lignification, Tree Growth, and Saccharification Potential of Field‐Grown Populas, Plant Physiology, 154(2):874‐ 886, 2010.
DOI: 10.1104/pp.110.159269
View PDF
07/01/2010 Muddiman, David, Andrews, Genna, Lewis, Derrick, Notey, Jaspreet, Kelly, Robert, "Part I: characterization of the extracellular proteome of the extreme thermophile Caldicellulosiruptor scccharolyticus by GeLC-MS2," Annuals of Bioanalytical Chemistry, 398:377–389, 2010.
DOI: 10.1007/s00216-010-3955-6
View PDF
07/01/2010 Muddiman, David, Andrews, Genna, Lewis, Derrick, Notey, Jaspreet, Kelly, Robert, "Part II: defining and quantifying individual and co-cultured intracellular proteomes of two thermophilic microorganisms by GeLC-MS2 and spectral counting", Annuals of Bioanalytical Chemistry, 398(1):391-404, 2010.
DOI: 10.1007/s00216-010-3929-8
View PDF
07/01/2010 Zhang, Y.H.P., Renewable carbohydrates are a potential high-density hydrogen carrier, International Journal of Hydrogen Energy, 35(19):10334-10342, 2010.
DOI: 10.1016/j.ijhydene.2010.07.132
View PDF
07/01/2010 Alahuhta, M., Xu, Q., Bomble, Y.J., Brunecky, R., Adney, W.S., Ding, S-Y., Himmel, M.E, Lunin, V.V., "The Unique Binding Mode of Cellulosomal CBM4 from Clostridium thermocellum Cellobiohydrolase A", Journal of Microbiology, 402(2):374-87, 2010.
DOI: 10.1016/j.jmb.2010.07.028
View PDF
07/01/2010 Alahuhta, Markus, Xu Qi, Brunecky, Roman, Adney, William S., Ding, Shi You, Himmel Michael E, Lunin, Vladimir V., "Structure of a fibronectin type III-like module from Clostridium thermocellum", Structural Biology and Crystallization Communications, 66(8):878-880, 2010.
DOI: 10.1107/S1744309110022529
View PDF
06/11/2010 Kalluri U.C and Keller M, “Bioenergy Research: A new paradigm in multidisciplinary research”, Journal of the Royal Society Interface. 7(5):1391‐1401, 2010.
DOI: 10.1098/rsif.2009.0564
View PDF
06/01/2010 Zhang, Y. H. P., Sun, J. B., Zhong, J. J., Biofuel production by in vitro synthetic enzymatic pathway biotransformation, Current Opinion in Biotechnology, 21(5):663-669, 2010.
DOI: 10.1016/j.copbio.2010.05.005
View PDF
06/01/2010 Izquierdo, J. A., Sizova, M. V., Lynd, L. R., Diversity of Bacteria and Glycosyl Hydrolase Family 48 Genes in Cellulolytic Consortia Enriched from Thermophilic Biocompost, Applied and Environmental Microbiology, 76(11):3545-3553, 2010.
DOI: 10.1128/AEM.02689-09
View PDF
06/01/2010 Elkins, J. G., Raman, B., Keller, M., Engineered microbial systems for enhanced conversion of lignocellulosic biomass, Current Opinion in Biotechnology, 21(5):657-662, 2010.
DOI: 10.1016/j.copbio.2010.05.008
View PDF
06/01/2010 Liu, W.J., Zhang, X.A., Zhang, Z.M., Zhang, Y.H.P., Engineering of Clostridium phytofermentans Endoglucanase Cel5A for Improved Thermostability, Applied and Environmental Microbiology, 76(14):4914-4917, 2010.
