Projects

ADVANCED CONVERSION TECHNOLOGIES FOR SUGARS AND BIOFUELS: SUPERIOR FEEDSTOCKS, PRETREATMENTS, INHIBITOR REMOVAL, AND ENZYMES Appropriated (D)   Accession Number: 417041

PROCESS TECHNOLOGIES FOR PRODUCING BIOFUELS AND COPRODUCTS FROM LIGNOCELLULOSIC FEEDSTOCKS Appropriated (D)   Accession Number: 418680

UNDERSTANDING THE ROLE OF COMMENSAL ANAEROBIC BACTERIA IN ODOR, EMISSIONS, AND ANTIBIOTIC RESISTANCE FROM STORED LIVESTOCK MANURE Appropriated (D)   Accession Number: 420638

MOLECULAR IDENTIFICATION AND PHYLOGENETIC ANALYSES OF UNIQUE MICROORGANISMS FROM SWINE FECES AND MANURE STORAGE PITS Specific Cooperative Agreement (S)   Accession Number: 421302

Publications (Clicking on the reprint icon will take you to the publication reprint.)

Dilute sulfuric acid pretreatment of corn stover for enzymatic hydrolysis and efficient ethanol production by recombinant Escherichia coli FBR5 without detoxification - (Peer Reviewed Journal) - (02-May-13)

Production of ethanol and furfural from corn stover - (Abstract Only)

Saha, B.C., Avci, A., Yoshida, T., Dien, B.S., Kennedy, G.J., Cotta, M.A., Sonomoto, K. 2013. Production of ethanol and furfural from corn stover [abstract]. Americal Chemical Society. Paper No. CELL 293.

Scale-up of wheat straw conversion to fuel ethanol at 100 liter scale - (Abstract Only)

Saha, B.C., Nichols, N.N., Qureshi, N., Kennedy, G.J., Iten, L.B., Cotta, M.A. 2013. Scale-up of wheat straw conversion to fuel ethanol at 100 liter scale [abstract]. Americal Chemical Society. Paper No. CELL 299.

Inhibition of total gas production, methane, hydrogen sulfide, and sulfate-reducing bacteria from in vitro stored swine manure using condensed tannins - (Abstract Only)

Whitehead, T.R., Spence, C., Cotta, M.A. 2013. Inhibition of total gas production, methane, hydrogen sulfide, and sulfate-reducing bacteria from in vitro stored swine manure using condensed tannins [abstract]. Waste to Worth: "Spreading" Science & Solutions.

Combination of borax and quebracho condensed tannins treatment to reduce hydrogen sulfide, ammonia and greenhouse gas emissions from stored swine manure - (Abstract Only)

Yokoyama, M., Whitehead, T.R., Spence, C., Cotta, M.A., Penner, D., Hengemuehle, S., Michael, J. 2013. Combination of borax and quebracho condensed tannins treatment to reduce hydrogen sulfide, ammonia and greenhouse gas emissions from stored swine manure [abstract]. Waste to Worth: "Spreading" Science & Solutions.

Stored swine manure and swine faeces as reservoirs of antibiotic resistance genes - (Peer Reviewed Journal)

Whitehead, T.R., Cotta, M.A. 2013. Stored swine manure and swine faeces as reservoirs of antibiotic resistance genes. Letters in Applied Microbiology. 56:264-267.

Comparison between separate hydrolysis and fermentation and simultaneous saccharification and fermentation of pretreated wheat straw to ethanol by Saccharomyces cerevisiae - (Peer Reviewed Journal) - (23-Dec-12)

Response surface optimization of corn stover pretreatment using dilute phosphoric acid for enzymatic hydrolysis and ethanol production - (Peer Reviewed Journal)

Avci, A., Saha, B.C., Dien, B.S., Kennedy, G.J., Cotta, M.A. 2013. Response surface optimization of corn stover pretreatment using dilute phosphoric acid for enzymatic hydrolysis and ethanol production. Bioresource Technology. 130:603-612.

Hydrothermal pretreatment and enzymatic saccharification of corn stover for efficient ethanol production - (Peer Reviewed Journal)

Saha, B.C., Yoshida, T., Cotta, M.A., Sonomoto, K. 2013. Hydrothermal pretreatment and enzymatic saccharification of corn stover for efficient ethanol production. Industrial Crops and Products. 44:367-372.

Comparative analysis of end point enzymatic digests of arabino-xylan isolated from switchgrass (Panicum virgatum L) of varying maturities using LC-MS^n^ - (Peer Reviewed Journal)

Bowman, M.J., Dien, B.S., O Bryan, P.J., Sarath, G., Cotta, M.A. 2012. Comparative analysis of end point enzymatic digests of arabino-xylan isolated from switchgrass (Panicum virgatum L) of varying maturities using LC-MS^n^. Metabolites. 2(4):959-982.

Inhibition of hydrogen sulfide, methane and total gas production and sulfate-reducing bacteria in in vitro swine manure using condensed quebracho tannins - (Peer Reviewed Journal) - (31-Oct-12)

Effects of chlorophyll-derived efflux pump inhibitor pheophorbide a and pyropheophorbide a on erythromycin resistance of Staphylococcus aureus, Enterococcus faecalis, Salmonella Typhimurium and Escherichia coli - (Abstract Only)

Kraatz, M., Whitehead, T.R., Cotta, M.A. 2012. Effects of chlorophyll-derived efflux pump inhibitor pheophorbide a and pyropheophorbide a on erythromycin resistance of Staphylococcus aureus, Enterococcus faecalis, Salmonella Typhimurium and Escherichia coli. American Public Health Association 140th Annual Meeting and Exposition.

An economic evaluation of biological conversion of wheat straw to butanol (a biofuel) - (Peer Reviewed Journal)

Qureshi, N., Saha, B.C., Cotta, M.A., Singh, V. 2013. An economic evaluation of biological conversion of wheat straw to butanol (a biofuel). Energy Conversion and Management. 65:456-462.

Shaping reactor microbiomes to produce the fuel precursor n-butyrate from pretreated cellulosic hydrolysates - (Peer Reviewed Journal)

Agler, M.T., Werner, J.J., Iten, L.B., Dekker, A., Cotta, M.A., Dien, B.S., Angenent, L.T. 2012. Shaping reactor microbiomes to produce the fuel precursor n-butyrate from pretreated cellulosic hydrolysates. Environmental Science and Technology. 46(18):10229-10238.

Furfural and ethanol production from corn stover by dilute phosphoric acid pretreatment - (Abstract Only)

Avci, A., Saha, B.C., Kennedy, G.J., Cotta, M.A. 2012. Furfural and ethanol production from corn stover by dilute phosphoric acid pretreatment [abstract]. Society for Industrial Microbiology and Biotechnology. Paper No. P68.

Cloning and sequencing of CGTase genes of two Thermoanaerobacter strains - (Abstract Only)

Avci, A., Nichols, N.N., Saha, B.C., Cotta, M.A., Donmez, S. 2012. Cloning and sequencing of CGTase genes of two Thermoanaerobacter strains [abstract]. Society for Industrial Microbiology and Biotechnology. Paper No. P43.

Fermentation technologies for ethanol production from wheat straw by a recombinant bacterium - (Abstract Only)

Saha, B.C., Nichols, N.N., Qureshi, N., Cotta, M.A. 2012. Fermentation technologies for ethanol production from wheat straw by a recombinant bacterium [abstract]. Society for Industrial Microbiology. Paper No. S77.

Two novel species Enterococcus lemanii sp. nov. and Enterococcus eurekensis sp. nov., isolated from a swine-manure storage pit - (Peer Reviewed Journal) - (24-Jul-12)

Analyses of methanogenic archaea populations in swine feces and stored swine manure using 16S rDNA and mcrA PCR and pure culture isolation - (Abstract Only) - (19-Jun-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.

Microbial based pretreatment of corn stover by white rot fungus - (Abstract Only)

Saha, B.C., Cotta, M.A. 2012. Microbial based pretreatment of corn stover by white rot fungus [abstract]. American Society for Microbiology General Meeting. Poster No. 350.

Isolation and characterization of a ß-glucosidase from a Clavispora strain with potential applications in bioethanol production from cellulosic materials - (Peer Reviewed Journal)

Liu, Z., Weber, S.A., Cotta, M.A. 2013. Isolation and characterization of a ß-glucosidase from a Clavispora strain with potential applications in bioethanol production from cellulosic materials. Bioenergy Research. 6:65-74.

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.

Influence of Stenocarpella maydis infected corn on the dry grind ethanol process - (Abstract Only)

Dien, B.S., Wicklow, D.T., Singh, V., Moreau, R.A., Moser, J.K., Cotta, M.A. 2012. Influence of Stenocarpella maydis infected corn on the dry grind ethanol process. 8th Biennial Corn Utilization and Technology Conference.

Novel antibacterial polypeptide laparaxin produced by Lactobacillus paracasei strain NRRL B-50314 via fermentation - (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.

Microbial production of volatile sulphur compounds in the large intestine of pigs fed two different diets - (Peer Reviewed Journal)

Poulsen, H.V., Jensen, B.B., Finster, K., Spence, C., Whitehead, T.R., Cotta, M.A., Canibe, N. 2012. Microbial production of volatile sulphur compounds in the large intestine of pigs fed two different diets. Journal of Applied Microbiology. 113:143-154.

Generation of low cost sugars from wheat straw: Progress, opportunities, and challenges - (Abstract Only)

Saha, B.C., Cotta, M.A. 2012. Generation of low cost sugars from wheat straw: Progress, opportunities, and challenges [abstract]. American Chemical Society. Paper No. BIOT 19.

Simultaneous saccharification and fermentation of pretreated wheat straw to fuel ethanol using a recombinant bacterium for improved efficiency - (Abstract Only)

Saha, B.C., Cotta, M.A. 2012. Simultaneous saccharification and fermentation of pretreated wheat straw to fuel ethanol using a recombinant bacterium for improved efficiency [abstract]. American Chemical Society. Paper No. CELL 286.

Ethanol production from lignocellulosic biomass by recombinant Escherichia coli strain FBR5 - (Review Article)

Saha, B.C., Cotta, M.A. 2012. Ethanol production from lignocellulosic biomass by recombinant Escherichia coli strain FBR5. Bioengineered. 3(4):195-200.

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.

Liquid chromatography-mass spectrometry investigation of enzyme-resistant xylooligosaccharide structures of switchgrass associated with ammonia pretreatment, enzymatic saccharification, and fermentation - (Peer Reviewed Journal)

Bowman, M.J., Dien, B.S., Hector, R.E., Sarath, G., Cotta, M.A. 2012. Liquid chromatography-mass spectrometry investigation of enzyme-resistant xylooligosaccharide structures of switchgrass associated with ammonia pretreatment, enzymatic saccharification, and fermentation. Bioresource Technology. 110:437-447.

