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United States Department of Agriculture

Agricultural Research Service

Stephen R. Hughes

Research Molecular Biologist


Publications (Clicking on the reprint icon Reprint Icon will take you to the publication reprint.)
Conversion of coffee byproducts to biofuels and bioproducts using biorefinery concept - (Abstract Only) - (13-Sep-14)
Moving toward energy security and sustainability in 2050 by reconfiguring biofuel production - (Book / Chapter) - (27-Jul-14)
Sustainable conversion of coffee and other crop wastes to biofuels and bioproducts using combined biochemical and thermochemical processes in a multi-stage biorefinery concept - (Review Article)
Hughes, S.R., Lopez-Nunez, J., Jones, M.A., Moser, B.R., Cox, E.J., Lindquist, M.R., Galindo-Leva, L., Rodriguez-Valencia, N., Tasaki, K., Brown, R.C., Darzins, A., Brunner, L., et al. 2014. Sustainable conversion of coffee and other crop wastes to biofuels and bioproducts using coupled biochemical and thermochemical processes in a multi-stage biorefinery concept. Applied Microbiology and Biotechnology. DOI: 10.1007/s00253-014-5991-1.
Butyric acid from anaerobic fermentation of lignocellulosic biomass hydrolysates by Clostridium sp. strain RPT-4213 - (Abstract Only) - (24-Jul-14)
Biomass for biorefining: Resources, allocation, utilization, and policies - (Book / Chapter) - (27-Jun-14)
Saccharomyces cerevisiae expressing bacteriophage endolysins reduce Lactobacillus contamination during fermentation - (Peer Reviewed Journal)
Khatibi, P.A., Roach, D.R., Donovan, D.M., Hughes, S.R., Bischoff, K.M. 2014. Saccharomyces cerevisiae expressing bacteriophage endolysins reduce Lactobacillus contamination during fermentation. Biotechnology for Biofuels. DOI: 10.1186/1754-6834-7-104.
Evaluation of the mechanical and thermal properties of coffee tree wood flour - polypropylene composites - (Peer Reviewed Journal)
Tisserat, B., Reifschneider, L., Lopez Nunez, J.C., Hughes, S.R., Selling, G.W., Finkenstadt, V.L. 2014. Evaluation of the mechanical and thermal properties of coffee tree wood flour - polypropylene composites. BioResources. 9(3):4449-4467.
Can endolysin expressing yeast protect ethanolic fermentations and replace antibiotics in animal feed? - (Abstract Only) - (21-May-14)
Application of bacteriophage endolysins to reduce Lactobacillus contamination during fuel ethanol fermentation - (Abstract Only) - (20-May-14)
Integrated automation for continuous high-throughput synthetic chromosome assembly and transformation to identify improved yeast strains for industrial production of biofuels and bio-based chemicals - (Book / Chapter) - (02-May-14)
Expression of a wolf spider toxin in tobacco inhibits the growth of microbes and insects - (Peer Reviewed Journal)
Johnson, E.T., Dowd, P.F., Hughes, S.R. 2014. Expression of a wolf spider toxin in tobacco inhibits the growth of microbes and insects. Biotechnology Letters. 36(1):1735-1742.
Thermostable hemicellulases of a bacterium, Geobacillus sp. DC3, isolated from the former Homestake Gold Mine in Lead, South Dakota - (Peer Reviewed Journal)
Bergdale, T.E., Hughes, S.R., Bang, S.S. 2014. Thermostable hemicellulases of a bacterium, Geobacillus sp. DC3, isolated from the former Homestake Gold Mine in Lead, South Dakota. Applied Biochemistry and Biotechnology. 172(7):3488-3501.
Production of a yeast artificial chromosome for stable expression of a synthetic xylose isomerase-xylulokinase polyprotein in a fuel ethanol yeast strain - (Abstract Only) - (18-Sep-13)
Bacteriophage endolysins expressed in yeast kill strains of Lactobacillus that contaminate fermentations - (Abstract Only) - (15-Aug-13)
Effect of fermentation with Saccharomyces cerevisiae strain PJ69-4 on the phytic acid, raffinose, and stachyose contents of soybean meal - (Peer Reviewed Journal)
Tudor, K.W., Jones, M.A., Hughes, S.R., Holt, J.P., Wiegand, B.R. 2013. Effect of fermentation with Saccharomyces cerevisiae strain PJ69-4 on the phytic acid, raffinose, and stachyose contents of soybean meal. The Professional Animal Scientist. 29:529-534.
Butyric acid from anaerobic fermentation of lignocellulosic biomass hydrolysates by Clostridium tyrobutyricum strain RPT-4213 Reprint Icon - (Peer Reviewed Journal)
Liu, S., Bischoff, K.M., Leathers, T.D., Qureshi, N., Rich, J.O., Hughes, S.R. 2013. Butyric acid from anaerobic fermentation of lignocellulosic biomass hydrolysates by Clostridium tyrobutyricum strain RPT-4213. Bioresource Technology. 143:322-329.
Expression of bacteriophage endolysins in Saccharomyces cerevisiae - (Abstract Only) - (21-May-13)
Development of mutated Kluyveromyces marxianus strains for ethanol production at elevated temperature from biomass hydrolysate - (Abstract Only)
Hughes, S.R., Cox, E.J., Kurtzman, C.P., Bischoff, K.M., Liu, S., Cote, G.L., Rich, J.O., Bang, S.S., Pinkleman, R., Riano-Herrera, N.M., Rodriguez-Valencia, N., Lopez-Nunez, J.C. 2013. Development of mutated Kluyveromyces marxianus strains for ethanol production at elevated temperature from biomass hydrolysate [abstract]. Center for Process Analysis and Control.
Automated UV-C mutagenesis of Kluyveromyces marxianus NRRL Y-1109 and selection for microaerophilic growth and ethanol production at elevated temperature on biomass sugars - (Peer Reviewed Journal)
Hughes, S.R., Bang, S.S., Cox, E.J., Schoepke, A., Ochwat, K., Pinkelman, R., Nelson, D., Qureshi, N., Gibbons, W.R., Kurtzman, C.P., Bischoff, K.M., Liu, S., Cote, G.L., Rich, J.O., Jones, M.A., Cedeno, D., Doran-Peterson, J., Riano, N.M. 2013. Automated UV-C mutagenesis of Kluyveromyces marxianus NRRL Y-1109 and selection for microaerophilic growth and ethanol production at elevated temperature on biomass sugars. Journal of Laboratory Automation. 18(4):276-290.
Presence of glucose, xylose, and glycerol fermenting bacteria in the deep biosphere of the former Homestake gold mine, South Dakota - (Peer Reviewed Journal)
Rastogi, G., Gurram, R.N., Bhalla, A., Gonzalez, R., Bischoff, K.M., Hughes, S.R., Kumar, S., Sani, R.K. 2013. Presence of glucose, xylose, and glycerol fermenting bacteria in the deep biosphere of the former Homestake gold mine, South Dakota. Frontiers in Microbiology. 4(2):1-8.
Bacteriophage-encoded lytic enzymes control growth of contaminating Lactobacillus found in fuel ethanol fermentations - (Peer Reviewed Journal)
Roach, D.R., Khatibi, P.A., Bischoff, K.M., Hughes, S.R., Donovan, D.M. 2013. Bacteriophage-encoded lytic enzymes control growth of contaminating Lactobacillus found in fuel ethanol fermentations. Biotechnology for Biofuels. 6(1):20.
Sustainable multipurpose biorefineries for third-generation biofuels and value-added co-products - (Book / Chapter)
Hughes, S.R., Gibbons, W.R., Moser, B.R., Rich, J.O. 2013. Sustainable multipurpose biorefineries for third-generation biofuels and value-added co-products. In: Fang, Z., editor. Biofuels - Economy, Environment and Sustainability. Croatia: InTech. p. 245-267.
Cell-penetrating recombinant peptides for potential use in agricultural pest control applications - (Other)
Hughes, S.R., Dowd, P.F., Johnson, E.T. 2012. Cell-penetrating recombinant peptides for potential use in agricultural pest control applications. Journal of Pharmaceutical Sciences. 5:1054-1063.