DOI: 10.1128/AEM.00958-10
View PDF
06/01/2010 Zhang, X.Z., Sathisuksanoh, N., Zhang, Y.H.P., Glycoside hydrolase family 9 processive endoglucanase from Clostridium phytofermentans: heterologous expression, purfication, and synergy with family 48 cellobiohydrolase, Bioresource Technology, 101(14):5534-5538, 2010
DOI: 10.1016/j.biortech.2010.01.152
View PDF
05/01/2010 Shaw, A., Joe, Hogsett, David A., Lynd, Lee R., Natural Competence in Thermoanaerobacter and Thermoanaerobacterium Species, Applied and Environmental Microbiology, 76(14):4713-4719, July 2010.
DOI: 10.1128/AEM.00402-10
View PDF
04/07/2010 Yang, S.H., Pelletier, D.A., Lu, T.Y.S, Brown, S.D., The Zymomonas mobilis regulator Hfq and related Saccharomyces cerevisiae proteins contribute to tolerance against multiple lignocellulosic pretreatment inhibitors, BMC Microbiology, 10(135), 2010.
DOI: 10.1186/1471-2180-10-135
View PDF
04/01/2010 Yang, S.H., Land, M.L., Klingeman, D.M., Pelletier, D.A., Lu, T.Y.S., Martin, S.L., Guo, H.B., Smith, J.C., Brown, S.D., Paradigm for industrial strain improvement identifies sodium acetate tolerance loci in Zymomonas mobilis and Saccharomyces cerevisiae, PNAS, 107(23):10398-10400, 2012.
DOI: 10.1073/pnas.0914506107
View PDF
04/01/2010 Li, Y., Irvin, D.C., Wilson, D.B., Increased Crystalline Cellulose Activity via Combinations of Amino Acid Changes in the Family 9 Catalytic Domain and Family 3c Cellulose Binding Module of Thermobifida fusca Cel9A, Applied and Environmental Microbiology, 76(8):2582-2588, 2010.
DOI: 10.1128/AEM.02735-09
View PDF
04/01/2010 Selig, Michael J., Tucker, Melvin P., Sykes, R., Reichel, D., Brunecky, R., Himmel, M.E., Davis, M.F., Decker, S.R., Lignocellulose recalcitrance screening by integrated high- throughput hydrothermal pretreatment and enzymatic, Industrial Biotechnology, 6(2), 2010.
DOI: 10.1089/ind.2010.0009
View PDF
04/01/2010 Myung, S., Wang, Y. R., Zhang, Y. H. P., Fructose-1,6-bisphosphatase from a hyper-thermophilic bacterium Thermotoga maritima: Characterization, metabolite stability, and its implications, Process Biochemistry, 45(12):1882-1887, 2010.
DOI: 10.1016/j.procbio.2010.03.017
View PDF
03/01/2010 Abulencia, C. B., Wells, S. M., Gray, K. A., Keller, M., Kreps, J.A., Accessing microbial communities relevant to biofuels production. in: R. H.Baltz, J. E.Davies, A. L.Demain (Eds.), Industrial Microbiology and Biotechnology, 3rd Edn, ASM press, Washington DC 2010, pp. 565–576.
ISBN 155581512X
03/01/2010 Chen, Y., Sarkanen, S., "Macromolecular replication during lignin biosynthesis," Phytochemistry, 71(4):453-462, 2010.
DOI: 10.1016/j.phytochem.2009.11.012
View PDF
03/01/2010 Mielenz, J.R., Hogsett, D.A., Improving microbial robutsness using systems biology, Manual of Industrial Microbiology and Biotechnology, 3rd Edition, p. 605-620, 2010.
ISBN 978-1-55581-512-7
View PDF
03/01/2010 Himmel, Michael E., Xu, Qi, Luo, Yonghua, Ding, Shi-You, Lamed, Raphael, Bayer, Edward A., Microbial enzyme systems for biomass conversion: emerging paradigms, Biofuels, 1(2):323-341, 2010.