Influence of Stenocarpella maydis infected corn on the composition of corn kernel and its conversion into ethanol - (Peer Reviewed Journal)

Dien, B.S., Wicklow, D.T., Singh, V., Moreau, R.A., Moser, J.K., Cotta, M.A. 2012. Influence of Stenocarpella maydis infected corn on the composition of corn kernel and its conversion into ethanol. Cereal Chemistry. 89:15-23.

Transcriptional analysis of Shewanella oneidensis MR-1 with an electrode compared to Fe(III)citrate or oxygen as terminal electron acceptor - (Peer Reviewed Journal)

Rosenbaum, M.A., Bar, H.Y., Beg, Q., Segre, D., Booth, J., Cotta, M.A., Angenent, L.T. 2012. Transcriptional analysis of Shewanella oneidensis MR-1 with an electrode compared to Fe(III)citrate or oxygen as terminal electron acceptor. PLoS ONE. 7(2):e30827. DOI: 10.1371/journal.pone.0030827.

Prolonged conversion of n-butyrate to n-butanol with Clostridium saccharoperbutylacetonicum in a two-stage continuous culture with in-situ product removal - (Peer Reviewed Journal)

Richter, H., Qureshi, N., Heger, S., Dien, B.S., Cotta, M.A., Angenent, L.T. 2012. Prolonged conversion of n-butyrate to n-butanol with Clostridium saccharoperbutylacetonicum in a two-stage continuous culture with in-situ product removal. Biotechnology and Bioengineering. 109:913-921.

A new beta-glucosidase producing yeast for lower-cost cellulosic ethanol production from xylose-extracted corncob residues by simultaneous saccharification and fermentation - (Peer Reviewed Journal)

Liu, Z., Weber, S.A., Cotta, M.A., Li, S. 2012. A new beta-glucosidase producing yeast for lower-cost cellulosic ethanol production from xylose-extracted corncob residues by simultaneous saccharification and fermentation. Bioresource Technology. 104:410-416.

Biochemical processing of reed canarygrass into fuel ethanol - (Peer Reviewed Journal)

Dien, B.S., Casler, M.D., Hector, R.E., Iten, L.B., Nichols, N.N., Mertens, J.A., Cotta, M.A. 2012. Biochemical processing of reed canarygrass into fuel ethanol. International Journal of Low-Carbon Technologies. 7:338-347.

Hydrothermal pretreatment of sugarcane bagasse using response surface methodology improves digestibility and ethanol production by SSF - (Peer Reviewed Journal)

da Cruz, S.H., Dien, B.S., Nichols, N.N., Saha, B.C., Cotta, M.A. 2012. Hydrothermal pretreatment of sugarcane bagasse using response surface methodology improves digestibility and ethanol production by SSF. Journal of Industrial Microbiology and Biotechnology. 39:439-447.

High solid loading hydrolyzate-tolerant strains of Scheffersomyces (Pichia) stipitis exhibiting reduced diauxic lag and higher ethanol productivity - (Abstract Only) - (21-Oct-11)

Effect of cellulosic sugar degradation products (furfural and hydroxymethylfurfural) on acetone-butanol-ethanol (ABE) fermentation using Clostridium beijerinckii P260 - (Peer Reviewed Journal)

Qureshi, N., Bowman, M.J., Saha, B.C., Hector, R.E., Berhow, M.A., Cotta, M.A. 2012. Effect of cellulosic sugar degradation products (furfural and hydroxymethylfurfural) on acetone-butanol-ethanol (ABE) fermentation using Clostridium beijerinckii P260. Journal of Food and Bioproducts Processing. 90:533-540.

Inhibition of total gas production, hydrogen sulfide, and sulfate-reducing bacteria from in vitro stored swine manure using condensed tannins - (Abstract Only)

Whitehead, T.R., Spence, C., Cotta, M.A. 2011. Inhibition of total gas production, hydrogen sulfide, and sulfate-reducing bacteria from in vitro stored swine manure using condensed tannins [abstract]. In: Proceedings of the 2011 Allen D. Leman Swine Conference, September 18-20, 2011, St. Paul, Minnesota. p. 277.

Ethanol production from wheat straw by recombinant Escherichia coli strain FBR5 at high solid loading - (Peer Reviewed Journal)

Saha, B.C., Nichols, N.N., Cotta, M.A. 2011. Ethanol production from wheat straw by recombinant Escherichia coli strain FBR5 at high solid loading. Bioresource Technology. 102(23):10892-10897.

Comparison of separate hydrolysis and fermentation and simultaneous saccharification and fermentation processes for ethanol production from wheat straw by recombinant Escherichia coli strain FBR5 - (Peer Reviewed Journal)

Saha, B.C., Nichols, N.N., Qureshi, N., Cotta, M.A. 2011. Comparison of separate hydrolysis and fermentation and simultaneous saccharification and fermentation processes for ethanol production from wheat straw by recombinant Escherichia coli strain FBR5. Applied Microbiology and Biotechnology. 92:865-874.

Inhibition of total gas production, hydrogen sulfide, and sulfate-reducing bacteria from in vitro stored swine manure using condensed tannins - (Abstract Only) - (10-Aug-11)

Long-term conversion of n-butyrate to n-butanol with Clostridium saccharoperbutylacetonicum using a two-stage continuous culture and in-situ product removal - (Abstract Only)

Richter, H., Qureshi, N., Dien, B.S., Cotta, M.A., Angenent, L.T. 2011. Long-term conversion of n-butyrate to n-butanol with Clostridium saccharoperbutylacetonicum using a two-stage continuous culture and in-situ product removal [abstract]. Society for Industrial Microbiology. Paper No. 19556.

Random UV-C mutagenesis of Scheffersomyces (formerly Pichia) stipitis NRRL Y-7124 to improve anaerobic growth on lignocellulosic sugars - (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 - (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.

Identifying enzyme resistant xylo-oligomers from processing switchgrass to bioethanol - (Abstract Only)

Bowman, M.J., Dien, B.S., Hector, R.E., Sarath, G., Cotta, M.A. 2011. Identifying enzyme resistant xylo-oligomers from processing switchgrass to bioethanol [abstract]. American Society for Mass Spectrometry. p. 66.

Influence of Stenocarpella maydis infected corn on the dry grind ethanol process - (Abstract Only)

Dien, B.S., Wicklow, D.T., Singh, V., Moreau, R.A., Moser, J.K., Cotta, M.A. 2011. Influence of Stenocarpella maydis infected corn on the dry grind ethanol process [abstract]. International Starch Technology Conference. p. 82.

Influence of Stenocarpella maydis infected corn on the composition of corn kernel and its conversion into ethanol - (Peer Reviewed Journal)

Dien, B.S., Wicklow, D.T., Singh, V., Moreau, R.A., Moser, J.K., Cotta, M.A. 2012. Influence of Stenocarpella maydis infected corn on the composition of corn kernel and its conversion into ethanol. Cereal Chemistry. 89(1):15-23.

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.

Combined borax and tannin treatment of stored dairy manure to reduce bacterial populations and hydrogen sulfide emissions - (Abstract Only)

Spence, C., Seymour, K., Whitehead, T.R., Cotta, M.A., Hengemuehle, S., Yokoyama, M. 2011. Combined borax and tannin treatment of stored dairy manure to reduce bacterial populations and hydrogen sulfide emissions [abstract]. American Society for Microbiology. Paper No. 2809.

Optimizing hydrothermal pretreatment of sugarcane bagasse using response surface methodology - (Abstract Only)

Da Cruz, S., Dien, B.S., Nichols, N.N., Saha, B.C., Cotta, M.A. 2011. Optimizing hydrothermal pretreatment of sugarcane bagasse using response surface methodology [abstract]. In: Proceedings of the Sixth Annual Frontiers in Bioenergy: U.S.-Brazil Symposium on Bioenergy Production, May 15-18, 2011, West Lafayette, Indiana. Paper No. 14.

Biological inhibitor abatement and ethanol fermentation of sugars from dilute acid-pretreated rice hulls - (Abstract Only)

Nichols, N.N., Cotta, M.A., Saha, B.C., Frazer, S.E., Kennedy, G.J. 2011. Biological inhibitor abatement and ethanol fermentation of sugars from dilute acid-pretreated rice hulls [abstract]. In: Proceedings of the 33rd Symposium on Biotechnology for Fuels and Chemicals, May 2-5, 2011, Seattle, Washington. Paper No. 1-58.

A new yeast producing beta-glucosidase and tolerant to lignocellulose hydrolysate inhibitors for cellulosic ethanol production using SSF - (Abstract Only)

Liu, Z., Cotta, M.A., Weber, S.A. 2011. A new yeast producing beta-glucosidase and tolerant to lignocellulose hydrolysate inhibitors for cellulosic ethanol production using SSF [abstract]. In: Proceedings of the 33rd Symposium on Biotechnology for Fuels and Chemicals, May 2-5, 2011, Seattle, Washington. Paper No. 12-04.

Dilute-acid pretreated sugarcane bagasse with fungal treatment and fermentable by Saccharomyces cerevisiae - (Abstract Only)

Da Cruz, S.H., Salgado, G.M., Cotta, M.A. 2011. Dilute-acid pretreated sugarcane bagasse with fungal treatment and fermentable by Saccharomyces cerevisiae [abstract]. In: Proceedings of the 33rd Symposium on Biotechnology for Fuels and Chemicals, May 2-5, 2011, Seattle, Washington. Paper No. 8-32.

Dilute ammonium hydroxide pretreatment of reed canary grass and its simultaneous saccharification and fermentation to ethanol using a xylose-fermenting Saccharomyces cerevisiae strain - (Abstract Only)

Dien, B.S., Hector, R.E., Casler, M.D., Cotta, M.A. 2011. Dilute ammonium hydroxide pretreatment of reed canary grass and its simultaneous saccharification and fermentation to ethanol using a xylose-fermenting Saccharomyces cerevisiae strain [abstract]. In: Proceedings of the 33rd Symposium on Biotechnology for Fuels and Chemicals, May 2-5, 2011, Seattle, Washington. Paper No. 4-18.

Switchgrass alkaline pretreatment, enzymatic saccharification, and fermentation with residual oligosaccharide product analysis by mass spectrometry - (Abstract Only)

Bowman, M.J., Dien, B.S., Hector, R.E., Sarath, G., Cotta, M.A. 2011. Switchgrass alkaline pretreatment, enzymatic saccharification, and fermentation with residual oligosaccharide product analysis by mass spectrometry [abstract]. In: Proceedings of the 33rd Symposium on Biotechnology for Fuels and Chemicals, May 2-5, 2011, Seattle, Washington. Paper NO. 10-19.

Butanol productivity enhancers in wheat straw hydrolyzate: employing potential of enhanced reaction rate - (Abstract Only)

Qureshi, N., Bowman, M.J., Hector, R.E., Saha, B.C., Cotta, M.A. 2011. Butanol productivity enhancers in wheat straw hydrolyzate: employing potential of enhanced reaction rate [abstract]. In: Proceedings of the 33rd Symposium on Biotechnology for Fuels and Chemicals, May 2-5, 2011, Seattle, Washington. Paper No. 11-11.