Increased ethanol production with UV-C mutagenized Kluyveromyces marxianus capable of anaerobic growth at elevated temperature on pentose and hexose sugars using fermentation strategies with corn pericarp hydrolysates - (Abstract Only)
Hughes, S.R., Kurtzman, C.P., Rich, J.O. 2012. Increased ethanol production with UV-C mutagenized Kluyveromyces marxianus capable of anaerobic growth at elevated temperature on pentose and hexose sugars using fermentation strategies with corn pericarp hydrolysates [abstract]. International Congress on Yeasts. IP175M.
Engineered biosealant producing inorganic and organic biopolymers - (Peer Reviewed Journal) - (02-Jul-12)
Novel antibacterial polypeptide produced by Lactobacillus paracasei strain NRRL B-50314 - (Abstract Only)
Liu, S., Wilkinson, B.J., Bischoff, K.M., Hughes, S.R., Rich, J.O., Cotta, M.A. 2012. Novel antibacterial polypeptide produced by Lactobacillus paracasei strain NRRL B-50314 [abstract]. American Society for Microbiology. Paper #2512. p. 202.
Genetically engineered Escherichia coli FBR5: Part II. Ethanol production from xylose and simultaneous product recovery - (Peer Reviewed Journal)
Qureshi, N., Dien, B.S., Liu, S., Saha, B.C., Cotta, M.A., Hughes, S.R., Hector, R.E. 2012. Genetically engineered Escherichia coli FBR5: Part II. Ethanol production from xylose and simultaneous product recovery. Biotechnology Progress. 28(5):1179-1185.
Genetically engineered Escherichia coli FBR5: Part I. Comparison of high cell density bioreactors for enhanced ethanol production from xylose - (Peer Reviewed Journal)
Qureshi, N., Dien, B.S., Liu, S., Saha, B.C., Hector, R.E., Cotta, M.A., Hughes, S.R. 2012. Genetically engineered Escherichia coli FBR5: Part I. Comparison of high cell density bioreactors for enhanced ethanol production from xylose. Biotechnology Progress. 28(5):1167-1178.
Evaluation of UV-C mutagenized Scheffersomyces stipitis strains for ethanol production - (Peer Reviewed Journal)
Geiger, M., Gibbons, J., West, T., Hughes, S.R., Gibbons, W. 2012. Evaluation of UV-C mutagenized Scheffersomyces stipitis strains for ethanol production. Journal of Laboratory Automation. 17(6):417-424.
Novel antibacterial polypeptide laparaxin produced by Lactobacillus paracasei strain NRRL B-50314 via fermentation Reprint Icon - (Peer Reviewed Journal)
Liu, S., Wilkinson, B.J., Bischoff, K.M., Hughes, S.R., Rich, J.O., Cotta, M.A. 2012. Novel antibacterial polypeptide laparaxin produced by Lactobacillus paracasei strain NRRL B-50314 via fermentation. J Pet Environ Biotechnol. 3:121. DOI: 10.4172/2157-7463.
Uv-C Mutagenesis of Kluyveromyces Marxianus Nrrl Y-1109 Strain for Improved Anaerobic Growth at Elevated Temperature on Pentose and Hexose Sugars - (Abstract Only)
Hughes, S.R., Rich, J.O. 2012. UV-C mutagenesis of Kluyveromyces marxianus NRRL Y-1109 strain for improved anaerobic growth at elevated temperature on pentose and hexose sugars [abstract]. American Chemical Society.
Design and construction of a first-generation high-throughput integrated molecular biology platform for production of optimized synthetic genes and improved industrial strains - (Abstract Only)
Hughes, S.R., Butt, T.R., Bartolett, S., Riedmuller, S., Sterner, D., Farrelly, P., Bischoff, K.M., Liu, S., Rich, J.O. 2012. Design and construction of a first-generation high-throughput integrated molecular biology platform for production of optimized synthetic genes and improved industrial strains [abstract]. CBRD Advisory Board.
Development and application of automated systems for plasmid-based functional proteomics to improve syntheitc biology of engineered industrial microbes for high level expression of proteases for biofertilizer production - (Abstract Only)
Hughes, S.R., Rich, J.O., Tasaki, K., Riedmuller, S. 2012. Development and application of automated systems for plasmid-based functional proteomics to improve syntheitc biology of engineered industrial microbes for high level expression of proteases for biofertilizer production [abstract]. Society for Laboratory Automation and Screening. Track 3. Paper 4.
Production of biodiesel by transesterification of corn and soybean oils with ethanol or butanol using resin-bound truncated Candida antarctica lipase B - (Peer Reviewed Journal)
Hughes, S.R., Moser, B.R., Robinson, S., Cox, E.J., Harmsen, A.J., Friesen, J.A., Bischoff, K.M., Jones, M.A., Pinkleman, R., Bang, S.S., Tasaki, K., Doll, K.M., Qureshi, N., Liu, S., Saha, B.C., Jackson, Jr., J.S., Cotta, M.A., Rich, J.O., Caimi, P. 2012. Synthetic resin-bound truncated Candida antarctica lipase B for production of fatty acid alkyl esters by transesterification of corn and soybean oils with ethanol or butanol. Journal of Biotechnology. 159:69-77. DOI: 10.1016/j.jbiotec.2012.01.025.
Melanin determination by high performance liquid chromatography (HPLC) for K. marxianus - (Abstract Only)
Hughes, S.R., Cox, E. 2011. Melanin determination by high performance liquid chromatography (HPLC) for K. marxianus [abstract]. p. 2.
Vntr Fingerprinting of Kluyveromyces Marxianus Strains Wt, 7-1, and 8-1 by Using Different Primer Types to Give Best Results in Pcr and on Electrophorese Gel in Order to Find Differentiation of the DNA of the Yeast Strains. - (Abstract Only)
Schoepke, A., Cox, E., Rich, J.O., Hughes, S.R. 2011. VNTR fingerprinting of Kluyveromyces marxianus strains WT, 7-1, and 8-1 by using different primer types to give best results in PCR and on electrophorese gel in order to find differentiation of the DNA of the yeast strains [abstract]. American Chemical Society. Poster #11.
Adaptation of lactic acid bacteria to butanol Reprint Icon - (Peer Reviewed Journal)
Liu, S., Bischoff, K.M., Leathers, T.D., Qureshi, N., Rich, J.O., Hughes, S.R. 2012. Adaptation of lactic acid bacteria to butanol. Biocatalysis and Agricultural Biotechnology. 1(1):57-61. DOI: http://dx.doi.org/10.1016/j.bcab.2011.08.008.
Random UV-C mutagenesis of Scheffersomyces (formerly Pichia) stipitis NRRL Y-7124 to improve anaerobic growth on lignocellulosic sugars Reprint Icon - (Peer Reviewed Journal)
Hughes, S.R., Bischoff, K.M., Gibbons, W.R., Bang, S.S., Pinkelman, R., Slininger, P.J., Qureshi, N., Liu, S., Saha, B.C., Jackson, J.S., Cotta, M.A., Rich, J.O., Javers, J. 2012. Random UV-C mutagenesis of Scheffersomyces (formerly Pichia) stipitis NRRL Y-7124 to improve anaerobic growth on lignocellulosic sugars. Journal of Industrial Microbiology and Biotechnology. 39(1):163–173.
Saccharomyces cerevisiae engineered for xylose metabolism requires gluconeogenesis and the oxidative branch of the pentose phosphate pathway for aerobic xylose assimilation Reprint Icon - (Peer Reviewed Journal)
Hector, R.E., Mertens, J.A., Bowman, M.J., Nichols, N.N., Cotta, M.A., Hughes, S.R. 2011. Saccharomyces cerevisiae engineered for xylose metabolism requires gluconeogenesis and the oxidative branch of the pentose phosphate pathway for aerobic xylose assimilation. Yeast. 28:645-660.
High-throughput automated molecular biology platform for production of fuel ethanol yeast capable of expressing high-value heterologous proteins - (Proceedings)
Hughes, S.R., Moser, B.R., Harmsen, A.J., Bischoff, K.M., Jones, M.A., Pinkleman, R., Bang, S.S., Doll, K.M., Tasaki, K., Qureshi, N., Liu, S., Saha, B.C., Jackson, Jr, J.S., Cotta, M.A., Rich, J.O., Caimi, P. 2011. High-throughput automated molecular biology platform for production of fuel ethanol yeast capable of expressing high-value heterologous proteins. Proceedings of the Seventh International Starch Technology Conference. p. 21-29.