View PDF
03/01/2010 Ye, X., Rollin, J., Zhang, Y.H.P., Thermophilic α-glucan phosphorylase from Clostridium thermocellum: Cloning, characterization and enhanced thermostability, Journal of Molecular Catalysis B: Enzymatic, 65(1-4):110-116, 2010.
View PDF
03/01/2010 Zhang, Z.Z., Zhang, Z., Zhu, Z., Sathitsuksanoh, N., Yang, Y., Zhang, Y.H.P., The noncellulosomal family 48 cellobiohydrolase from Clostridium phytofermentans ISDg: heterologous expression, characterization, and processivity, Applied Microbiology Biotechnology, 86(2):525-533, 2010.
DOI: 10.1007/s00253-009-2231-1
View PDF
02/25/2010 Zeng Y, Saar BG, Friedrich MG, Chen F, Liu Y, Dixon RA, Himmel ME, Xie XS and Ding S, Imaging Lignin‐Downregulated Alfalfa Using Coherent Anti‐Stokes Raman Scattering Microscopy, Bioenerg. Res. 3:272–277, 2010.
DOI: 10.1007/s12155-010-9079-1
View PDF
01/01/2010 Stewart, C. Neal, Jr., Shugart, Lee, Liu, Gong-She, Zhuang, Jie, Ma Yongqing, Tuskan, Gerald A., Meilan, Richard, Gentry, Randall W., Sayler, Gary S., China-U.S. Workshop on Biotechnology of bioenergy plants, Exotoxicology, 19(1):1-3, 2010.
DOI: 10.1007/s10646-009-0448-5
View PDF
12/18/2009 Hamilton-Brehm, S.D., Mosher, J.J., Vishnivetskaya, T., Podar, M., Carroll, S., Allman, S., Phelps, T.J., Keller, M., Elkins, J.G., Caldicellulosiruptor obsidiansis sp. nov., an anaerobic, extremely thermophilic, cellulolytic bacterium isolated from Obsidian Pool, Applied and Environmental Microbiology, 76:1014-1020, 2010.
DOI: 10.1128/AEM.01903-09
View PDF
12/15/2009 Vanfossen Amy L, Verhaart Marcel R A, Kengen Serve M W, Kelly Robert M., Carbohydrate utilization patterns for the extremely thermophilic bacterium Caldicellulosiruptor saccharolyticus reveal broad growth substrate preferences, Applied and Environmental Microbiology 75(24):7718-24, 2009.
DOI: 10.1128/AEM.01959-09
View PDF
12/11/2009 Bochner, Barry, Gomez, Vanessa, Ziman, Michael, Yang, Shihui, Brown, Steven D., Phenotype MicroArray Profiling of Zymomonas mobilis AM4, Applied Biochemistry and Biotechnology, 161(1-8):116-123, 2010.
DOI: 10.1007/s12010-009-8842-2
View PDF
12/01/2009 Jeremy C. Smith, Mark Nimlos, Mike Himmel, Mike Crowley, John Brady, Supercomputers Tackle BIOFUEL Production Problems, SciDAC, 2009.
View PDF
12/01/2009 Sung-Jae Yang, Irina Kataeva, Juergen Wiegel, Yanbin Yin, Phuongan Dam, Ying Xu, Janet Westpheling and Michael W. W. Adams, Classification of 'Anaerocellum thermophilum' strain DSM 6725 as Caldicellulosiruptor bescii sp. Nov., International Journal of Systematic and Evolutionary, Microbiology, 60(9):2011-2015, 2010.
DOI: 10.1099/ijs.0.017731-0
View PDF
12/01/2009 Liu, Y. S., Luo, Y. H., Baker, J. O., Zeng, Y. N., Himmel, M. E., Smith, S., Ding, S. Y., A single molecule study of cellulase hydrolysis of crystalline cellulose, Spie-Int Soc Optical Engineering, 7571(757103), 2010
DOI: 10.1117/12.840975
View PDF
12/01/2009 Mielenz, J.R., Bardsley, J.S., Wyman, C.E., Fermentation of soybean hulls to ethanol while preserving protein value, Bioresource Technology, 100(14):3532-9, 2009.