Structure of the catalytic domain of glucuronoyl esterase Cip2 from Hypocrea jecorina - (Peer Reviewed Journal)

Pokkuluri, P.R., Duke, N.E., Wood, S.J., Cotta, M.A., Li, X., Biely, P., Schiffer, M. 2011. Structure of the catalytic domain of glucuronoyl esterase Cip2 from Hypocrea jecorina. Proteins: Structure, Function, and Genetics. 79(8):2588-2592.

Enhancing alfalfa conversion efficiencies for sugar recovery and ethanol production by altering lignin composition - (Peer Reviewed Journal)

Dien, B.S., Miller, D.J., Hector, R.E., Dixon, R.A., Chen, F., McCaslin, M., Risen, P., Sarath, G., Cotta, M.A. 2011. Enhancing alfalfa conversion efficiencies for sugar recovery and ethanol production by altering lignin composition. Bioresource Technology. 102(11):6479-6486.

Selective chemical oxidation and depolymerization of switchgrass (Panicum virgatum L.) xylan with oligosaccharide product analysis by mass spectrometry - (Peer Reviewed Journal)

Bowman, M.J., Dien, B.S., O Bryan, P.J., Sarath, G., Cotta, M.A. 2011. Selective chemical oxidation and depolymerization of switchgrass (Panicum virgatum L.) xylan with oligosaccharide product analysis by mass spectrometry. Rapid Communications in Mass Spectrometry. 25(8):941-950.

Continuous ethanol production from wheat straw hydrolysate by recombinant ethanologenic Escherichia coli strain FBR5 - (Peer Reviewed Journal)

Saha, B.C., Cotta, M.A. 2011. Continuous ethanol production from wheat straw hydrolysate by recombinant ethanologenic Escherichia coli strain FBR5. Applied Microbiology and Biotechnology. 90(2):477-487.

Conversion of starch from dry common beans (Phaseolus vulgaris L.) to ethanol - (Peer Reviewed Journal)

Nichols, N.N., Sutivisedsak, N., Dien, B.S., Biswas, A., Lesch, W.C., Cotta, M.A. 2011. Conversion of starch from dry common beans (Phaseolus vulgaris L.) to ethanol. Industrial Crops and Products. 33(3):644-647.

Process technologies for production of fuel ethanol from lignocellulosic biomass - (Abstract Only)

Saha, B.C., Cotta, M.A. 2010. Process technologies for production of fuel ethanol from lignocellulosic biomass [abstract]. In: Proceedings of 6th International Symposium on Biocatalysis and Biotechnology, November 17-19, 2010, Seoul, Korea. p. 60.

Engineering industrial Saccharomyces cerevisiae strains for xylose fermentation and comparison for switchgrass conversion - (Peer Reviewed Journal)

Hector, R.E., Dien, B.S., Cotta, M.A., Qureshi, N. 2011. Engineering industrial Saccharomyces cerevisiae strains for xylose fermentation and comparison for switchgrass conversion. Journal of Industrial Microbiology and Biotechnology. 38(9):1193-1202.

Effect of dietary inorganic sulfur level on growth performance, fecal composition, and measures of inflammation and sulfate-reducing bacteria in the intestine of growing pigs - (Peer Reviewed Journal)

Kerr, B.J., Weber, T.E., Ziemer, C.J., Spence, C., Cotta, M.A., Whitehead, T.R. 2011. Effect of dietary inorganic sulfur level on growth performance, fecal composition, and measures of inflammation and sulfate-reducing bacteria in the intestine of growing pigs. Journal of Animal Science. 89:426-437.

Biomass to Butanol Conversion: Recent Technologies and Process Economics - (Abstract Only)

Qureshi, N., Saha, B.C., Cotta, M.A., Singh, V. 2010. Biomass to butanol conversion: Recent technologies and process economics [abstract]. In: Proceedings of Clostridium 11 Workshop, October 3-6, 2010, San Diego, California. p. 10.

Shewanella oneidensis in a lactate-fed pure-culture and a glucose-fed co-culture with Lactococcus lactis with an electrode as electron acceptor - (Peer Reviewed Journal)

Rosenbaum, M., Bar, H.Y., Beg, Q., Segre, D., Booth, J., Cotta, M.A., Angenent, L.T. 2011. Shewanella oneidensis in a lactate-fed pure-culture and a glucose-fed co-culture with Lactococcus lactis with an electrode as electron acceptor. Bioresource Technology. 102(3):2623-2628.

Global Potential of Rice Hulls as a Renewable Feedstock for Fuel Ethanol Production - (Abstract Only)

Saha, B.C., Cotta, M.A. 2010. Global potential of rice hulls as a renewable feedstock for fuel ethanol production [abstract]. American Institute of Chemical Engineers. p. 33.

Reprogrammed Glucose Metabolic Pathways of Inhibitor-Tolerant Yeast - (Abstract Only) - (01-Oct-10)

Novel developments in butanol fermentation: Microbial genetics to agricultural substrates, process technology, and downstream processing - (Abstract Only)

Qureshi, N., Liu, S., Saha, B.C., Cotta, M.A. 2010. Novel developments in butanol fermentation: Microbial genetics to agricultural substrates, process technology, and downstream processing [abstract]. In: Proceedings of the 2010 American Institute of Chemical Engineers Midwest Regional Conference, September 30-October 1, 2010, Chicago, Illinois. p. 40.

Use of a microbe to mitigate inhibitors in biomass fermentations - (Abstract Only)

Nichols, N.N., Dien, B.S., Saha, B.C., Cotta, M.A. 2010. Use of a microbe to mitigate inhibitors in biomass fermentations [abstract}. In: Proceedings of the 2010 AIChE Midwest Regional Conference, September 30-October 1, 2010, Chicago, Illinois. p. 34.

Fuel Ethanol Production from Agricultural Residues: Current Status and Future Prospects - (Abstract Only)

Saha, B.C., Qureshi, N., Nichols, N.N., Cotta, M.A. 2010. Fuel ethanol production from agricultural residues: current status and future prospects [abstract]. 14th International Biotechnology Symposium, September 14-18, 2010, Rimini, Italy. Paper No. 1158.

Peptostreptococcus russellii sp. nov., isolated from a swine-manure storage pit - (Peer Reviewed Journal)

Whitehead, T.R., Cotta, M.A., Falsen, E., Moore, E., Lawson, P.A. 2011. Peptostreptococcus russellii sp. nov., isolated from a swine-manure storage pit. International Journal of Systematic and Evolutionary Microbiology. 61(8):1875-1879.

Continuous Production of Ethanol from Wheat Straw Hydrolyzate - (Abstract Only)

Saha, B.C., Cotta, M.A. 2010. Continuous Production of Ethanol from Wheat Straw Hydrolyzate [abstract]. Biotechnology and Biocatalysis. Paper No. 7.

Biological Abatement of Fermentation Inhibitors for Ethanol Production from Bioenergy Crops - (Abstract Only) - (27-Aug-10)

Inhibitory Effects of Condensed Tannins on Sulfate-Reducing Bacteria Populations and Hydrogen Sulfide Production from Swine Manure - (Abstract Only) - (27-Aug-10)

Fuel Ethanol Production from Wheat Straw: Demonstration of Technology at the 100 Liter Scale - (Abstract Only)

Saha, B.C., Nichols, N.N., Qureshi, N., Cotta, M.A. 2010. Fuel Ethanol Production from Wheat Straw: Demonstration of Technology at the 100 Liter Scale [abstract]. Society of Industrial Microbiology. p. 102.

Borax and Octabor Treatment of Stored Swine Manure: Reduction in Hydrogen Sulfide Emissions and Phytotoxicity to Agronomic Crops - (Abstract Only) - (15-Jul-10)

The swine gastrointestinal tract and stored manure: reservoirs of antibiotic resistance? - (Abstract Only)

Whitehead, T.R., Cotta, M.A. 2010. The swine gastrointestinal tract and stored manure: reservoirs of antibiotic resistance?. American Society for Microbiology. Paper No. Z-978.

Borax and octabor treatment of stored swine manure to reduce sulfate reducing bacteria and hydrogen sulfide emissions - (Abstract Only)

Spence, C., Whitehead, T.R., Cotta, M.A., Von Bernuth, R., Hengemuchle, S.M., Penner, D., Yokoyama, M.T. 2010. Borax and octabor treatment of stored swine manure to reduce sulfate reducing bacteria and hydrogen sulfide emissions [abstract]. American Society for Microbiology. Paper No. Q-1484.

Fermentation of Bioenergy Crops Into Ethanol Using Biological Abatement for Removal of Inhibitors - (Peer Reviewed Journal)

Nichols, N.N., Dien, B.S., Cotta, M.A. 2010. Fermentation of Bioenergy Crops Into Ethanol Using Biological Abatement for Removal of Inhibitors. Bioresource Technology. 101(19):7545-7550.

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.

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.

Use of the fungus Coniochaeta ligniaria to remediate fermentation inhibitors from cellulosic sugar streams - (Abstract Only)

Nichols, N.N., Saha, B.C., Dien, B.S., Cotta, M.A. 2010. Use of the fungus Coniochaeta ligniaria to remediate fermentation inhibitors from cellulosic sugar streams [abstract]. Biotechnology for Fuels and Chemicals. Paper No. 11-05.

Chemical depolymerization of switchgrass xylan with oligosaccharide product analysis by HPAEC-PAD and mass spectrometry - (Abstract Only)

Bowman, M.J., Dien, B.S., O Bryan, P.J., Sarath, G., Cotta, M.A. 2010. Chemical depolymerization of switchgrass xylan with oligosaccharide product analysis by HPAEC-PAD and mass spectrometry [abstract]. Biotechnology for Fuels and Chemicals. p. 73.

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 - (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.

Toward Narrowing Fermentation Endproduct Distribution in Undefined Mixed Culture Anaerobic Conversion of Lignocellulosic Corn Fiber to Butyrate - (Abstract Only) - (06-Mar-10)

Conversion of N-butyrate to N-butanol with Continuous Fermentation - (Abstract Only)

Richter, H., Qureshi, N., Cotta, M.A., Angenent, L.T. 2010. Conversion of N-butyrate to N-butanol with Continuous Fermentation [abstract]. In: Proceedings of the Institute of Biological Engineering Meeting Proceedings, March 4-6, 2010, Cambridge, Massachusetts, March 4-6, 2010. p.32.

Oxygen - Enemy or Friend for Microbial Fuel Cell Anode Performance? - (Abstract Only) - (06-Mar-10)

Effect of compositional variability of Distillers' Grains on cellulosic ethanol production - (Peer Reviewed Journal)

Kim, Y., Hendrickson, R., Mosier, N.S., Ladisch, M.R., Bals, B., Balan, V., Dale, B.E., Dien, B.S., Cotta, M.A. 2010. Effect of compositional variability of Distillers' Grains on cellulosic ethanol production. Bioresource Technology. 101(14):5385-5393.