Purification and characterization of arabinofuranosidase from the corn endophyte Acremonium zeae Reprint Icon - (Peer Reviewed Journal)
Bischoff, K.M., De Rezende, S.T., Larson, T.M., Liu, S., Hughes, S.R., Rich, J.O. 2011. Purification and characterization of arabinofuranosidase from the corn endophyte Acremonium zeae. Biotechnology Letters. 33(10):2013-2018. DOI: 10.1007/s10529-011-0658-9.
Design and construction of a first-generation high-throughput integrated robotic molecular biology platform for bioenergy applications Reprint Icon - (Review Article)
Hughes, S.R., Butt, T.R., Bartolett, S., Riedmuller, S.B., Sterner, D., Farrelly, P. 2011. Design and construction of a first-generation high-throughput integrated robotic molecular biology platform for bioenergy applications. Journal of the Association for Laboratory Automation. p. 292-307. DOI: 10.1016/j.jala.2011.04.004.
Evaluation of yeast strains for production of fuel ethanol from biomass hydrolysates - (Abstract Only)
Hughes, S.R. 2011. Evaluation of yeast strains for production of fuel ethanol from biomass hydrolysates [abstract}. Center for Bioprocessing Research and Development, South Dakota School of Mines and Technology. p. 3.
Integrated Biorefineries with Engineered Microbes and High-value Co-products for Profitable Biofuels Production - (Book / Chapter)
Gibbons, W., Hughes, S.R. 2011. Integrated biorefineries with engineered microbes and high-value co-products for profitable biofuels production. In: Tomes, D., Lakshmanan, P., Songstad, D., editors. Biofuels. New York Dordrecht Heidelberg London: Springer. p. 265-284.
Historical Perspective of Biofuels: Learning from the Past to Rediscover the Future - (Book / Chapter)
Songstad, D., Lakshmanan, P., Chen, J., Gibbons, W., Hughes, S.R., Nelson, R. 2011. Historical perspective of biofuels: Learning from the past to rediscover the future. In: Tomes, D., Lakshmanan, P., Songstad, D., editors. Biofuels. New York Dordrecht Heidelberg London: Springer. p. 1-8.
Exploring Lactobacillus buchneri for Biomass to Biofuels - (Abstract Only)
Liu, S., Bischoff, K.M., Leathers, T.D., Hughes, S.R., Rich, J.O. 2010. Exploring Lactobacillus buchneri for biomass to biofuels [abstract]. Symposium on Biocatalysis and Biotechnology. p. 59.
Evaluation of Engineered Pichia stipitis Strains for Ethanol Production - (Abstract Only)
Gibbons, J.L., Geiger, W.R., Gibbons, W.R., Hughes, S.R. 2010. Evaluation of Engineered Pichia stipitis Strains for Ethanol Production [abstract]. American Society for Microbiology. Abstract #35. p. 4.
Purification and Characterization of Two Arabinofuranosidases from the Maize Endophyte Acremonium zeae - (Abstract Only)
Bischoff, K.M., De Rezenda, S.T., Larson, T.M., Liu, S., Hughes, S.R., Rich, J.O. 2010. Purification and characterization of two Arabinofuranosidases from the maize endophyte Acremonium zeae [abstract]. Society for Industrial Microbiology. Poster No. P-12. p. 108.
Chapter 3: Biofuel Demand Realization - (Book / Chapter)
Hughes, S.R., Qureshi, N. 2010. Biofuel demand realization. In: Vertes, A., Qureshi, N., Blascheck, H.P., Yukawa, H., editors. Biomass to Biofuels: Strategies to Global Industries. UK:John Wiley & Sons Limited. p. 55-69.
Functional Expression of the Thiolase Gene thl from Clostridium beijerinckii P260 in Lactococcus lactis and Lactobacillus buchneri - (Abstract Only)
Liu, S., Bischoff, K.M., Hughes, S.R., Qureshi, N., Rich, J.O. 2010. Functional expression of the Thiolase gene THL from Clostridium beijerinckii P260 in Lactococcus lactis and Lactobacillus buchneri [abstract]. Genetics of Industrial Microorganisms. p. 36.
Engineered Cellulosic Yeast for Direct Production of Energy-Dense, Infrastructure-Compatible Fuels from CO2 and Cellulosic Sugars - (Abstract Only)
Hughes, S.R. 2010. Engineered cellulosic yeast for direct production of energy-dense, infrastructure-compatible fuels from CO2 and cellulosic sugars [abstract]. BioConference Live.
Characterization of Thermostable Cellulases Produced by Bacillus and Geobacillus Strains Reprint Icon - (Peer Reviewed Journal)
Rastogi, G., Bhalla, A., Adhikari, A., Bischoff, K.M., Hughes, S.R., Christopher, L.P., Sani, R.K. 2010. Characterization of thermostable cellulases produced by Bacillus and Geobacillus strains. Bioresource Technology. 101(22):8798-8806.
Production of Truncated Candida antarctica Lipase B Gene Using Automated PCR Gene Assembly Protocol and Expression in Yeast for use in Ethanol and Biodiesel Production. - (Abstract Only)
Hughes, S.R., Moser, B.R., Harmsen, A.J., Robinson, S., Bischoff, K.M., Jones, M.A., Pinkelman, R., Bang, S.B., Tasaki, K., Doll, K.M., Qureshi, N., Liu, S., Saha, B.C., Jackson Jr, J.S., Cotta, M.A., Rich, J.O., Caimi, P. 2010. Production of truncated Candida antarctica Lipase B gene using automated PCR gene assembly protocol and expression in yeast for use in ethanol and biodiesel production [abstract]. Advanced Biofuels Leadership Conference. Talk 3. p. 5.
Renewable Products Research: Applications in Polymers, Fuels, and Co-Products - (Abstract Only)
Rich, J.O., Skory, C.D., Hughes, S.R. 2010. Renewable products research: Applications in polymers, fuels, and co-products [abstract]. University of Minnesota. #1.
Cloning and Expression of Novel Bacterial Xylose Isomerases in Saccharomyces cerevisiae - (Abstract Only)
Hector, R.E., Dien, B.S., Cotta, M.A., Hughes, S.R. 2010. Cloning and expression of novel bacterial xylose isomerases in Saccharomyces cerevisiae. Biotechnology for Fuels and Chemicals Symposium. Abstract #1.
Production of Candida antaractica Lipase B Gene Open Reading Frame using Automated PCR Gene Assembly Protocol on Robotic Workcell & Expression in Ethanologenic Yeast for use as Resin-Bound Biocatalyst in Biodiesel Production Reprint Icon - (Peer Reviewed Journal)
Hughes, S.R., Moser, B.R., Harmsen, A.J., Bischoff, K.M., Jones, M.A., Pinkelman, R., Bang, S.S., Tasaki, K., Doll, K.M., Qureshi, N., Liu, S., Saha, B.C., Jackson Jr, J.S., Cotta, M.A., Rich, J.O., Caimi, P. 2010. Production of Candida antaractica Lipase B gene open reading frame using automated PCR gene assembly protocol on robotic workcell and expression in ethanologenic yeast for use as resin-bound biocatalyst in biodiesel production. Journal of the Association for Laboratory Automation. 16(1):17-37. DOI: 10.1016/j.jala.2010.04.002.
Functional Expression of the Thiolase Gene thl from Clostridium beijerinckii p260 in Lactococcus lactis and Lactobacillus buchneri - (Peer Reviewed Journal)
Liu, S., Bischoff, K.M., Qureshi, N., Hughes, S.R., Rich, J.O. 2010. Functional expression of the thiolase gene THl from Clostridium beijerinckii P260 in Lactococcus lactis and Lactobacillus buchneri. New Biotechnology. 27(4):283-288.
The Crossover Biorefinery in The Production of Liquid Biofuels and Bioderived Chemicals from Biomass: Emerging Technologies - (Abstract Only)
Hughes, S.R., Tasaki, K. 2010. The crossover biorefinery in the production of liquid biofuels and bioderived chemicals from biomass: Emerging technologies and regulations [abstract]. LabAutomation 2010. Talk 10. p. 6.
Fermentation of Corn Fiber Hydrolysate to Lactic Acid by the Moderate Thermophile Bacillus coagulans - (Peer Reviewed Journal)
Bischoff, K.M., Liu, S., Hughes, S.R., Rich, J.O. 2010. Fermentation of corn fiber hydrolysate to lactic acid by the moderate thermophile Bacillus coagulans. Biotechnology Letters. 32:823-828.