DOI: 10.1016/j.biortech.2009.02.044
View PDF
12/01/2009 Decker, Stephen R., Brunecky, Roman, Tucker, Melvin, P., Himmel, Michael E., Selig, Michael J., "High-throughput screening techniques for biomass conversion," Bioenergy Research, 2(4):179-192, 2009.
DOI: 10.1007/s12155-009-9051-0
View PDF
11/01/2009 Zhang YHP. Production of Biocommodities and Bioelectricity by Cell-Free Synthetic Enzymatic Pathway Biotransformations: Challenges and Opportunities. Biotechnology and Bioengineering 105(4):663-677, 2010.
DOI: 10.1002/bit.22630
View PDF
11/01/2009 Kalluri, U, Hurst G, Lankford P, Ranjan P and Pelletier D, Shotgun proteome profile of Populus developing xylem, Proteomics, 9(21):4871-4880, 2009.
DOI: 10.1002/pmic.200800854
View PDF
10/22/2009 Patten A.M., Jourdes, M., Cardenas, C.L., Laskas, D.D., Nakazawa, Y., Chung, B.Y., Franceschi, V.R., Davin, L.B., Lewis, N.G., Probing native lignin macromolecular configuration in Arabidopsis thaliana in specific cell wall types: Further insights into limited substrate degeneracy and assembly of the lignins of ref8, fah 1–2 and C4H::F5H lines, Molecular BioSystems, 6(3):425-604, 2010.
DOI: 10.1039/b819206e
View PDF
10/01/2009 Podar, Mircea, Keller, Martin, Hugenholtz, Philip, 2009, Single Cell Whole Genome Amplification of Uncultivated Organisms, Microbial Monogr, Series; 10, 2009.
DOI: 10.1007/7171_2008_10
View PDF
10/01/2009 Yang, S.H., Pappas, K.M., Hauser, L.J., Land, M.L., Chen, G.L., Hurst, G.B., Pan, C.L., Kouvelis, V.N., Typas, M.A., Pelletier, D.A., Klingeman, D.M., Chang, Y.J., Samatova, N.F., Brown, S.D., Improved genome annotation for Zymomonas mobilis, Nature Biotechnology, 27(10):893-894, 2009.
DOI: 10.1038/nbt1009-893
View PDF
09/25/2009 Sathitsuksanoh N, Zhu ZG, Ho T-J, Bai M-D, Zhang Y-HP,Bamboo saccharification through cellulose solvent-based biomass pretreatment followed by enzymatic hydrolysis at ultra-low cellulase loadings 101(13):4926-4929, 2009.
DOI: 10.1016/j.biortech.2009.09.081
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09/01/2009 Y.H. Percival Zhang, Jiong Hong, and Xinhao Ye, Cellulase Assays, Biofuels: Methods and Protocols, Methods in Molecular Biology, Jonathan R. Mielenz (ed.), 581(14) 2009
DOI: 10.1007/978-1-60761-214-8_14
View PDF
09/01/2009 Liu W, Bevan DR, Zhang Y-HP,The family 1 glycoside hydrolase from Clostridium cellulolyticum H10 is a cellodextrin glucohydrolase, Applied Biochemistry and Biotechnology, 161:1-8, 2009.
DOI: 10.1007/s12010-009-8782-x
View PDF
08/24/2009 Samuel,R., Pu, Y., Babu, R., Ragauskas, A.J.Structural Characterizations and comparison of switchgrass ball-milled lignin before and after dilute acid pretreatment A. Applied Biochemistry and Biotechnology, 162(1):62-74, 2010.