Carbon Dioxide Addition to Microbial Fuel Cell Cathodes Maintains Sustainable Catholyte pH and Improves Anolyte pH, Alkalinity, and Conductivity - (Peer Reviewed Journal)

Fornero, J.J., Rosenbaum, M., Cotta, M.A., Angenent, L.T. 2010. Carbon Dioxide Addition to Microbial Fuel Cell Cathodes Maintains Sustainable Catholyte pH and Improves Anolyte pH, Alkalinity, and Conductivity. Environmental Science and Technology. 44(7):2728-2734.

Production of Butanol (A Biofuel) from Agricultural Residues: Part I - Use of Barley Straw Hydrolysate - (Peer Reviewed Journal)

Qureshi, N., Saha, B.C., Dien, B., Hector, R.E., Cotta, M.A. 2010. Production of Butanol (a Biofuel) from Agricultural Residues: Part I - Use of Barley Straw Hydrolysate. Biomass and Bioenergy. 34(4):559-565.

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.

Reprogrammed glucose metabolic pathways of inhibitor-tolerant yeast - (Book / Chapter)

Liu, Z., Ma, M., Cotta, M.A. 2010. Reprogrammed glucose metabolic pathways of inhibitor-tolerant yeast. In: Berhardt, L.V., editor. Advances in Medicine and Biology. Vol. 9. New York, NY: Nova Science Publishers, Inc. p. 159-186.

Aerated Shewanella oneidensis in Continuously-fed Bioelectrochemical Systems for Power and Hydrogen Production - (Peer Reviewed Journal)

Rosenbaum, M., Cotta, M.A., Angenent, L.T. 2010. Aerated Shewanella oneidensis in Continuously-fed Bioelectrochemical Systems for Power and Hydrogen Production. Biotechnology and Bioengineering. 105(5):880-888.

Comparison of Pretreatment Strategies for Enzymatic Saccharification and Fermentation of Barley Straw to Ethanol - (Peer Reviewed Journal)

Saha, B.C., Cotta, M.A. 2010. Comparison of Pretreatment Strategies for Enzymatic Saccharification and Fermentation of Barley Straw to Ethanol. New Biotechnology. 27(1):10-16.

Investigation of Methanogen Diversity in Stored Swine Manure - (Abstract Only) - (07-Aug-09)

Fuel Ethanol Production from Barley Straw - (Proceedings)

Saha, B.C., Cotta, M.A. 2009. Fuel Ethanol Production from Barley Straw. Proceedings of the United States-Japan Natural Resources Food and Agriculture Panel. p. 139-142.

Increasing Biomass Conversion Efficiencies to Ethanol by Engineering Energy Crops - (Proceedings)

Dien, B.S., Sarath, G., Pedersen, J.F., Funnell-Harris, D.L., Sattler, S.E., Cotta, M.A. 2009. Increasing Biomass Conversion Efficiencies to Ethanol by Engineering Energy Crops. Proceedings of the United States-Japan Natural Resources Food and Agriculture Panel. p. 37-40.

Fuel Ethanol Production from Pretreated Wheat Straw Using a Recombinant Bacterium - (Abstract Only)

Saha, B.C., Nichols, N.N., Qureshi, N., Cotta, M.A. 2009. Fuel Ethanol Production from Pretreated Wheat Straw Using a Recombinant Bacterium [abstract]. Society for Industrial Microbiology. p. 99.

Anaerobic conversion of lignocellulosic corn fiber to butyric acid, a substrate for microbial butanol production - (Abstract Only) - (22-Jul-09)

The Saccharomyces cerevisiae YMR315W Gene Encodes an NADP(H)-Specific Oxidoreductase Regulated by the Transcription Factor Stb5p in Response to NADPH Limitation - (Peer Reviewed Journal)

Hector, R.E., Bowman, M.J., Skory, C.D., Cotta, M.A. 2009. The Saccharomyces cerevisiae YMR315W gene encodes an NADP(H)-specific Oxidoreductase regulated by the transcription factor Stb5p in response to NADPH limitation. New Biotechnology. 26(3/4):171-180.

Efficiencies of Bio-electrocatalytic Production of Hydrogen from Lactate Using Shewanella oneidensis MR-1 - (Abstract Only) - (12-Jun-09)

Ion Exchange Membrane Influence on Ohmic Resistance - (Abstract Only) - (12-Jun-09)

Development of a quantitative real-time PCR assay for detection and enumeration of methanogenic archaea in stored swine manure - (Abstract Only) - (21-May-09)

Use of Coniochaeta ligniaria to detoxify fermentation inhibitors present in cellulosic sugar streams - (Abstract Only)

Nichols, N.N., Dien, B.S., Cotta, M.A. 2009. Use of Coniochaeta ligniaria to detoxify fermentation inhibitors present in cellulosic sugar streams [abstract]. American Society for Microbiology. Paper No. O-055.

Evaluation of engineered xylose-fermenting industrial strains of Saccharomyces cerevisiae for improved ethanol production from lignocellulosic feedstocks - (Abstract Only) - (06-May-09)

Conversion of switchgrass to sugars and ethanol using dilute ammonium hydroxide pretreatment - (Abstract Only) - (06-May-09)

Group specific quantitative real-time polymerase chain reaction (qRT-PCR) analysis of methanogenic archaea in stored swine manure - (Abstract Only) - (22-Apr-09)

Lignocellulosic Biomass Pretreatment: A Key to Its Successful Bioconversion to Fuel Ethanol - (Abstract Only)

Saha, B.C., Cotta, M.A. Lignocellulosic Biomass Pretreatment: A Key to Its Successful Bioconversion to Fuel Ethanol [abstract]. Advanced Biofuels Development Summit. Paper No. 10.

Improved Sugar Conversion and Ethanol Yield for Forage Sorghum (Sorghum bicolor L. Moench) Lines with Reduced Lignin Contents - (Peer Reviewed Journal)

Dien, B.S., Sarath, G., Pedersen, J.F., Sattler, S.E., Chen, H., Funnell-Harris, D.L., Nichols, N.N., Cotta, M.A. 2009. Improved Sugar Conversion and Ethanol Yield for Forage Sorghum (Sorghum bicolor L. Moench) Lines with Reduced Lignin Contents. BioEnergy Research. 2(3):153-164.

Conversion of lower lignin mutants of Sorghum bicolor (L.) to ethanol - (Abstract Only) - (13-Mar-09)

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.

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.

Fuel ethanol production from agricultural residues: current status and future prospects - (Abstract Only)

Saha, B.C., Cotta, M.A. 2008. Fuel ethanol production from agricultural residues: current status and future prospects [abstract]. Journal of Biotechnology. 136(S):S285-S286.

Novel Family of Carbohydrate Esterases, Based on Identification of the Hypocrea jecorina Acetyl Esterase Gene - (Peer Reviewed Journal)

Li, X., Skory, C.D., Cotta, M.A., Puchart, V., Biely, P. 2008. Novel family of carbohydrate esterases, based on identification of the Hypocrea jecorina Acetyl Esterase Gene. Applied and Environmental Microbiology. 74(24):7482-7489.

Agricultural Residues and Energy Crops as Novel Substrates for Butanol Production by Fermentation - (Abstract Only)

Qureshi, N., Saha, B.C., Iten, L.B., Sarath, G., Dien, B.S., Cotta, M.A. 2008. Agricultural Residues and Energy Crops as Novel Substrates for Butanol Production by Fermentation [abstract]. In: Proceedings of 10th International Workshop and Conference on Regulation of Metabolism, Genetics, and Development of Solvent and Acid Forming Clostridia, September 28-October 1, 2008, Holland, The Netherlands. Paper No. 19.

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.

Microbial Fuel Cell Performance with a Pressurized Cathode Chamber - (Peer Reviewed Journal)

Fornero, J.J., Rosenbaum, M., Cotta, M.A., Angenent, L.T. 2008. Microbial Fuel Cell Performance with a Pressurized Cathode Chamber. Environmental Science and Technology. 42(22):8578-8584.

Fuel ethanol production from microwave pretreated wheat straw - (Proceedings)

Saha, B.C., Biswas, A., Cotta, M.A. 2008. Fuel ethanol production from microwave pretreated wheat straw. Proceedings of the United States-Japan Cooperative Program in Natural Resources Food and Agriculture Panel 37th Annual Meeting, August 24-28, 2008, Chicago, Illinois. p. 46-47.

Isolation of skatole-producing bacteria from stored swine manure: individual or consortium? - (Abstract Only) - (22-Aug-08)

Quantitative real-time PCR analyses of sulfate-reducing bacteria in swine manure and the inhibitory effects of condensed tannins - (Abstract Only) - (22-Aug-08)

Fuel ethanol production from pretreated agricultural residues by simultaneous saccharification and fermentation - (Abstract Only)

Saha, B.C., Cotta, M.A. 2008. Fuel ethanol production from pretreated agricultural residues by simultaneous saccharification and fermentation [abstract]. Society of Industrial Microbiology. p. 72.

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.

Detection of methanogenic archaea in stored swine manure by direct mcrA PCR and sequence analysis - (Abstract Only) - (27-Jun-08)

Development and Comparison of SYBR Green Quantitative Real-time PCR Assays for Detection and Enumeration of Sulfate-reducing Bacteria in Stored Swine Manure - (Peer Reviewed Journal)

Spence, C., Whitehead, T.R., Cotta, M.A. 2008. Development and Comparison of SYBR Green Quantitative Real-time PCR Assays for Detection and Enumeration of Sulfate-reducing Bacteria in Stored Swine Manure. Journal of Applied Microbiology. 105(6):2143-2152.

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.

Microwave Pretreatment, Enzymatic Saccharification, and Fermentation of Wheat Straw to Ethanol - (Peer Reviewed Journal)

Saha, B.C., Biswas, A., Cotta, M.A. 2008. Microwave Pretreatment, Enzymatic Saccharification, and Fermentation of Wheat Straw to Ethanol. Journal of Biobased Materials and Bioenergy. 2(3):210-217.

Effects of borax treatment on hydrogen sulfide emissions and sulfate reducing bacteria in stored swine manure - (Abstract Only) - (05-Jun-08)

Synergetic effects of microbial binary cultures on microbial fuel cell performance - (Abstract Only)

Rosenbaum, M., Cotta, M.A., Angenent, L.T. 2008. Synergetic effects of microbial binary cultures on microbial fuel cell performance [abstract]. Microbial Fuel Cells. Paper No. 73.

Robinsonia peoriae Gen. Nov., Sp. Nov., Isolated from a Swine-manure Storage Pit and a Human Clinical Source - (Peer Reviewed Journal)

Cotta, M.A., Whitehead, T.R., Falsen, E., Moore, E., Lawson, P.A. 2009. Robinsoniella peoriensis Gen. Nov., Sp. Nov., Isolated from a Swine-manure Storage Pit and a Human Clinical Source. International Journal of Systematic and Evolutionary Microbiology. 59(1):150-155.

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.

Fuel ethanol production from crop residues and processing byproducts - (Abstract Only)

Saha, B.C., Cotta, M.A. 2008. Fuel ethanol production from crop residues and processing byproducts [abstract]. Second Generation Biofuels Development Summit, Innovations in Biofuels. Paper No. 5.