Production of Butanol (a Biofuel) from Agricultural Residues: Part II - Use of Corn Stover and Switchgrass Hydrolysates - (Peer Reviewed Journal)
Qureshi, N., Saha, B.C., Hector, R.E., Dien, B., Hughes, S., Liu, S., Iten, L., Bowman, M.J., Sarath, G., Cotta, M.A. 2010. Production of butanol (a Biofuel) from agricultural residues: Part II - Use of corn stover and switchgrass hydrolysates. Biomass and Bioenergy. 34(4):566-571.
Production of Liquid Biofuels from Biomass: Emerging Technologies Reprint Icon - (Book / Chapter)
Qureshi, N., Hughes, S.R., Ezeji, T. 2010. Production of liquid biofuels from biomass: Emerging technologies. In: Blaschek, H.P., Ezeji, T.C., Scheffran, J., editors. Biofuels from Agricultural Wastes and Byproducts. Ames, IA: Wiley-Blackwell. p. 11-18.
Current Status and Future Considerations Regarding the US Biofuel Industry - (Abstract Only)
Hughes, S.R., Tasaki, K., Rich, J.O. 2009. Current status and future considerations regarding the U.S. Biofuel Industry [abstract]. Mitsubish Chemical Corporation. p. 1.
Cloning and Expression of Laccase from Trametes versicolor in Saccharomyces cerevisiae using a Novel Vector System - (Abstract Only)
Pinkelman, R.J., Hughes, S.R., Choi, H., Bang, S.S. 2009. Cloning and expression of Laccase from Trametes versicolor in Saccharomyces cerevisiae using a novel vector system [abstract]. American Institute for Chemical Engineers. Talk 1. p. 1.
Production of the Anaerobic GMAX-L Yeast Using High-Throughput Mating and Transformation of Saccharomyces cerevisiae With Identified Genes For Simultaneous Cellulosic Ethanol and Biodiesel Production - (Abstract Only)
Hughes, S.R., Rich, J.O., Moser, B.R., Doll, K.M., Bischoff, K.M., Qureshi, N., Jones, M., Tasaki, K. 2009. Production of the anaerobic GMAX-L yeast using high-throughput mating and transformation of Saccharomyces cerevisiae with identified genes For simultaneous cellulosic ethanol and biodiesel production [abstract]. Bradley Biology Chemisty Seminar Series.
Development of Thermotolerant Consolidated Bioprocessing Microbes for Cost-efficient Cellulosic Ethanol Production - (Abstract Only)
Christopher, L.P., Gibbons, W., Bleakeley, B., West, T., Hughes, S.R., Sani, R.K., Bang, S.S. 2009. Development of thermotolerant consolidated bioprocessing microbes for cost-efficient cellulosic ethanol production [abstract]. Industrial Biotechnology and Bioprocessing. Talk #4. p. 1.
Industrial Saccharomyces cerevisiae Yeast Strain Engineered to Convert Glucose, Mannose, Arabinose, and Xylose (GMAX) to Ethanol Anaerobically - (Abstract Only)
Hughes, S.R., Qureshi, N., Butt, T., Bang, S., Bischoff, K.M., Saha, B.C., Liu, S., Rich, J.O. 2009. Industrial Saccharomyces cerevisiae yeast strain engineered to convert glucose, mannose, arabinose, and xylose (GMAX) to ethanol anaerobically [abstract]. American Institute of Chemical Engineers. Talk #2. p. 1.
Advanced Biorefineries for Production of Fuel Ethanol - (Book / Chapter)
Hughes, S.R., Gibbons, W., Kohl, S. 2010. Advanced biorefineries for production of fuel ethanol. In: Vertes, A., Qureshi, N., Blaschek, H., Yukawa, H., editors. Biomass in Biofuels: Strategies for Global Industries. Chapter 4. p. 71-88.
Gmax Yeast Background Strain Made from Industrial Tolerant Saccharomyces Cerevisiae Engineered to Convert Sucrose, Starch and Cellulosic Sugars Universally to Ethanol Anaerobically with Concurrent Coproduct Expression - (Abstract Only)
Hughes, S.R., Butt, T., Boiley, J., Bang, S., Gibbons, W., Bischoff, K.M. 2009. GMAX yeast background strain made from industrial tolerant Saccharomyces cerevisiae engineered to convert sucrose, starch and cellulosic sugars universally to ethanol anaerobically with concurrent coproduct expression [abstract]. Society for In vitro Biology. Abstract #106. p. 135.
Development of recombinant biocatalysts expressing laccase enzyme from Trametes versicolor - (Abstract Only)
Pinkelman, R.J., Hughes, S.R., Bang, S.S. 2009. Development of recombinant biocatalysts expressing laccase enzyme from Trametes versicolor [abstract]. Society for Industrial Microbiology. Poster 15. p. 20.
Gmax-L Saccharomyces Cerevisiae Strains for Profitable Sustainable Cellulosic Ethanol and Biodiesel Production Concurrently Using Engineered Workcell - (Abstract Only)
Hughes, S.R., Moser, B.R., Doll, K.M., Tasaki, K., Harmsen, A., Jones, M., Bang, S., Gibbons, W., Butt, T. 2009. GMAX-L Saccharomyces cerevisiae strains for profitable sustainable cellulosic ethanol and biodiesel production concurrently using engineered workcell [abstract]. Center for Process Analytical Chemisty. Abstract No. 2. p. 1.
Characterization of Extremophilic Cellulose-Degrading Bacteria from the Deep Subsurface of the Homestake Gold Mine, Lead, South Dakota, USA - (Abstract Only)
Rastogi, G., Muppidi, G., Gurram, R., Adhikari, A., Bang, S., Christopher, L., Bischoff, K.M., Hughes, S.R., Apel, W., Sani, R.K. 2009. Characterization of extremophilic cellulose-degrading bacteria from the deep subsurface of the Homestake Gold Mine, Lead, South Dakota [abstract]. Symposium on Biotechnology for Fuels and Chemicals. Poster No. 6-11. p. 131.
Gmax Yeast Background Strain Made from Industrial Tolerant Saccharomyces Cerevisiae Engineered to Convert Pretreated Lignocellulosic Starch and Cellulosic Sugars Universally to Ethanol Anaerobically - (Abstract Only)
Hughes, S.R., Tasaki, K., Moser, B., Doll, K., Butt, T., Sterner, D., Bischoff, K., Hector, R., Jones, M., and Bang, S. 2009. GMAX yeast background strain made from industrial tolerant Saccharomyces cerevisiae engineered to convert pretreated Lignocellulosic starch and cellulosic sugars universally to ethanol anaerobically [abstract]. Cambridge Healthtech Institute, Advanced Biofuels Development Summit. Abstract No. 2. p. 3.
Historical Perspective of Biofuels: Learning from the Past to Rediscover the Future - (Peer Reviewed Journal)
Songstad, D.D., Lakshmanan, P., Chen, J., Gibbons, W., Hughes, S.R., Nelson, R. 2009. Historical perspective of biofuels: Learning from the past to rediscover the future. In Vitro Cellular and Developmental Biology - Plants. 45:189-192.
Integrated Biorefineries with Engineered Microbes and High-value Co-products for Profitable Biofuels Production - (Review Article)
Gibbons, W.R., Hughes, S.R. 2009. Integrated biorefineries with engineered microbes and high-value co-products for profitable biofuels production. In Vitro Cellular and Developmental Biology - Plants. 45:218-228.
Automated High Throughput GMAX-L Strains of Saccharomyces Cereviciae for Profitable Cellulosic Ethanol Production from Industrial Hydrosylates - (Abstract Only)
Hughes, S.R., Tasaki, K., Doll, K.M., Moser, B.R., Rich, J.O., Qureshi, N., Hector, R.E., Dien, B.S., Cotta, M.A., Bischoff, K.M., Liu, S., Bang, S., Jones, M. 2009. Automated high throughput GMAX-L strains of Saccharomyces cereviciae for profitable cellulosic ethanol production from industrial hydrosylates [abstract]. Society for In-Vitro Biology. p. 122.