DOI: 10.1007/s12010-009-8749-y
View PDF
07/01/2009 Zhu, Z. G., Sathitsuksanoh, N., Vinzant, T., Schell, D. J., McMillan, J. D., Zhang, Y. H. P., Comparative Study of Corn Stover Pretreated by Dilute Acid and Cellulose Solvent-Based Lignocellulose Fractionation: Enzymatic Hydrolysis, Supramolecular Structure, and Substrate Accessibility, Biotechnology and Bioengineering, 103(4),715-724, 2009
DOI: 10.1039/b906065k
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06/28/2009 Wang, Y. R., Zhang, Y. H. P., Cell-free protein synthesis energized by slowly-metabolized maltodextrin, BMC Biotechnology, 9(58), 2009.
DOI: 10.1186/1472-6750-9-58
View PDF
06/19/2009 Liu, Yu-San, Yining Zeng, Yonghua Luo, Qi Xu, Michael E. Himmel, Steve J. Smith, and Shi-You Ding, "Does the Cellulose-Binding Module Move on the Cellulose Surface?", Cellulose, 16(4):587-597, 2009.
DOI: 10.1007/s10570-009-9306-0
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06/04/2009 Wang, Y., Zhang, Y.H.P., Overexpression and simple purification of the Thermotoga maritima 6-phosphogluconate dehydrogenase in Escherichia coli and its application for NADPH regeneration, Microbial Cell Factories, 8(30), 2009.
DOI: 10.1186/1475-2859-8-30
View PDF
06/01/2009 Kataeva IA, Yang SJ, Dam P, Poole FL, Yin Y, Zhou F, Chou WC, Xu Y, Goodwin L, Sims DR, Detter JC, Hauser LJ, Westpheling J, Adams WW, "Genome Sequence of the Anaerobic, Thermophilic, and Cellulolytic Bacterium "Anaerocellum thermophilum" DSM 6725", Journal of Bacteriology, 191(11):(3760-3761, 2009.
DOI: 10.1128/JB.00256-09
View PDF
05/28/2009 Sathitsuksanoh, N., Zhu, Z. G., Templeton, N., Rollin, J. A., Harvey, S. P., Zhang, Y. H. P., Saccharification of a Potential Bioenergy Crop, Phragmites australis (Common Reed), by Lignocellulose Fractionation Followed by Enzymatic Hydrolysis at Decreased Cellulase Loadings, Industrial and Engineering Chemistry Research, 48(13):6441-6447, 2009.
DOI: 10.1021/ie900291s
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05/01/2009 Yang, S.J., Kataeva, I., Hamilton-Brehm, S., Engle, N.D., Tschaplinski, T.J., Doeppke, Cr., Davis, M., Westpheling, J., Adams, M.W.W., Efficient degradation of lignocellulosic plant biomass without pretreatment by the thermophilic anaerobe, Anaerocellum thermophilium DSM 6725, Applied and Environmental Microbiology, 75(14):4762-4769, 2009
DOI: 10.1128/AEM.00236-09
View PDF
05/01/2009 Xu, J.C., Crowley, M.F., Smith, J.C., Building a Foundation for Structure-Based Cellulosome Design for Cellulosic Ethanol: Insight into Cohesin-Dockerin Complexation from Computer Simulation, Protein Science, 18(5):949-959, 2009
DOI: 10.1002/pro.105
View PDF
04/22/2009 Raman, B., Pan, C., Hurst, G. B., Rodriguez, M., McKeown, C. K., Lankford, Samatova, N. F., Mielenz, J. R., Impact of Pretreated Switchgrass and Biomass Carbohydrates on Clostridium thermocellum ATCC 27405 Cellulosome Composition: A Quantitative Proteomic Analysis, PLOS ONE, 4(4):e5271, 2009.
DOI: 10.1371/journal.pone.0005271
View PDF
04/01/2009 Liu, W.J., Hong, J., Bevan, D.R., Zhang, Y.H.P., Fast Identification of Thermostable Beta-Blucosidase Mutants on Cellobiose by a Novel Combinatorial Selection/Screening Approach, Biotechnology and Bioengineering, 103(6):1087-1094, 2009.