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.

Energy crops for ethanol: a processing perspective - (Proceedings)

Dien, B.S., Sarath, G., Pedersen, J.F., Vogel, K.P., Jung, H.G., Sattler, S.E., Casler, M.D., Mitchell, R., Cotta, M.A. 2008. Energy crops for ethanol: a processing perspective. In: Proceedings of the 5th International Crops Science Congress, April 13-18, 2008, Jeju Island, Korea. p. 1-5.

Removal of Fermentation Inhibitors from Alkaline Peroxide Pretreated and Enzymatically Hydrolyzed Wheat Straw: Production of Butanol from Hydrolysate Using Clostridium beijerinckii in Batch Reactors - (Peer Reviewed Journal)

Qureshi, N., Saha, B.C., Hector, R.E., Cotta, M.A. 2008. Removal of Fermentation Inhibitors from Alkaline Peroxide Pretreated and Enzymatically Hydrolyzed Wheat Straw: Production of Butanol from Hydrolysate Using Clostridium beijerinckii in Batch Reactors. Biomass and Bioenergy. 32(12):1353-1358.

Evaluation of the Sulfate-Reducing Bacterial Population Associated With Stored Swine Slurry - (Peer Reviewed Journal)

Cook, K.L., Whitehead, T.R., Spence, C., Cotta, M.A. 2008. Evaluation of the sulfate-reducing bacterial population associated with stored swine slurry. Anaerobe. 14:172-180.

Effects of condensed tannins on hydrogen sulfide production and the sulfate-reducing bacterial population of swine manure - (Abstract Only) - (19-Mar-08)

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.

Crystallization and Preliminary X-ray Diffraction Analysis of the Glucuronoyl Esterase Catalytic Domain from Hypocrea jecorina - (Peer Reviewed Journal)

Wood, S.J., Li, X., Cotta, M.A., Biely, P., Duke, N.E., Schiffer, M., Pokkuluri, P.R. 2008. Crystallization and Preliminary X-ray Diffraction Analysis of the Glucuronoyl Esterase Catalytic Domain from Hypocrea jecorina. Acta Crystallographica Section F. 64(4):255-257.

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.

Lime pretreatment, enzymatic saccharification, and fermentation of rice hulls to ethanol - (Peer Reviewed Journal)

Saha, B.C., Cotta, M.A. 2008. Lime pretreatment, enzymatic saccharification, and fermentation of rice hulls to ethanol. Biomass and Bioenergy. 32(10):971-977.

Catabolite pathway for the production of skatole and indole acetic acid by the acetogen Clostridium drakei, Clostridium scatologenes, and swine manure - (Peer Reviewed Journal)

Whitehead, T.R., Price, N.P., Drake, H.L., Cotta, M.A. 2008. Catabolic pathway for the production of skatole and indoleacetic acid by the acetogen Clostridium drakei, Clostridium scatologenes, and swine manure. Applied and Environmental Microbiology. 74(6):1950-1953.

Teamwork in microbial fuels cells: symbiotic conversion of sugars into electricity - (Abstract Only) - (11-Jan-08)

Production of fuel ethanol from wheat straw - (Abstract Only)

Saha, B.C., Cotta, M.A. 2007. Production of fuel ethanol from wheat straw [abstract]. Environment, Industrial, and Applied Microbiology. Paper No. 434.

Bioconversion of lime pretreated wheat straw to fuel ethanol - (Proceedings)

Saha, B.C., Cotta, M.A. 2007. Bioconversion of lime pretreated wheat straw to fuel ethanol. In: Proceedings of the U.S.-Japan Food and Agricultural Panel 36th Annual Meeting, October 21-25, 2007, Tsukuba, Ibaraki, Japan. p. 284-287.

BUTANOL PRODUCTION BY CLOSTRIDIUM BEIJERINCKII. PART I. USE OF ACID AND ENZYME HYDROLYSED CORN FIBER - (Peer Reviewed Journal)

Qureshi, N., Ezeji, T.C., Ebener, J., Dien, B.S., Cotta, M.A., Blaschek, H.P. 2008. Butanol production by Clostridium beijerinckii. Part I. Use of acid and enzyme hydrolysed corn fiber. Bioresource Technology. 99:5915-5922.

Enzyme characterization for hydrolysis of AFEX and liquid hot-water pretreated distillers' grains and their conversion to ethanol - (Peer Reviewed Journal)

Dien, B.S., Ximenes, E.A., O'Bryan, P.J., Moniruzzaman, M., Li, X., Balan, V., Dale, B., Cotta, M.A. 2008. Enzyme characterization for hydrolysis of AFEX and liquid hot-water pretreated distillers' grains and their conversion to ethanol. Bioresource Technology. 99(12):5216-5225.

Composition of corn dry-grind ethanol by-products: DDGS, wet cake, and thin stillage - (Peer Reviewed Journal)

Kim, Y., Mosier, N.S., Hendrickson, R., Ezeji, T., Blaschek, H., Dien, B.S., Cotta, M.A., Dale, B., Ladisch, M.R. 2008. Composition of corn dry-grind ethanol by-products: DDGS, wet cake, and thin stillage. Bioresource Technology. 99(12):5165-5176.

Endo-B-1,4-xylanase inhibitors in shoots of germinating maize - (Abstract Only)

Biely, P., Leathers, T.D., Cziszarova, M., Vrsanska, M., Cotta, M.A. 2007. Endo-B-1,4-xylanase inhibitors in shoots of germinating maize [abstract]. Annual Workshop of the Biotechnical Functionalistation of Renewable Polymeric Materials of COST. Abstract #O, p. 1.4.

Genus IX. Hespellia - (Book / Chapter)

Whitehead, T.R., Lawson, P.A., Cotta, M.A. 2009. Genus IX. Hespellia. In: De Vos, P., Garrity, G.M., Jones, D., Krieg, N.R., Ludwig, W., Rainey, F.A., Schleifer, K.-H., Whitman, W.B., editors. Bergey's Manual of Systematic Bacteriology. Volume 3. 2nd edition. New York, NY: Springer. p. 944-945.

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.

THE CESA (CE3B) CARBOXY-TERMINAL DOMAIN OF RUMINOCOCCUS FLAVEFACIENS 17 HAS GLUCURONOYL ESTERASE ACTIVITY - (Abstract Only) - (03-Aug-07)

Gram-positive bacteria as biocatalysts to convert biomass derived sugars into biofuel and chemicals - (Book / Chapter)

Liu, S., Cotta, M.A. 2007. Gram-positive bacteria as biocatalysts to convert biomass derived sugars into biofuel and chemicals. In: Hou, C.T., Shaw, J.-F., editors. Biocatalysis and Bioenergy. Chapter 14. New Jersey:John Wiley & Sons, Ltd. p. 294-264.

Genus VII. Atopostipes - (Book / Chapter)

Whitehead, T.R., Lawson, P.A., Cotta, M.A. 2009. Genus VII. Atopostipes. In: De Vos, P., Garrity, G.M., Jones, D., Krieg, N.R., Ludwig, W., Rainey, F.A., Schleifer, K.-H., Whitman, W.B., editors. Bergey's Manual of Systematic Bacteriology. Volume 3. 2nd edition. New York, NY: Springer. p. 566-568

Endo-beta-1,4-xylanase inhibitors in leaves and roots of germinated maize - (Peer Reviewed Journal)

Biely, P., Leathers, T.D., Cziszarova, M., Vrsanska, M., Cotta, M.A. 2008. Endo-beta-1,4-xylanase inhibitors in leaves and roots of germinated maize. Journal of Cereal Science. 48(1):27-32.

REDUCTION OF EMISSIONS FROM IN VITRO SWINE MANURE USING MONENSIN - (Abstract Only)

Whitehead, T.R., Cotta, M.A. 2007. Reduction of emissions from in vitro swine manure using monensin [abstract]. Journal of Animal Science. 85(1):92.

BUTANOL PRODUCTION FROM WHEAT STRAW BY SIMULTANEOUS SACCHARIFICATION AND FERMENTATION USING CLOSTRIDIUM BEIJERINCKII: PART II - FED-BATCH FERMENTATION - (Peer Reviewed Journal)

Qureshi, N., Saha, B.C., Cotta, M.A. 2008. Butanol production from wheat straw by simultaneous saccharification and fermentation using Clostridium beijerinckii: Part II - fed-batch fermentation. Biomass and Bioenergy. 32:176-183.

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.

BUTANOL PRODUCTION FROM WHEAT STRAW HYDROLYSATE USING CLOSTRIDIUM BEIJERINCKII - (Peer Reviewed Journal)

Qureshi, N., Saha, B.C., Cotta, M.A. 2007. Butanol production from wheat straw hydrolysate using Clostridium beijerinckii. Bioprocess and Biosystems Engineering. 30:419-427.

ENZYMATIC HYDROLYSIS AND FERMENTATION OF LIME PRETREATED WHEAT STRAW TO ETHANOL - (Peer Reviewed Journal)

Saha, B.C., Cotta, M.A. 2007. Enzymatic hydrolysis and fermentation of lime pretreated wheat straw to ethanol. Journal of Chemical Technology and Biotechnology. 82:913-919.

EVALUATING HERBACEOUS PERENNIALS AS ENERGY CROPS FOR PRODUCTION OF FUEL ETHANOL - (Abstract Only) - (02-May-07)

BIOCONVERSION OF WHEAT STRAW TO BUTANOL (A SUPERIOR LIQUID FUEL): SIMULTANEOUS SACCHARIFICATION, FERMENTATION, AND PRODUCT RECOVERY - (Abstract Only)

Qureshi, N., Saha, B.C., Cotta, M.A. 2007. Bioconversion of wheat straw to butanol (a superior liquid fuel): simultaneous saccharification, fermentation, and product recovery [abstract]. Biotechnology for Fuels and Chemicals. Paper No. 4-16.

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.

ENZYMATIC SACCHARIFICATION AND FERMENTATION OF ALKALINE PEROXIDE PRETREATED RICE HULLS TO ETHANOL - (Peer Reviewed Journal)

Saha, B.C., Cotta, M.A. 2007. Enzymatic saccharification and fermentation of alkaline peroxide pretreated rice hulls to ethanol. Enzyme and Microbial Technology. 41:528-532.

DEVELOPING HERBACEOUS ENERGY CROPS AS FEEDSTOCKS FOR BIOETHANOL PRODUCTION - (Abstract Only)

Dien, B.S., Cotta, M.A., Jung, H.G., Vogel, K.P. 2007. Developing herbaceous energy crops as feedstocks for bioethanol production [abstract]. American Chemical Society. Paper No. Agro-148.

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.

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.

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.

FUEL ETHANOL PRODUCTION FROM CROP RESIDUES: CURRENT STATUS AND FUTURE PROSPECTS - (Abstract Only)

Saha, B.C., Cotta, M.A. 2007. Fuel ethanol production from crop residues: current status and future prospects [abstract]. Prairie Grain Development. Paper No. 1.