Automated Yeast Transformation Protocol to Engineer S. cerevisiae Strains for Cellulosic Ethanol Production with Open Reading Frames that Express Proteins Binding to Xylose Isomerase Identified using Robotic Two-hybrid Screen - (Peer Reviewed Journal)
Hughes, S.R., Rich, J.O., Bischoff, K.M., Hector, R.E., Qureshi, N., Saha, B.C., Dien, B.S., Liu, S., Jackson Jr, J.S., Sterner, D.E., Butt, T.R., Labaer, J., Cotta, M.A. 2009. Automated yeast transformation protocol to engineer S. cerevisiae strains for cellulosic ethanol production with open reading frames that express proteins binding to xylose isomerase identified using robotic two-hybrid screen. Journal of the Association for Laboratory Automation. 8:200-212.
Automated production GMAX-L strains of Saccharomyces cereviciae for profitable sustainable cellulosic ethanol production combined with valuable coproduct isolation in mixed biorefinery settings - (Abstract Only)
Hughes, S.R., Doll, K., Moser, B., Bang, S., Rich, J., Qureshi, N., Hector, R., Dien, B., Cotta, M., Bischoff, K., Liu, S., Jones, M. 2009. Automated production GMAX-L strains of Saccharomyces cereviciae for profitable sustainable cellulosic ethanol production combined with valuable coproduct isolation in mixed biorefinery settings [abstract]. LabAutomation 2009. Abstract No. 109. p. 42.
Creating libraries for commercial yeast strains through miniaturization of cloning and transformations using the BioRAPTR FRD Microfluidic workstation - (Abstract Only)
Yoder, A., Pajak, L., Jackson Jr, J.S., Hughes, S.R. 2009. Creating libraries for commercial yeast strains through miniaturization of cloning and transformations using the BioRAPTR FRD microfluidic workstation [abstract]. LabAutomation. Poster #12. p. 49.
Isolation and Characterization of Cellulose-degrading Bacteria from the Deep Subsurface of the Homestake Gold Mine, Lead, South Dakota, USA - (Peer Reviewed Journal)
Rastogi, G., Muppidi, G.L., Gurram, R.N., Adhikari, A., Bischoff, K.M., Hughes, S.R., Apel, W.A., Bang, S.S., Dixon, D.J., Sani, R.K. 2009. Isolation and characterization of cellulose-degrading bacteria from the deep subsurface of the Homestake Gold Mine, Lead, South Dakota, USA. Journal of Industrial Microbiology and Biotechnology. 36:585-598.
Automated Yeast Mating Protocol Using Open Reading Frames from Saccharomyces cerevisiae Genome to Improve Yeast Strains for Cellulosic Ethanol Production - (Peer Reviewed Journal)
Hughes, S.R., Hector, R.E., Rich, J.O., Qureshi, N., Bischoff, K.M., Dien, B.S., Saha, B.C., Liu, S., Jackson Jr, J.S., Sterner, D.E., Butt, T.R., Labaer, J., Cotta, M.A. 2009. Automated yeast mating protocol using open reading frames from Saccharomyces cerevisiae genome to improve yeast strains for cellulosic ethanol production. Journal of the Association for Laboratory Automation. 8:190-199.
Extracellular Hemicellulolytic Enzymes from the Maize Endophyte Acremonium zeae - (Peer Reviewed Journal)
Bischoff, K.M., Wicklow, D.T., Jordan, D.B., De Rezende, S.T., Liu, S., Hughes, S.R., Rich, J.O. 2009. Extracellular hemicellulolytic enzymes from the maize endophyte Acremonium zeae. Current Microbiology. 58:499-503.
Make use of lactic acid bacteria in biomass to biofuel - (Abstract Only)
Liu, S., Bischoff, K.M., Leathers, T.D., Hughes, S.R., Rich, J.O. 2008. Make use of lactic acid bacteria in biomass to biofuel [abstract]. International Symposium on Biocatalysis and Biotechnology. Post No. M-2. p. 60.
Conversion of Biomass Hydrolysates and Other Substrates to Ethanol and Other Chemicals by Lactobacillus buchneri - (Peer Reviewed Journal)
Liu, S., Bischoff, K.M., Hughes, S.R., Leathers, T.D., Price, N.P., Qureshi, N., Rich, J.O. 2009. Conversion of biomass hydrolysates and other substrates to ethanol and other chemicals by Lactobacillus buchneri. Letters of Applied Microbiology. 48(3):337-342.
Three-vector System for use on Automated Systems for High-level Functional Expression of Value-added Co-products with Xylose Isomerase and Xylulokinase in an Industrial Saccharomyces cerevisiae Strain - (Abstract Only)
Rich, J.O., Hughes, S.R., Bischoff, K.M., Leathers, T.D. 2008. Three-vector system for use on automated systems for high-level functional expression of value-added co-products with Xylose Isomerase and Xylulokinase in an industrial Saccharomyces cerevisiae strain [abstract]. Indiana Council of Engineering Societies. Abstract 13. p. 4.
Engineered Saccharomyces cerevisiae strain for improved xylose utilization with a three-plasmid SUMO yeast expression system - (Peer Reviewed Journal)
Hughes, S.R., Sterner, D.E., Bischoff, K.M., Hector, R.E., Dowd, P.F., Qureshi, N., Bang, S.S., Grynavyski, N., Chakrabarty, T., Johnson, E.T., Dien, B.S., Mertens, J.A., Caughey, R.J., Liu, S., Butt, T.R., Labaer, J., Cotta, M.A., Rich, J.O. 2009. Engineered Saccharomyces cerevisiae strain for improved xylose utilization with a three-plasmid SUMO yeast expression system. Plasmid Journal. 61(1):22-38.
Improving Biocatalysts for the Production of Biofuels from Lignocellulosic Feedstocks - (Abstract Only)
Rich, J.O., Hughes, S.R., Bischoff, K.M., Leathers, T.D., Liu, S. 2008. Improving biocatalysts for the production of biofuels from Lignocellulosic feedstocks [abstract]. U.S. Japan Natural Resources Meeting. p. 54-55.
Cellulosic Ethanol Production from Saccharomyces cerevisiae Engineered for Anaerobic Conversion of Pretreated Lignocellulosic Sugars to Ethanol - (Abstract Only)
Rich, J.O., Bischoff, K.M., Hughes, S.R. 2008. Cellulosic ethanol production from Saccharomyces cerevisiae engineered for anaerobic conversion of pretreated Lignocellulosic sugars to ethanol [abstract]. American Chemical Society. Paper ID1211547.
Saccharomyces cerevisiae mass transformed with FLEXGenes results in strain capable of anaerobic fermentation of pentose and hexose sugars - (Abstract Only)
Hughes, S.R., Javers, J., Labaer, J., Butt, T., Hector, R.E., Dien, B.S., Saha, B.C., Bischoff, K.M., Kohl, S., Cotta, M.A., Rich, J.O. 2008. Saccharomyces cerevisiae mass transformed with FLEXGenes results in strain capable of anaerobic fermentation of pentose and hexose sugars [abstract]. Society of Industrial Microbiology. Session 34, S164, p. 106.
Expression of a Heterologous Xylose Transporter in a Saccharomyces cerevisiae Strain Engineered to Utilize Xylose Improves Aerobic Xylose Co-consumption - (Peer Reviewed Journal)
Hector, R.E., Qureshi, N., Hughes, S.R., Cotta, M.A. 2008. Expression of a heterologous xylose transporter in a Saccharomyces cerevisiae strain engineered to utilize xylose improves aerobic xylose consumption. Applied Microbiology and Biotechnology. 80(4):675-684.
Proteomic Approach for Molecular Mechanisms under Ethanol Stress in Lactobacillus buchneri - (Abstract Only)
Liu, S., Bischoff, K.M., Leathers, T.D., Hughes, S.R., Rich, J.O. 2008. Proteomic approach for molecular mechanisms under ethanol stress in Lactobacillus buchneri [abstract]. American Society for Microbiology. 0-030. p. 155.
Saccharomyces cerevisiae engineered to convert pretreated lignocellulosic sugars anaerobically to ethanol - (Abstract Only)
Hughes, S.R., Bischoff, K.M., Hector, R.E., Dien, B.S., Saha, B.C., Javers, J., Gibbons, W., Bang, S., Nelson, R., Standish, K., Cotta, M.A., Rich, J.O. 2008. Saccharomyces cerevisiae engineered to convert pretreated Lignocellulosic sugars anaerobically to ethanol [abstract]. Cambridge Healthtech Institute, Second Generation Biofuels Development Summit, Seminar 6. p. 1.