DOI: 10.1002/bit.22340
View PDF
03/09/2009 Keller, Martin, Hettich, Robert, "Environmental Proteomics: a Paradigm Shift in Characterizing Microbial Activities at the Molecular Level", Microbiology and Molecular Biology Reviews, 73(1):62-70, 2009.
DOI: 10.1128/MMBR.00028-08
View PDF
02/26/2009 Karpinets, T., Pelletier, D, Pan, C., Uberbacher, E.C., Melnichenko, G.V., Hettich, R.L., Samatove, N.F., Phenotype fingerprinting suggests the involvement of single-genotype consortia in degradation of aromatic compounds by Rhodopseudomonas palustris, PLOS ONE, 4(2):e4615, 2009.
DOI: 10.1371/journal.pone.0004615
View PDF
02/01/2009 Li, L. L., McCorkle, S. R., Monchy, S., Taghavi, S., van der Lelie, D., Bioprospecting metagenomes: glycosyl hydrolases for converting biomass, Biotechnology for Biofuels, 2(10), 2009.
DOI: 10.1186/1754-6834-2-10
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01/20/2009 Yang, S.H., Tschaplinski, T.J., Engle, N.L., Carroll, S.L., Martin, S.L., Davison, B.H., Palumbo, A.V., Rodriguez, M., Brown, S.D., Transcriptomic and metabolomic profiling of Zymomonas mobilis during aerobic and anaerobic fermentations, BMC Genomics, 10(34), 2009.
DOI: 10.1186/1471-2164-10-34
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01/01/2009 Keller, M., Schadt, C.W., Palumbo, A.V., Environment to Organisms and Genomes and Backed. Karsten Zengler, (2009), ASM Press.
01/01/2009 Ye, Xinhao, Yiran Wang, Robert C. Hopkins, Michael W. W. Adams, Barbara R. Evans, Jonathan R. Mielenz, Y.-H. Percival Zhang, Spontaneous high-yield production of hydrogen from cellulosic materials and water catalyzed by enzyme cocktails , ChemSusChem, 2(2):149-52, 2009
DOI: 10.1002/cssc.200900017
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01/01/2009 Zhang YHP. A sweet out-of-the-box solution to the hydrogen economy: is the sugar-powered car science fiction? Energy and Environmental Science 2(3):272-282, 2009.
DOI: 10.1039/b818694d
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01/01/2009 Zhang Y-HP, Zhu Z, Rollin J, Sathisuksanoh N. 2010. Chapter 20. Advances in cellulose solvent- and organic solvent-based lignocellulose fractionation (COSLIF). ACS Symposium Series 1033: 365-379 (Cellulose solvents: For analysis, shaping and chemical modification), Oxford University Press, UK, ISBN13: 9780841200067.
DOI: 10.1021/bk-2010-1033.ch020
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01/01/2009 Zhiguang Zhu, Noppadon Sathitsuksanoha and Y.-H. Percival Zhang, Direct quantitative determination of adsorbed cellulase on lignocellulosic biomass with its application to study cellulase desorption for potential recycling, Analyst, 1347:2267-2272, 2009.
DOI: 10.1039/b906065k
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10/06/2008 Mao, Fenglou, Phuongan Dam, Jacky Chou, Victor Olman, and Ying Xu , "DOOR: a database for prokaryotic operons," Nucleic Acids Research, 37:D459-D463, 2009.