PRODUCTION OF D-ARABITOL BY A NEWLY ISOLATED ZYGOSACCHAROMYCES ROUXII - (Peer Reviewed Journal)

Saha, B.C., Sakakibara, Y., Cotta, M.A. 2007. Production of D-arabitol by a newly isolated Zygosaccharomyces rouxii. Journal of Industrial Microbiology and Biotechnology. 34:519-523.

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.

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.

FORAGE ENERGY CROPS AS FEEDSTOCKS FOR PRODUCTION OF FUEL ETHANOL - (Abstract Only)

Cotta, M.A., Dien, B.S., Iten, L.B., Jung, H.G., Lamb, J.F., Vogel, K.P., Mitchell, R., Sarath, G., Casler, M.D., Weimer, P.J. 2006. Forage energy crops as feedstocks for production of fuel ethanol [abstract]. Biocatalysis and Bioenergy. p. 21.

FUEL ETHANOL PRODUCTION FROM AGRICULTURAL RESIDUES AND PROCESSING BYPRODUCTS - (Abstract Only)

Saha, B.C., Cotta, M.A. 2006. Fuel ethanol production from agricultural residues and processing byproducts [abstract]. Biocatalysis and Bioenergy. p. 34.

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.

VAGOCOCCUS ELONGATUS SP. NOV., ISOLATED FROM A SWINE-MANURE STORAGE PIT - (Peer Reviewed Journal)

Lawson, P.A., Falsen, E., Cotta, M.A., Whitehead, T.R. 2007. Vagococcus elongatus sp. nov., isolated from a swine-manure storage pit. International Journal of Systematic and Evolutionary Microbiology. 57:751-754.

ENZYME PRODUCTION BY INDUSTRIALLY RELEVANT FUNGI CULTURED ON CO-PRODUCT FROM CORN DRY GRIND ETHANOL PLANTS - (Peer Reviewed Journal)

Ximenes, E., Dien, B.S., Ladisch, M.R., Mosier, N., Cotta, M.A., Li, X. 2007. Enzyme production by industrially relevant fungi cultured on coproduct from corn dry grind ethanol plants. Applied Biochemistry and Biotechnology. 136-140:171-183.

BETA-D-XYLOSIDASE FROM SELENOMONAS RUMINANTIUM OF GLYCOSIDE HYDROLASE FAMILY 43 - (Peer Reviewed Journal)

Jordan, D.B., Li, X., Dunlap, C.A., Whitehead, T.R., Cotta, M.A. 2007. Beta-D-xylosidase from Selenomonas ruminantium of glycoside hydrolase family 43. Applied Biochemistry and Biotechnology. 136-140:93-104.

HEMICELLULASES FOR MEDIATING BIOMASS SACCHARIFICATION - (Abstract Only) - (13-Oct-06)

HEMICELLULASES FOR MEDIATING BIOMASS SACCHARIFICATION - (Proceedings)

Jordan, D.B., Dien, B.S., Li, X., Cotta, M.A. 2006. Hemicellulases for mediating biomass saccharification. In: Proceedings of Renewable Energy 2006, October 9-13, 2006, Makuhari Messe, Chiba, Japan. p. 1036-1041.

THE SWINE GASTROINTESTINAL TRACT AND STORED MANURE: RICH ECOSYSTEMS FOR ISOLATION OF NOVEL BACTERIA - (Abstract Only)

Whitehead, T.R., Lawson, P.A., Cotta, M.A. 2006. The swine gastrointestinal tract and stored manure: rich ecosystems for isolation of novel bacteria [abstract]. International Microbial Ecology. p. A123.

BIOETHANOL PRODUCTION FROM WHEAT STRAW - (Abstract Only)

Saha, B.C., Cotta, M.A. 2006. Bioethanol production from wheat straw [abstract]. Society of Industrial Microbiology. p. 64.

SWINE FECES AND STORED MANURE: THE SEARCH FOR THE GOOD, THE BAD, AND THE NOT SO BAD - (Abstract Only)

Lawson, P.A., Whitehead, T.R., Cotta, M.A. 2006. Swine feces and stored manure: the search for the good, the bad, and the not so bad [abstract]. Congress of the Anaerobe Society of the Americas. p. 49.

BETA-D-XYLOSIDASE FROM SELENOMONAS RUMINANTIUM OF GLYCOSIDE HYDROLASE FAMILY 43 - (Abstract Only)

Jordan, D.B., Li, X., Dunlap, C.A., Whitehead, T.R., Cotta, M.A. 2006. Beta-D-xylosidase from Selenomonas ruminantium of glycoside hydrolase family 43 [abstract]. Gordon Research Conference. p. 3.

DETERMINATION OF BREAKDOWN PATHWAY OF TRYPTOPHAN AND INDOLE ACETIC ACID TO SKATOLE BY CLOSTRIDIUM DRAKEI AND SWINE MANURE SLURRY - (Abstract Only)

Whitehead, T.R., Price, N.P., Cotta, M.A. 2006. Determination of breakdown pathway of tryptophan and indole acetic acid to skatole by Clostridium drakei and swine manure slurry [abstract]. Reproduction Nutrition Development. 46(S60):113.

TOWARDS THE DEVELOPMENT OF A PROCESS TECHNOLOGY FOR MAKING XYLITOL FROM GLUCOSE: OPTIMIZATION OF D-ARABITOL PRODUCTION FROM GLUCOSE BY A NEWLY ISOLATED ZYGOSACCHAROMYCES ROUXII - (Abstract Only)

Saha, B.C., Sakakibara, Y., Cotta, M.A. 2006. Towards the development of a process technology for making xylitol from glucose: optimization of D-arabitol production from glucose by a newly isolated Zygosaccharomyces rouxii [abstract]. International Specialised Symposium on Yeasts. p. 145.

PRETREATMENT AND HYDROLYSIS OF DISTILLER'S GRAINS TO FERMENTABLE SUGARS: AN INTEGRATED APPROACH BY THE MIDWEST CONSORTIUM FOR SUSTAINABLE BIOBASED PRODUCTS AND ENERGY - (Abstract Only)

Cotta, M.A., Dien, B.S., Li, X., Ladisch, M., Mosier, N., Tyner, W., Woodson, R., Blaschek, H., Dale, B., Shanks, B., Verkade, J. 2006. Pretreatment and hydrolysis of distiller's grains to fermentable sugars: an integrated approach by the Midwest Consortium for sustainable biobased products and energy [abstract]. Corn Utilization. Paper No. 24.

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.

SCREENING OF THE SUBSTRATE PROPERTIES OF MICROORGANISMS FOR BIOSENSOR DETECTION OF OLIGOSACCHARIDES - (Abstract Only)

Kitova, A.E., Reshetilov, A.N., Leathers, T.D., Cotta, M.A. 2006. Screening of the substrate properties of microorganisms for biosensor detection of oligosaccharides [abstract]. Biosensors 2006. Paper No. P40.

AN OVERVIEW OF RECENT ADVANCEMENTS IN LIGNOCELLULOSE TO ETHANOL CONVERSION TECHNOLOGY - (Abstract Only)

Dien, B.S., Nichols, N.N., Li, X., Cotta, M.A. 2006. An overview of recent advancements in lignocellulose to ethanol conversion technology [abstract]. International Conference on Bioenergy. p. 8.

RESEARCH CHALLENGES AND OPPORTUNITIES FOR CELLULOSE CONVERSION TECHNOLOGY IN A DRY MILL PATHWAY - (Abstract Only)

Ladisch, M., Tyner, W., Mosier, N., Cotta, M.A., Dien, B.S., Blaschek, H., Dale, B., Shanks, B., Petersen, G. 2006. Research challenges and opportunities for cellulose conversion technology in a dry mill pathway [abstract]. Biotechnology for Fuels and Chemicals. p. 48.

BETA-D-XYLOSIDASE FROM SELENOMONAS RUMINANTIUM OF GLYCOSIDE HYDROLASE FAMILY 43 - (Abstract Only)

Jordan, D.B., Li, X., Dunlap, C.A., Whitehead, T.R., Cotta, M.A. 2006. Beta-D-xylosidase from Selenomonas ruminantium of glycoside hydrolase family 43 [abstract]. Biotechnology for Fuels and Chemicals. p.93

ENZYME PRODUCTION BY INDUSTRIALLY RELEVANT FUNGI GROWING ON FEED CO-PRODUCT FROM DRY MILL ETHANOL PLANTS - (Abstract Only)

Ximenes, E.A., Dien, B.S., Ladisch, M.R., Mosier, N., Cotta, M.A., Li, X. 2006. Enzyme production by industrially relevant fungi growing on feed co-product from dry mill ethanol plants [abstract]. Biotechnology for Fuels and Chemicals. p. 107.

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.

DEVELOPMENT OF FORAGE CROPS AS FEEDSTOCKS FOR PRODUCTION OF FUEL ETHANOL - (Abstract Only)

Cotta, M.A., Dien, B.S., Jung, H.G., Vogel, K.P., Casler, M.D., Lamb, J.F., Weimer, P.J., Iten, L.B., Mitchell, R., Sarath, G. 2006. Development of forage crops as feedstocks for production of fuel ethanol [abstract]. International Conference on Bioenergy. p. I-5.

ENZYMATIC SACCHARIFICATION OF HOT-WATER PRETREATED CORN FIBER FOR PRODUCTION OF MONOSACCHARIDES - (Peer Reviewed Journal)

Dien, B.S., Li, X., Iten, L.B., Jordan, D.B., Nichols, N.N., O Bryan, P.J., Cotta, M.A. 2006. Enzymatic saccharification of hot-water pretreated corn fiber for production of monosaccharides. Enzyme and Microbial Technology. 39:1137-1144.

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.

ENDO-B-1,4-XYLANASE INHIBITORS IN LEAVES AND ROOTS OF GERMINATING MAIZE - (Abstract Only)

Biely, P., Leathers, T.D., Cotta, M.A. 2005. Endo-b-1,4-xylanase inhibitors in leaves and roots of germinating maize [abstract]. Pacifichem Symposium. Program Number 449.

ETHANOL PRODUCTION FROM ALKALINE PEROXIDE PRETREATED ENZYMATICALLY SACCHARIFIED WHEAT STRAW - (Peer Reviewed Journal)

Saha, B.C., Cotta, M.A. 2006. Ethanol production from alkaline peroxide pretreated enzymatically saccharified wheat straw. Biotechnology Progress. 22:449-453.

HETEROLOGOUS PRODUCTION BY TRICHODERMA REESEI OF A XYLANASE OF THE ANAEROBIC FUNGUS ORPINOMYCES PC-2 - (Abstract Only) - (09-Nov-05)

CONTINUOUS PRODUCTION OF ETHANOL IN HIGH PRODUCTIVITY BIOREACTORS USING ESCHERICHIA COLI FBR5: MEMBRANE AND FIXED CELL REACTORS - (Abstract Only)

Qureshi, N., Dien, B.S., Nichols, N.N., Liu, S., Iten, L.B., Saha, B.C., Cotta, M.A. 2005. Continuous production of ethanol in high productivity bioreactors using Escherichia coli FBR5: membrane and fixed cell reactors [abstract]. American Institute of Chemical Engineers. Paper No. 589g.