Three-vector system for high-level functional expression of value-added co-products with xylose isomerase and xylulokinase in an industrial saccharomyces cerevisiae strain - (Abstract Only)
Hughes, S.R., Jackson Jr, J.S., Dowd, P.F., Hector, R.E., Bischoff, K.M., Sterner, D., Bang, S., Grynavyski, N., Chakrabarty, T., Johnson, E.T., Li, X., Caughey, R.J., Liu, S., Skory, C.D., Butt, T., Labaer, J., Dien, B.S., Saha, B.C., Bowen, M., Qureshi, N., Rich, J.O., Leathers, T.D., Cotta, M.A., Farrelly, P., Slininger P.J. 2008. Three-vector system for high-level functional expression of value-added co-products with Xylose Isomerase and Xylulokinase in an industrial Saccharomyces cerevisiae strain [abstract]. Cambridge Healthtech Institute, Second Generation Biofuels Development Summit. Poster #1. p. 4.
Expression of a heterologous xylose transporter in a Saccharomyces cerevisiae strain engineered to utilize xylose increases xylose uptake and improves xylose/glucose co-consumption - (Abstract Only)
Hector, R.E., Qureshi, N., Hughes, S.R., Cotta, M.A. 2008. Expression of a heterologous xylose transporter in a Saccharomyces cerevisiae strain engineered to utilize xylose increases xylose uptake and improves xylose/glucose co-consumption [abstract]. In: Proceedings of the 30th Symposium on Biotechnology for Fuels and Chemicals, May 4-7, 2008, New Orleans, LA. p. 131.
Biofuels Group NSF DUSEL Project - (Abstract Only)
Bang, S., Sani, R., Bleakly, B., Bischoff, K.M., Hughes, S.R., Wagschal, K.C., Wong, D., Lee, C.C., Jordan, D.B., Pokkuluri, R., Schiffer, M. 2008. Biofuels Group NSF DUSEL Project [abstract]. Homestake DUSEL Spring Workshop. Talk 10. p. 2.
Ethanol production from modern biorefinery: Robotic platform for production of Saccharomyces cerevisiae engineered to convert pretreated lignocellulosic sugars to ethanol anaerobically - (Abstract Only)
Hughes, S.R., Rich, J.O. 2008. Ethanol production from modern biorefinery: Robotic platform for production of Saccharomyces cerevisiae engineered to convert pretreated Lignocellulosic sugars to ethanol anaerobically [abstract]. Laboratory Robotics Information Group (LRIG). Seminar 1. p. 1.
Lycotoxin-1 insecticidal peptide optimized by amino acid scanning mutagenesis and expressed as a co-product in an ethanologenix Saccharomyces cerevisiae strain - (Peer Reviewed Journal)
Hughes, S.R., Dowd, P.F., Hector, R.E., Panavas, T., Sterner, D.E., Qureshi, N., Bischoff, K.M., Bang, S.B., Mertens, J.A., Johnson, E.T., Li, X., Jackson Jr, J.S., Caughey, R.J., Riedmuller, S.B., Bartolett, S., Liu, S., Rich, J.O., Farrelly, P.J., Butt, T.R., Labaer, J., Cotta, M.A. 2008. Lycotoxin-1 insecticidal peptide optimized by amino acid scanning mutagenesis and expressed as a co-product in an ethanologenix Saccharomyces cerevisiae strain. Journal of Peptide Science. 14(9):1039-1050. Available: http://www3.interscience.wiley.com/cgi-bin/fulltext/119030240/PDFSTART.
Biodiesel production using heterogenous catalyst - (Abstract Only)
Tasaki, K., Moser, B.R., Doll, K.M., Hughes, S.R. 2008. Biodiesel production using heterogenous catalyst [abstract]. International Biofuels Development Summit. p. 2.
Genetically Modified Plants Containing Plant-Derived Genes for Broad Spectrum Insect Control to Reduce Mycotoxins: Bioactive Proteins - (Book / Chapter)
Dowd, P.F., Johnson, E.T., Pinkerton, T.S., Hughes, S.R. 2008. Genetically modified plants containing plant-derived genes for broad spectrum insect control to reduce mycotoxins. In: Wolf, T.V. and Koch, T.J.P., editors. Bioactive Proteins. Hauppauge, NY: Nova Science Publishers. p. 127-150.
Regulatory concerns associated with use of value-added recombinant proteins and peptides screened in hgh-throughput for expression in fuel ethanol yeast strains - (Abstract Only)
Hughes, S.R., Dowd, P.F., Hector, R.E., Bischoff, K.M., Rich, J.O., Cotta, M.A., Slininger, P.J., Rosentrater, K.A. 2008. Regulatory concerns associated with use of value-added recombinant proteins and peptides screened in hgh-throughput for expression in fuel ethanol yeast strains [abstract]. LabAutomation 2008, Track 5, Seminar 4. p. 5.
Carbohydrate utilization and detection of a nucleotide hydrolase in Lactobacillus buchneri - (Abstract Only)
Liu, S., Bischoff, K.M., Price, N.P., Hughes, S.R. 2007. Carbohydrate utilization and detection of a nucleotide hydrolase in Lactobacillus buchneri [abstract]. Symposium on Biocatalysis and Biotechnology. p. 49.
Regulatory steps associated with use of value-added recombinant proteins and peptides screened in high-throughput for expression in genetically engineered starch and cellulosic fuel ethanol yeast strains - (Abstract Only)
Hughes, S.R., Chen, H., Tsai, D., Thompson, W., Dowd, P.F., Hooberman, B., Benjamin, L., Alexander, L.J., Rosentrater, K.A., Rich, J.O. 2007. Regulatory steps associated with use of value-added recombinant proteins and peptides screened in high-throughput for expression in genetically engineered starch and cellulosic fuel ethanol yeast strains [abstract]. FDA Meeting. Talk 1.
Industrially useful microorganisms isolated from deep underground science and engineering laboratory (DUSEL) mine biofilms - (Abstract Only)
Hughes, S.R., Bang, S., Bleakley, B. 2007. Industrially useful microorganisms isolated from deep underground science and engineering laboratory (DUSEL) mine biofilms [abstract]. Meeting with South Dakota State Mine & Technology (SDSM&T) and South Dakota State University (SDSU). BioDUSEL Section, Day 2, Talk 3. p. 15.
Engineering Saccharomyces Cerevisiae for Ethanol Production from Agricultural Waste Products - (Abstract Only)
Hector, R.E., Qureshi, N., Hughes, S.R., Cotta, M.A. 2007. Engineering Saccharomyces cerevisiae for ethanol production from agricultural waste products [abstract]. Yeast Cell Biology. Paper No. 176.
Butanol Production from Wheat Straw by Simultaneous Saccharification and Fermentation Using Clostridium Beijerinckii: Part I-Batch Fermentation - (Peer Reviewed Journal)
Qureshi, N., Saha, B.C., Hector, R.E., Hughes, S.R., Cotta, M.A. 2008. Butanol production from wheat straw by simultaneous saccharification and fermentation using Clostridium beijerinckii: Part I - batch fermentation. Biomass and Bioenergy. 32:168-175.
Coexpression of pyruvate decarboxylase and alcohol dehydrogenase genes in Lactobacillus brevis - (Peer Reviewed Journal)
Liu, S., Dien, B.S., Nichols, N.N., Bischoff, K.M., Hughes, S.R., Cotta, M.A. 2007. Coexpression of pyruvate decarboxylase and alcohol dehydrogenase genes in Lactobacillus brevis. FEMS Microbiolology Letters. 274(2):291-297.
Cloning and characterization of a recombinant family 5 endoglucanase from Bacillus licheniformis strain B-41361 - (Peer Reviewed Journal)
Bischoff, K.M., Liu, S., Hughes, S.R. 2007. Cloning and characterization of a recombinant family 5 endoglucanase from Bacillus licheniformis strain B-41361. Process Biochemistry. 42:1150-1154.
High-Throughput Fully Automated Construction of a Multiplex Library of Mutagenized Open Reading Frames for an Insecticidal Peptide Using a Plasmid-Based Functional Proteomic Robotic Workcell with Improved Vacuum System - (Peer Reviewed Journal)
Hughes, S.R., Dowd, P.F., Hector, R.E., Riedmuller, S.B., Bartolett, S., Mertens, J.A., Qureshi, N., Liu, S., Bischoff, K.M., Li, X., Jackson Jr, J.S., Sterner, D., Panavas, T., Cotta, M.A., Farrelly, P.J., Butt, T. 2007. High-throughput fully automated construction of a multiplex library of mutagenized open reading frames for an insecticidal peptide using a plasmid-based functional proteomic robotic workcell with improved vacuum system. Journal of Laboratory Automation. 12(4):202-212.