DOI: 10.1093/nar/gkn757
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08/01/2008 Moxley, Geoffrey, Zhiguang Zhu, and Y.-H. Percival Zhang ,Efficient Sugar Release by the Cellulose Solvent-Based Lignocellulose Fractionation Technology and Enzymatic Cellulose Hydrolysis , Journal of Agricultural and Food Chemistry, 56(17):7885–7890, 2008
DOI: 10.1021/jf801303f
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08/01/2008 Yuan, Joshua S., Kelly H. Tiller, Hani Al-Ahmad, Nathan R. Stewart, C. Neal Stewart, Jr., Plants to power: bioenergy to fuel the future, Trends in Plant Science, Vol. 13(8):421-429, 2008
DOI: 10.1016/j.tplants.2008.06.001
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07/01/2008 Hong, Jiong, Xinhao Ye, Yiran Wang and Y.-H. Percival Zhang Bioseparation of recombinant cellulose binding module-protein by affinity adsorption on an ultra-high-capacity cellulosic adsorbent, Analytica Chimica Acta, 621:193-199, 2008.
DOI: 10.1016/j.aca.2008.05.041
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06/20/2008 Hong, Jiong, Yiran Wang, Xinhao Ye and Y.-H. Percival Zhang , Simple protein purification through affinity adsorption on regenerated amorphous cellulose followed by intein self-cleavage, Journal of Chromatography A, 1194(2):150-154, 2008.
DOI: 10.1016/j.chroma.2008.04.048
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06/01/2008 Ding, Shi-You, Qi Xu, Michael Crowley, Yining Zeng, Mark Nimlos, Raphael Lamed, Edward A. Bayer, and Michael E. Himmel , A Biophysical Perspective of the Cellulosome: New Opportunities for Biomass Conversion , Current Opinion Biotechnology, 19(3):218-227, 2008
DOI: 10.1016/j.copbio.2008.04.008
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06/01/2008 Blumer-Schuette, Sara E., Kataeva, Irina, Westpheling, Janet, Adams, Michael W.W., Kelly, Robert M., 2008, Extremely thermophilic microorganisms for biomass conversion; status and prospects, Current Opinion in Biotechnology, 19(3):210-217, 2008.
DOI: 10.1016/j.copbio.2008.04.007
View PDF
04/01/2008 Ljungdaho, L.G., Kataeva, I.A., Uversky, V.V., "Contribution of domain interactions and calcium binding to the stability of carbohydrate-Active enzymes," Bioenergy, Judy D. Wall, Caroline S. Harwood and Arnold Demain eds., ASM Press, washington, DC, p.115-127, 2008.
ISBN-13: 9781555814786
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02/01/2008 Lynd, L. R., Laser, M. S., Brandsby, D., Dale, B. E., Davison, B., Hamilton, R., Himmel, M., Keller, M., McMillan, J. D., Sheehan, J., Wyman, C. E., How Biotech can transform biofuels, Nature Biotechnology, 26(2):169-172, 2008.
DOI: 10.1038/nbt0208-169
View PDF
01/07/2008 Keller, Martin, Ramos, Juan L., 2008, Microbial goods from single cells and metagenomes, Current Opinion in Microbiology, 11(3):195-197, 2008.
DOI: 10.1016/j.mib.2008.05.003
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01/01/2008 Ding, S.Y., Himmel, M., Xie, X.S., "Identify Molecular Structural Features of Biomass Recalcitrance Using Nondestructive Microscopy and Spectroscopy," Abstracts of papers of the american chemical society, 237, 2009.