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.

ALKALINE PEROXIDE PRETREATMENT, ENZYMATIC SACCHARIFICATION AND FERMENTATION OF WHEAT STRAW TO ETHANOL - (Proceedings)

Saha, B.C., Cotta, M.A. 2005. Alkaline peroxide pretreatment, enzymatic saccharification and fermentation of wheat straw to ethanol. In: Proceedings of the 34th Meeting of the United States-Japan Cooperative Program in Natural Resources (UJNR) Food and Agriculture Panel, October 23-29, 2005, Susoni, Shizuoka, Japan. p. 168-172.

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.

FUEL ETHANOL PRODUCTION FROM LIGNOCELLULOSE - (Abstract Only)

Saha, B.C., Cotta, M.A. 2005. Fuel ethanol production from lignocellulose [abstract]. Society of Industrial Microbiology. p. 74.

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.

ETHANOL FERMENTATION OF SUGARS IN CORN STOVER DILUTE ACID HYDROLYSATES - (Abstract Only)

Nichols, N.N., Dien, B.S., Cotta, M.A. 2005. Ethanol fermentation of sugars in corn stover dilute acid hydrolysates [abstract]. Society of Industrial Microbiology. p. 85.

GENETICALLY ENGINEERED ESCHERICHIA COLI FOR ETHANOL PRODUCTION FROM XYLOSE: SUBSTRATE AND PRODUCT INHIBITION AND KINETIC PARAMETERS - (Peer Reviewed Journal)

Qureshi, N., Dien, B.S., Nichols, N.N., Saha, B.C., Cotta, M.A. 2006. Genetically engineered Escherichia coli for ethanol production from xylose: substrate and product inhibition and kinetic parameters. Institution of Chemical Engineers Transactions. 84(2):114-122.

BACTEROIDES COPROSUIS SP. NOV., ISOLATED FROM SWINE MANURE STORAGE PITS - (Peer Reviewed Journal)

Whitehead, T.R., Cotta, M.A., Collins, M.D., Falsen, E., Lawson, P.A. 2005. Bacteroides coprosuis sp. nov., isolated from swine-manure storage pits. International Journal of Systematic and Evolutionary Microbiology. 55:2515-2518.

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.

USE OF FIELD PEA STARCH AS A FEEDSTOCK FOR ETHANOL FERMENTATION - (Abstract Only)

Nichols, N.N., Dien, B.S., Wu, V., Cotta, M.A. 2005. Use of field pea starch as a feedstock for ethanol fermentation [abstract]. International Starch Technology. p. 96.

ENZYMATIC SACCHARIFICATION OF PRETREATED CORN FIBER FOR PRODUCTION OF SUGARS - (Abstract Only)

Dien, B.S., Li, X., Jordan, D.B., Nichols, N.N., Iten, L.B., Cotta, M.A. 2005. Enzymatic saccharification of pretreated corn fiber for production of sugars [abstract]. International Starch Technology. p. 90.

THE CORN ETHANOL INDUSTRY - (Book / Chapter)

Nichols, N.N., Dien, B.S., Bothast, R.J., Cotta, M.A. 2006. The corn ethanol industry. In: Minteer, S., editor. Alcoholic Fuels. Boca Raton, FL: CRS Press. p. 59-78.

METABOLIC ENGINEERING OF A LACTOBACILLUS PLANTARUM DOUBLE LDH KNOCKOUT STRAIN FOR ENHANCED ETHANOL PRODUCTION - (Peer Reviewed Journal)

Liu, S., Nichols, N.N., Dien, B.S., Cotta, M.A. 2006. Metabolic engineering of a Lactobacillus plantarum double LDH knockout strain for enhanced ethanol production. Journal of Industrial Microbiology and Biotechnology. 33(1):1-7.

HYDROLYSIS AND FERMENTATION OF PERICARP AND ENDOSPERM FIBER RECOVERED FROM ENZYMATIC CORN DRY GRIND PROCESS - (Peer Reviewed Journal)

Dien, B.S., Johnston, D., Hicks, K.B., Cotta, M.A., Singh, V. 2005. Hydrolysis and fermentation of pericarp and endosperm fibers recovered from enzymatic corn dry-grind process. Cereal Chemistry. 82(5):616-620.

ETHANOL FERMENTATION OF STARCH FROM FIELD PEAS - (Peer Reviewed Journal)

Nichols, N.N., Dien, B.S., Wu, Y., Cotta, M.A. 2005. Ethanol fermentation of starch from field peas. Cereal Chemistry. 82(5):554-558.

ENZYMATIC SACCHARIFICATION OF PRETREATED CORN FIBER FOR PRODUCTION OF SUGARS - (Abstract Only)

Dien, B.S., Li, X., Cotta, M.A. 2005. Enzymatic saccharification of pretreated corn fiber for production of sugars [abstract]. Biotechnology for Fuels and Chemicals. Paper No. B-36.

PRODUCTION OF ACETONE BUTANOL FROM CORN FIBER XYLAN USING CLOSTRIDIUM BEIJERINCKII P260 - (Abstract Only)

Qureshi, N., Li, X., Saha, B.C., Cotta, M.A. 2005. Production of acetone butanol from corn fiber xylan using Clostridium beijerinckii P260 [abstract]. Biotechnology for Fuels and Chemicals Symposium. p. 87.

ETHANOL FERMENTATION BY OVEREXPRESSING A GRAM-POSITIVE PDC GENE IN LACTOBACILLUS PLANTARUM STRAIN TF103 - (Abstract Only)

Liu, S., Nichols, N.N., Dien, B.S., Cotta, M.A. 2005. Ethanol fermentation by overexpressing a Gram-positive PDC gene in Lactobacillus plantarum strain TF103 [abstract]. Biotechnology for Fuels and Chemicals Symposium Proceedings, May 1-4, 2005, Denver, Colorado. p. 158.

DILUTE ACID PRETREATMENT, ENZYMATIC SACCHARIFICATION AND FERMENTATION OF WHEAT STRAW TO FUEL ETHANOL - (Peer Reviewed Journal)

Saha, B.C., Iten, L.B., Cotta, M.A., Wu, Y. 2005. Dilute acid pretreatment, enzymatic saccharification and fermentation of wheat straw to fuel ethanol. Process Biochemistry. 40:3693-3700.

MICROBIAL PRODUCTION OF BUTANOL: PRODUCT RECOVERY BY EXTRACTION - (Abstract Only)

Karcher, P., Ezeji, T.C., Qureshi, N., Blaschek, H.P., Cotta, M.A. 2005. Microbial production of butanol: product recovery by extraction [abstract]. International Conference on Microbial Diversity. p. 265.

A MANNANASE, MANA, OF THE POLYCENTRIC ANAEROBIC FUNGUS ORPINOMYCES SP. STRAIN PC-2 HAS CARBOHYDRATE BINDING AND DOCKING MODULES - (Peer Reviewed Journal)

Ximenes, E.A., Chen, H., Kataeva, I.A., Cotta, M.A., Felix, C.R., Ljungdahl, L.G., Li, X. 2005. A mannanase, ManA, of the polycentric anaerobic fungus Orpinomyces sp. strain PC-2 has carbohydrate binding and docking modules. Canadian Journal of Microbiology. 51:559-568.

FUNCTIONAL EXPRESSION OF BACTERIAL ZYMOBACTER PALMAE PYRUVATE DECARBOXYLASE GENE IN LACTIC ACID BACTERIA - (Peer Reviewed Journal)

Liu, S., Dien, B.S., Cotta, M.A. 2005. Functional expression of bacterial Zymobacter palmae pyruvate decarboxylase gene in lactic acid bacteria. Current Microbiology. 50:1-6.

SUBSTRATE SPECIFICITIES OF TWO GLYCOSIDE HYDROLASE FAMILY 11 XYLANASES - (Abstract Only)

Li, X., Jordan, D.B., Cotta, M.A. 2005. Substrate specificities of two glycoside hydrolase family 11 xylanases [abstract]. American Chemical Society. Paper No. 066.

REVIEW OF PROCESS FOR PRODUCING CORN FIBER OIL AND ETHANOL FROM "QUICK FIBER" - (Review Article)

Dien, B.S., Nagle, N., Singh, V., Moreau, R.A., Tucker, M.P., Nichols, N.N., Johnston, D., Cotta, M.A., Hicks, K.B., Nguyen, Q., Bothast, R.J. 2005. Review of process for producing corn fiber oil and ethanol from "Quick Fiber." International Sugar Journal. 107(1275):187-191.

DILUTE ACID PRETREATMENT, ENZYMATIC SACCHARIFICATION, AND FERMENTATION OF RICE HULLS TO FUEL ETHANOL - (Peer Reviewed Journal)

Saha, B.C., Iten, L.B., Cotta, M.A., Wu, Y. 2005. Dilute acid pretreatment, enzymatic saccharification, and fermentation of rice hulls to fuel ethanol. Biotechnology Progress. 21:816-822.

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.

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.

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.

PROFILE OF ENZYME PRODUCTION OF TRICHODERMA REESEI GROWN ON CORN FIBER FRACTIONS - (Peer Reviewed Journal)

Li, X., Dien, B.S., Cotta, M.A., Wu, Y., Saha, B.C. 2005. Profile of enzyme production of Trichoderma reesei grown on corn fiber fractions. Applied Biochemistry and Biotechnology. 121-124:321-334.

RICE HULL AS SUBSTRATE FOR PRODUCTION OF FUEL ETHANOL - (Proceedings)

Saha, B.C., Iten, L.B., Cotta, M.A., Wu, Y. 2004. Rice hull as substrate for production of fuel ethanol. In: Cherry, J.P., Pavlath, A.E., editors. Proceedings of the 33rd Annual Meeting of the United States-Japan Cooperative Program in Natural Resources (UJNR), December 11-18, 2004, Honolulu, Hawaii. p. 181-185.

A NOVEL BIOLOGICAL PROCESS TO CONVERT RENEWABLE BIOMASS TO ACETONE AND BUTANOL (AB) - (Abstract Only)

Qureshi, N., Ezeji, T.C., Blaschek, H.P., Cotta, M.A. 2004. A novel biological process to convert renewable biomass to acetone and butanol (AB) [abstract]. American Institute of Chemical Engineers Annual Meeting. Paper No. 29d.

A NOVEL BIOLOGICAL PROCESS TO CONVERT RENEWABLE BIOMASS TO ACETONE AND BUTANOL (AB) - (Abstract Only)

Qureshi, N., Ezeji, T.C., Blaschek, H.P., Cotta, M.A. 2004. A novel biological process to convert renewable biomass to acetone and butanol (AB) [abstract]. American Institute of Chemical Engineers. Paper No. 29d.