Fully automated molecular biology routines on a plasmid-based functional proteomic workcell: Evaluation and Characterization of Yeast Strains Optimized for Growth on Xylose Expressing "Stealth" Insecticidal Peptides. - (Abstract Only)
Hughes, S.R., Li, X., Hector, R.E., Bischoff, K.M., Cotta, M.A., Mertens, J.A., Dowd, P.F., Johnson, E.T. 2007. Fully automated molecular biology routines on a plasmid-based functional proteomic workcell: Evaluation and characterization of yeast strains optimized for growth on xylose expressing "stealth" insecticidal peptides [abstract]. American Chemical Society. p. 108.
Recent Advances in Bioconversion of Agricultural Biomass to Butanol by Fermentation: Employing Potential of Available Renewable Resources to Produce a Superior Biofuel - (Abstract Only)
Qureshi, N., Saha, B.C., Li, X., Hughes, S.R., Cotta, M.A. 2007. Recent advances in bioconversion of agricultural biomass to butanol by fermentation: employing potential of available renewable resources to produce a superior biofuel [abstract]. American Chemical Society. Paper No. 178.
Plasmid-Based Functional Proteomic Workcell Evaluation and Characterization of Yeast Strains with Improved Growth on Xylose Expressing Xylanase A(Xyn A) and Celulase F(Cel F) from Anaerobic Fungi Orpinomyces - (Abstract Only)
Hughes, S.R., Mertens, J.A., Qureshi, N., Cotta, M.A., Bischoff, K.M., Liu, S., Li, X. 2007. Plasmid-based functional proteomic workcell evaluation and characterization of yeast strains with improved growth on xylose expressing Xylanase A(Xyn A) and Celulase F(Cel F) from anaerobic fungi Orpinomyces [abstract]. World Congress on Industrial Biotechnology and Bioprocessing. Seminar 2. p. 19.
Production of Highly Active Lignocellulose-Degrading Enzymes of Anaerobic Fungi by Industrially Relevant Fungi - (Abstract Only)
Li, X., Skory, C.D., Ximenes, E.A., Jordan, D.B., Dien, B.S., Hughes, S.R., Cotta, M.A. 2007. Production of highly active lignocellulose-degrading enzymes of anaerobic fungi by industrially relevant fungi [abstract]. Physiology to Genomics to Fuels.
Fully Automated Molecular Biology Routines on a Plasmid-Based Functional Proteomic Workcell: Evaluation and Characterization of Yeast Strains Optimized for Growth on Xylose and Engineered to Express an Insecticidal Peptide - (Abstract Only)
Hughes, S.R., Li, X., Liu, S., Bischoff, K.M., Mertens, J.A., Qureshi, N., Riedmuller, S., Bartolett, S., Farrelly, P., Panavas, T., Butt, T., Cotta, M.A. 2007. Fully automated molecular biology routines on a plasmid-based functional proteomic workcell: Evaluation and characterization of yeast strains optimized for growth on xylose and engineered to express an insecticidal peptide [abstract]. PEPTALK 2007, Cambridge Healthtech Institute. Talk 83, p. 7.
Fully automated molecular biology: Plasmid-Based Functional Proteomic Workcell Evaluation and Characterization of Yeast Strains with Optimized "Trojan Horse" Amino Acid Scanning Mutational Inserts. - (Abstract Only)
Hughes, S.R., Qureshi, N., Mertens, J.A., Cotta, M.A., Hector, R.E., Bischoff, K.M., Liu, S., Li, X-L., 2007. Fully automated molecular biology: Plasmid-based functional proteomic workcell evaluation and characterization of yeast strains with optimized "Trojan Horse" amino acid scanning mutational inserts [abstract]. PEPTALK 2007. Cambridge Healthtech Institute. Poster 509, p. 4.
Adaptation to an automated platform of algorithmic combinations of advantageous mutations in genes generated using amino acid scanning mutational strategy. - (Abstract Only)
Riedmuller, S., Hughes, S.R., Hector, R.E., Bischoff, K.M., Farrelly, P., Cotta, M.A., Li, X. 2007. Adaptation to an automated platform of algorithmic combinations of advantageous mutations in genes generated using amino acid scanning mutational strategy [abstract]. PEPTALK 2007. Cambridge Healthtech Institute. Seminar 43. p. 4.
Expression of An at-Rich Xylanase Gene from the Anaerobic Fungus Orpinomyces Sp. Strain Pc-2 in and Secretion of the Heterologous Enzyme by Hypocrea Jecorina - (Peer Reviewed Journal)
Li, X., Skory, C.D., Ximenes, E.A., Jordan, D.B., Dien, B.S., Hughes, S.R., Cotta, M.A. 2007. Expression of an AT-rich xylanase gene from the anaerobic fungus Orpinomyces sp. strain PC-2 in and secretion of the heterologous enzyme by Hypocrea jecorina. Applied Microbiology and Biotechnology. 74:1264-1275.
Purification and Characterization of a Family 5 Endoglucanase from a Moderately Thermophilic Strain of Bacillus Licheniformis - (Peer Reviewed Journal)
Bischoff, K.M., Rooney, A.P., Li, X., Liu, S., Hughes, S.R. 2006. Purification and characterization of a family 5 endoglucanase from a moderately thermophilic strain of Bacillus licheniformis. Biotechnology Letters. 28:1761-1765.
Isolation of Xylose-Utilizing Thermophilic Bacteria from Dairy Manure Compost - (Abstract Only)
Bischoff, K.M., Liu, S., Edrington, T.S., Hughes, S.R. 2006. Isolation of xylose-utilizing thermophilic bacteria from dairy manure compost [abstract]. Extremophiles 2006. p. 19. Poster P045.
Production of Acetone Butanol (Ab) from Agricultural Residues Using Clostridium Acetobutylicum in Batch Reactors Coupled with Product Recovery - (Abstract Only)
Qureshi, N., Saha, B.C., Hughes, S.R., Cotta, M.A. 2006. Production of acetone butanol (AB) from agricultural residues using Clostridium acetobutylicum in batch reactors coupled with product recovery [abstract]. Proceedings of the Ninth International Workshop on the Regulation of Metabolism, Genetics, and Development of the Solvent and Acid Forming Clostridia. p. 29.
Functional Proteomic Plasmid-Based Integrated Workcell for High-Throughput Transformation of Bl21 De3 E. Coli for Expression in Vivo with Piromyces Strain Xylose Isomerase - (Abstract Only)
Hughes, S.R., Riedmuller, S.B., Mertens, J.A., Li, X., Bischoff, K.M., Liu, S., Qureshi, N., Cotta, M.A., Skory, C.D., Gorsich, S.W., Farrelly, P.J. 2006. Functional proteomic plasmid-based integrated workcell for high-throughput transformation of BL21 DE3 E. coli for expression in vivo with piromyces strain xylose isomerase [abstract]. Midwest Laboratory Robotics Information Group. p. 2.
High-Throughput Screening of Cellulase F Mutants from Multiplexed Plasmid Sets Using An Automated Plate Assay on a Functional Proteomic Robotic Workcell - (Peer Reviewed Journal)
Hughes, S.R., Riedmuller, S.B., Mertens, J.A., Li, X., Bischoff, K.M., Qureshi, N., Cotta, M.A., Farrelly, P.J. 2006. High-throughput screening of cellulase F mutants from multiplexed plasmid sets using an automated plate assay on a functional proteomic robotic workcell. Proteome Science. 4:10.
Codon Optimization of An A+t Rich Xylanase Gene from the Anaerobic Fungus Orpinomyces Pc-2 for Expression by Trichoderma Reesei - (Abstract Only)
Li, X., Jordan, D.B., Ximenes, E.A., Cotta, M.A., Dien, B.S., Hughes, S.R. 2006. Codon optimization of an A+T rich xylanase gene from the anaerobic fungus Orpinomyces PC-2 for expression by Trichoderma reesei [abstract]. In: Proceedings of the 9th International Workshop on Trichoderma and Gliocladium, April 6-8, 2006, Vienna, Austria. Paper No. T3.