DOI: 10.1017/S1431927608088582
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Thompson, R.A., Dahal, S., Garcia, S., Nookaew, I., Trinh, C.T., "Exploring complex cellular phenotypes and model-guided strain design with a novel genome-scale metabolic model of Clostridium thermocellum DSM 1313 implementing an adjustable cellulosome", Biotechnology for Biofuels, 2016
Layton, D.S., Trinh, C.T., "Expanding the modular ester fermentative pathways for combinatorial biosynthesis of esters from volatile organic acids", Biotechnology for Biofuels, 2016
DOI: 10.1002/bit.25947
Lipscomb, G.L., Conway, J.M., Blumer-Schuette, S.E., Kelly, R.M., Adams, M.W.W., "Highly thermostable kanamycin resistance marker expands the toolkit for genetic manipulation of Caldicellulosiruptor bescii", Applied and Environmental Microbiology 2016
DOI: 10.1128/AEM.00570-16
Gupta, V.K., Kubicek, C.P., Berrin, J-G., Wilson, D.W., Couturier, M., Berlin, A., Fil;ho, E.X.F., Ezeji, T., "Fungal enzymes for bio-products from sustainable and waste biomass", Trends in Biochemical Sciences, 2016
DOI: 10.1016/j.tibs.2016.04.006
Trinh, C.T., Mendoza, B., "Modular cell design for rapid, efficient strain engineering towards industrialization of biology", Current Opinion in Chemical Engineering, 2016

Intellectual Property

Brunecky, Roman; Himmel, Michael; Superactive Cellulase for Biomass Conversion
Elkins, James; Caloramator sp. Tolerance of Pretreatment Inhibitors from LIgnocellulosics
Lynd, Lee; Cellulose and Xylan Fermentation by Novel Anaerobic Thermophilic Clostridia Isolated from Self-Heated Biocompost
Zhang, Y.H. Percival; Recombinant Gram-Positive Microorganism Growing on Cellulose asas the Sole Carbon Source in Defined Media
Brown, Steve; Guss, Adam; Kataeva, Irina; Lynd, Lee; Shao, Xiongjun; Nucleic Acid Molecules Conferring Enhanced Ethanol Tolerance and Microorganisms Having Enhanced Tolerance to Ethanol
Chung, DaeHwan; Farkas, Joel A; Huddleston, Jennifer; Westpheling, Janet; Restriction / Modifiction Polypetides, Polynucleotides, and Methods
Mielenz, Jonathan; Consolidated Bioprocessing Method using Thermophilic Microorganisms
Adams, Michael A; Hamilton-Brehm, Scott; Kataeva, Irina; Westpheling, Janet; Gene and Gene Clusters that Enable Degradation of Recalcitrant Biological Materials
Lynd, Lee; Selection of Celluloytic Microbes with High Growth Rates
Lynd, Lee; Novel Configuration to Improve the Practicality and Increase the Benefits of Flow through pretreatment of cellulosic biomass for subsequent biological processing
Ashwini, Bhandiwad; Lynd, Lee; Shaw, Joe; Establishment of n-butanol pathway in thermophilic bacteria
Chen, Yi-ru; Sarkanen, Simo; Lignin degrading methods
Brunecky, Roman; Himmel, Michael; Improvement of C.Bescii CelA activity by Addition of an Accessory Enzyme
Clarkson, Sonya; Elkins, James; Heat-stable iron-dependent alcohol dehydrogenase for aldehyde detoxification in lignocellulosic hydrolysates
Cha, Min-Seok; Chung, DaeHwan; Westpheling, Janet; Metabolic Engineering of Caldicellulosiruptor bescii for the Production of Biofuels and Bioproducts
Chung, DaeHwan; Westpheling, Janet; Replicating Expression Vectors for Caldicellulosiruptor species
Hau, Heidi; Wiswall, Erin; Expression of Enzymes in Yeast for Lignocellulose-derived Oligomer CBP
McBride, John; Wiswall, Erin; Expression of BG in Yeast for Hydrolysis of Lignocellulose and Associated Oligomers
Coria, Oliver; Davin, Laurence; Kim, Sung-jin; Lewis, Norm; Arogenate dehydratases and lignification
Guss, Adam; Method of Producing Butyric Acid from Sugars
Froehlich, Allan; Mutations in Iron-Sulfur Cluster Proteins that Improve Xylose Utilization
Brunecky, Roman; Himmel, Michael; Enzymes for Improved Biomass Conversion

BioEnergy Science Center one of three DOE Bioenergy Research Centers established by the U.S. Department of Energy.