Butanol Production from Corn Fiber Xylan Using Clostridium Acetobutylicum - (Peer Reviewed Journal)
Qureshi, N., Li, X., Hughes, S.R., Saha, B.C., Cotta, M.A. 2006. Butanol production from corn fiber xylan using Clostridium acetobutylicum. Biotechnology Progress. 22:673-680.
Automated Strategy Using a Functional Proteomic Assay to Identify and Isolate Cellulase F Mutants with Improved Activity from Multiplexed Sets of Plasmid - (Abstract Only)
Hughes, S.R., Riedmuller, S., Mertens, J.A., Li, X., Qureshi, N., Farrelly, P., Cotta, M.A. 2006. Automated strategy using a functional proteomic assay to identify and isolate cellulase F mutants with improved activity from multiplexed sets of plasmid [abstract]. PepTalk 2006. p. 10.
Mass Transformation of Plasmid Libraries of Cdna Or Mutagenized Clone Sets into Yeast Or Bacteria Using a Functional Proteomic Robotic Workcell - (Abstract Only)
Hughes, S.R., Riedmuller, S., Li, X., Qureshi, N., Liu, S., Bischoff, K.M., Cotta, M.A., Farrelly, P. 2006. Mass transformation of plasmid libraries of cDNA or mutagenized clone sets into yeast or bacteria using a functional proteomic robotic workcell [abstract]. PepTalk 2006. p. 10.
Plasmid-Based Functional Proteomic Robotic Workcell Process for High-Throughput Screening of Multiplexed Libraries of Mutagenized Clones - (Abstract Only)
Hughes, S.R., Mertens, J.A., Li, X., Bischoff, K.M. 2005. Plasmid-based functional proteomic robotic workcell process for high-throughput screening of multiplexed libraries of mutagenized clones [abstract]. Laboratory Robotics Information Group. p. 1.
Continuous Production of Ethanol in High Productivity Bioreactors Using Genetically Engineered Escherichia Coli Fbr5: Membrane and Fixed Cell Reactors - (Abstract Only)
Qureshi, N., Dien, B.S., Nichols, N.N., Liu, S., Hughes, S.R., Iten, L.B., Saha, B.C., Cotta, M.A. 2005. Continuous production of ethanol in high productivity bioreactors using genetically engineered Escherichia coli FBR5: membrane and fixed cell reactors [extended abstract]. American Institute of Chemical Engineers. Paper No. 589g.
Plasmid-Based Functional Proteomic Robotic Workcell Process for High-Throughput Screening of Multiplexed Libraries of Mutagenized Clones - (Abstract Only)
Hughes, S.R., Riedmuller, S., Mertens, J.A., Li, X., Qureshi, N., Bischoff, K.M., Jordan, D.B., Cotta, M.A., Farrelly, P. 2005. Plasmid-based functional proteomic robotic workcell process for high-throughput screening of multiplexed libraries of mutagenized clones [abstract]. Optimization high-throughput Cultures for Bioprocessing 2005. p. 3.
Functional Proteomic Workcell for High Volume Plasmid Preparations for Repeated in Vitro Protein Expression and High Throughput Screening to Identify Mutant Enyzmes for Use at Low Ph - (Abstract Only)
Hughes, S.R., Riedmuller, S.B., Mertens, J.A., Jordan, D.B., Li, X., Qureshi, N., Cotta, M.A., Farrelly, P.J., Bischoff, K.M. 2005. Functional proteomic workcell for high volume plasmid preparations for repeated in vitro protein expression and high throughput screening to identify mutant enyzmes for use at low pH [abstract]. Optimization High-throughput Cultures for Bioprocessing 2005. 13:3.
Antimicrobial Susceptibility of Bacterial Contaminants from a Wet-Mill Ethanol Plant - (Abstract Only)
Bischoff, K.M., Skinner-Nemec, K., Leathers, T.D., Hughes, S.R. 2005. Antimicrobial susceptibility of bacterial contaminants from a wet-mill ethanol plant [abstract]. Society for Industrial Microbiology. Poster P42.
Characterization of Carboxymethylcellulase Activity from Geobacillus Stearothermophilus - (Abstract Only)
Bischoff, K.M., Li, X., Rooney, A.P., Liu, S., Hughes, S.R. 2005. Characterization of carboxymethylcellulase activity from Geobacillus stearothermophilus [abstract]. Society for Industrial Microbiology. Paper #P38.
Lactobacillus Brevis: a Potential Biocatalyst for Lignocellulosic Biomass to Ethanol - (Abstract Only)
Liu, S., Dien, B.S., Cotta, M.A., Bischoff, K.M., Hughes, S.R. 2005. Lactobacillus brevis: a potential biocatalyst for lignocellulosic biomass to ethanol [abstract]. Society of Industrial Microbiology. Paper #P05.
Development of a Liquid Handler Component for a Plasmid-Based Functional Proteomic Robotic Workcell - (Peer Reviewed Journal)
Hughes, S.R., Riedmuller, S., Mertens, J.A., Li, X., Bischoff, K.M., Cotta, M.A., Farrelly, P. 2005. Development of a liquid handler component for a plasmid-based functional proteomic robotic workcell. Journal of the Association for Laboratory Automation. 10(5):287-300.
Development of a Liquid Handler Component for a Functional Plasmid-Based Proteomic Workcell That Generates Multiplex Samples Expresses in Yeast - (Abstract Only)
Hughes, S.R., Riedmuller, S.B., Bischoff, K.M., Mertens, J.A., Li, X., Cotta, M.A., Farrelly, P.J. 2005. Development of a liquid handler component for a functional plasmid-based proteomic workcell that generates multiplex samples expresses in yeast [abstract]. Association for Laboratory Automation, LabAutomation 2005. Poster WP128.
Energy Efficient Recovery of Butanol from Model Solutions and Fermentation Broth by Adsorption - (Peer Reviewed Journal)
Qureshi, N., Hughes, S.R., Maddox, I.S., Cotta, M.A. 2005. Energy efficient recovery of butanol from model solutions and fermentation broth by adsorption. Bioprocess and Biosystems Engineering. 27(4):215-222.
Modified Liquid Handler Used to Produce High Throughput High Quality Plasmids for Integration into Plasmid-Based Functional Proteomics Workcell - (Abstract Only)
Hughes, S.R., Li, X., Cotta, M.A., Mertens, J.A., Bischoff, K.M., Riedmuller, S., Farrelly, P., Patel, M., Brown, L., Carter, L. 2005. Modified liquid handler used to produce high throughput high quality plasmids for integration into plasmid-based functional proteomics workcell [abstract]. CHI's Annual PEP Talk Meeting, January 10-14, 2005, San Diego, California. Poster 151.
A Plasmid-Based Functional Proteomic Workcell Used to Optimize Yeast for Fuel Ethanol Production - (Abstract Only)
Hughes, S.R., Li, X., Cotta, M.A., Mertens, J.A., Bischoff, K.M., Riedmuller, S., Farrelly, P., Patel, M., Brown, L., Carter, L. 2005. A plasmid-based functional proteomic workcell used to optimize yeast for fuel ethanol production [abstract]. CHI's Annual PEP Talk Meeting, January 10-14, 2005, San Diego, California. p. 3.
A Plasmid-Based Functional Proteomic Workcell Assay Designed to Screen Orpinomyces Cellulase F Nny Mutagenized Libraries in High Throughtput - (Abstract Only)
Hughes, S.R., Li, X., Cotta, M.A., Bischoff, K.M., Riedmuller, S., Farrelly, P. 2004. A plasmid-based functional proteomic workcell assay designed to screen Orpinomyces cellulase F NNY mutagenized libraries in high throughtput [abstract]. 36th Great Lakes Regional American Chemical Society Symposium, October 17-20, 2004, Peoria, Illinois. Poster 361.
A Plasmid-Based Functional Proteomic Workcell Used to Optimize Open Reading Frames and Generate Improved Strains for Commercial Use - (Abstract Only)
Hughes, S.R., Li, X., Cotta, M.A., Bischoff, K.M., Riedmuller, S., Farrelly, P. 2004. A plasmid-based functional proteomic workcell used to optimize open reading frames and generate improved strains for commercial use [abstract]. 36th Great Lakes Regional American Chemical Society Symposium, October 17-20, 2004, Peoria, Illinois. Poster 361.
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