CLONING, EXPRESSION, PURIFICATION, AND ANALYSIS OF MANNITOL DEHYDROGENASE GENE MTLK FROM LACTOBACILLUS BREVIS - (Peer Reviewed Journal)

Liu, S., Saha, B.C., Cotta, M.A. 2005. Cloning, expression, purification, and analysis of mannitol dehydrogenase gene mtlK from Lactobacillus brevis. Applied Biochemistry and Biotechnology. 121-124:391-402.

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.

ADVANCES ON ENZYMATIC SACCHARIFICATION OF LIGNOCELLULOSIC BIOMASS - (Abstract Only)

Li, X., Jordan, D.B., Dien, B.S., Cotta, M.A., Kane, P.M. 2004. Advances on enzymatic saccharification of lignocellulosic biomass [abstract]. Great Lakes Regional American Chemical Society. Paper No. 04-035.

RECOMBINANT BIOCATALYSTS FOR CONVERTING SUGAR MIXTURES TO LACTIC ACID - (Abstract Only)

Dien, B.S., Whitehead, T.R., Nichols, N.N., Skory, C.D., Cotta, M.A. 2004. Recombinant biocatalysts for converting sugar mixtures to lactic acid [abstract]. Great Lakes Regional American Chemical Society Symposium. Paper No. 40.

ADSORBED CELL DYNAMIC BIOFILM REACTOR FOR ETHANOL PRODUCTION FROM XYLOSE AND CORN FIBER HYDROLYSATE - (Abstract Only)

Qureshi, N., Brining, H.R., Iten, L.B., Dien, B.S., Nichols, N.N., Saha, B.C., Cotta, M.A. 2004. Adsorbed cell dynamic biofilm reactor for ethanol production from xylose and corn fiber hydrolysate [abstract]. Great Lakes Regional American Chemical Society Symposium. p. 179.

ISOLATION AND IDENTIFICATION OF SKATOLE-PRODUCING BACTERIA FROM STORED SWINE MANURE - (Abstract Only) - (27-Aug-04)

IDENTIFICATION OF SULFATE-REDUCING BACTERIA FROM STORED SWINE MANURE BY PURE CULTURE ISOLATION AND DIRECT DSRA PCR - (Abstract Only)

Whitehead, T.R., Cook, K.L., Cotta, M.A. 2004. Identification of sulfate-reducing bacteria from stored swine manure by pure culture isolation and direct dsra pcr [abstract]. Microbial Ecology International Symposium. Paper No. 228.

DETECTION OF SULFATE REDUCING BACTERIA IN STORED SWINE MANURE USING QUANTITATIVE, REAL-TIME PCR ANALYSIS - (Abstract Only)

Cook, K.L., Whitehead, T.R., Cotta, M.A. 2004. Detection of sulfate reducing bacteria in stored swine manure using quantitative, real-time pcr analysis [abstract]. Microbial Ecology International Symposium. Paper No. 226.

A COMPARISON BETWEEN CONVERSION OF PERICARP AND ENDOSPERM FIBER FROM CORN INTO ETHANOL - (Proceedings)

Singh, V., Dien, B.S., Johnston, D., Hicks, K.B., Cotta, M.A. 2004. A comparison between conversion of pericarp and endosperm fiber from corn into ethanol. Proceedings of ASAE Annual International Meeting. p. 1-15.

FUEL ETHANOL PRODUCTION FROM WHEAT STRAW: CURRENT STATUS AND TECHNICAL PROSPECTS - (Proceedings)

Saha, B.C., Iten, L.B., Cotta, M.A., Wu, Y. 2004. Fuel ethanol production from wheat straw: current status and technical prospects. In: Van Swaaij, W.P.M., Fjallstrom, T., Helm, P., Grassi, A., editors. Proceedings of the 2nd World Conference on Biomass for Energy, Industry, and Climate Protection, May 10-14, 2004, Rome, Italy, p. 1481-1483.

PURE CULTURE AND PCR ANALYSES OF SULFATE-REDUCING BACTERIA FROM SWINE FECES AND STORED SWINE MANURE - (Abstract Only)

Whitehead, T.R., Cook, K.L., Cotta, M.A. 2004. Pure culture and pcr analyses of sulfate-reducing bacteria from swine feces and stored swine manure [abstract]. Reproduction Nutrition Development. 44(1):S32.

VARIABILITY IN THE CONCENTRATION OF SULFATE-REDUCING BACTERIA IN SWINE MANURE AND FECES AS DETERMINED USING A REAL-TIME PCR ASSAY - (Abstract Only)

Cook, K.L., Cotta, M.A., Whitehead, T.R. 2004. Variability in the concentration of sulfate-reducing bacteria in swine manure and feces as determined using a real-time PCR assay [abstract]. Reproduction Nutrition Development. 44(1):S6.

DEVELOPMENT OF A REAL-TIME PCR ASSAY FOR DETECTION OF SULFATE-REDUCING BACTERIA IN STORED SWINE MANURE AND SWINE FECES - (Abstract Only)

Cook, K.L., Whitehead, T.R., Cotta, M.A. 2004. Development of a real-time PCR assay for detection of sulfate-reducing bacteria in stored swine manure and swine feces [abstract]. American Society for Microbiology. Paper No. Q-093.

EXPRESSION ANALYSIS OF PYRUVATE DECARBOXYLASE GENES FROM ZYMOBACTER PALMAE AND SARCINA VENTRICULI IN GRAM-POSITIVE LACTIC ACID BACTERIA - (Abstract Only)

Liu, S., Nichols, N.N., Dien, B.S., Cotta, M.A. 2004. Expression analysis of pyruvate decarboxylase genes from Zymobacter palmae and Sarcina ventriculi in Gram-positive lactic acid bacteria [abstract]. American Society for Microbiology. Paper No. O-099.

BACTERIAL BIOSENSORS. POTENTIAL APPLICATIONS IN BIOTECHNOLOGY AND ECOLOGICAL MONITORING - (Abstract Only)

Reshetilov, A.N., Leathers, T.D., Cotta, M.A. 2004. Bacterial biosensors, potential applications in biotechnology and ecological monitoring [abstract]. Biosensors World Congress. Paper No. BS272.

ENERGY REQUIREMENT FOR BUTANOL RECOVERY FROM FERMENTATION BROTH USING ADSORPTION AS AN ALTERNATIVE TECHNIQUE - (Abstract Only)

Qureshi, N., Cotta, M.A. 2004. Energy requirement for butanol recovery from fermentation broth using adsorption as an alternative technique [abstract]. Biotechnology for Fuels and Chemicals. Paper No. 3-12.

GROWTH OF AND ENZYME PRODUCTION BY TRICHODERMA REESEI ON CORN FIBER FRACTIONS - (Abstract Only)

Li, X., Dien, B.S., Cotta, M.A. 2004. Growth of and enzyme production by Trichoderma reesei on corn fiber fractions [abstract]. Biotechnology For Fuels And Chemicals. p. 25.

CLONING, EXPRESSION, PURIFICATION, AND ANALYSIS OF MANNITOL DEHYDROGENASE OF MTLD AND MTLK GENES FROM LACTOBACILLUS PLANTARUM AND LACTOBACILLUS BREVIS - (Abstract Only)

Liu, S., Saha, B.C., Cotta, M.A. 2004. Cloning, expression, purification, and analysis of mannitol dehydrogenase of mtlD and mtlK genes from Lactobacillus plantarum and Lactobacillus brevis [abstract]. Biotechnology for Fuels and Chemicals. Paper No. 2-24.

GENETICALLY ENGINEERED ESCHERICHIA COLI FOR ETHANOL PRODUCTION FROM PENTOSE SUGARS: SUBSTRATE AND PRODUCT INHIBITION AND KINETIC PARAMETERS - (Abstract Only)

Qureshi, N., Dien, B.S., Nichols, N.N., Cotta, M.A. 2004. Genetically engineered Escherichia coli for ethanol production from pentose sugars: substrate and product inhibition and kinetic parameters [abstract]. Biotechnology for Fuels and Chemicals. Paper No. 5-23.

ENGINEERING KLEBSIELLA OXYTOCA FOR PRODUCTION OF LACTIC ACID FROM HEXOSE AND PENTOSE - (Abstract Only)

Dien, B.S., Whitehead, T.R., Nichols, N.N., Cotta, M.A. 2004. Engineering klebsiella oxytoca for production of lactic acid from hexose and pentose [abstract]. Biotechnology for Fuels and Chemicals. Paper No. 2-08.

GENETIC ENGINEERING OF LACTIC ACID BACTERIA TOWARD FERMENTATIVE PRODUCTION OF ETHANOL - (Abstract Only)

Liu, S., Cotta, M.A. 2004. Genetic engineering of lactic acid bacteria toward fermentative production of ethanol [abstract]. American Society for Microbiology. p. 29.

APPLICATION OF GROUP SPECIFIC AMPLIFIED RDNA RESTRICTION ANALYSIS TO CHARACTERIZE SWINE FECAL AND MANURE STORAGE PIT SAMPLES - (Peer Reviewed Journal)

Ziemer, C.J., Cotta, M.A., Whitehead, T.R. 2004. Application of group specific amplified rDNA restriction analysis to characterize swine fecal and manure storage pit samples. Anaerobe. 10:217-227.

ATOPOSTIPES SUICLOACALE GEN. NOV., SP. NOV., ISOLATED FROM AN UNDERGROUND SWINE MANURE STORAGE PIT - (Peer Reviewed Journal)

Cotta, M.A., Whitehead, T.R., Collins, M.D., Lawson, P.A. 2004. Atopostipes suicloacale gen. nov., sp. nov., isolated from an underground swine manure storage pit. Anaerobe. 10(3):191-195.

FUEL ETHANOL PRODUCTION FROM WHEAT STRAW: CURRENT STATUS AND TECHNICAL PROSPECTS - (Abstract Only)

Saha, B.C., Iten, L.B., Cotta, M.A., Wu, Y. 2004. Fuel ethanol production from wheat straw: current status and technical prospects [abstract]. Second World Conference and Technology Exhibition on Biomass for Energy, Industry, and Climate Protection. Paper No. OC2.5.

FUEL ETHANOL PRODUCTION FROM RICE HULL - (Abstract Only)

Saha, B.C., Iten, L.B., Cotta, M.A., Wu, Y. 2004. Fuel ethanol production from rice hull [abstract]. American Chemical Society. Paper No. BI0T 101.

AN ETHANOLOGENIC YEAST EXHIBITING UNUSUAL METABOLISM IN THE FERMENTATION OF LIGNOCELLULOSIC HEXOSE SUGARS - (Peer Reviewed Journal)

Keating, J.D., Robinson, J., Cotta, M.A., Saddler, J.N., Mansfield, S.D. 2004. An ethanologenic yeast exhibiting unusual metabolism in the fermentation of lignocellulosic hexose sugars. Journal of Industrial Microbiology and Biotechnology. 31:235-244.

FERMENTATION OF HEXOSE AND PENTOSE SUGAR MIXTURES TO LACTIC ACID BY RECOMBINANT BACTERIA - (Abstract Only)

Dien, B.S., Nichols, N.N., Cotta, M.A. 2003. Fermentation of hexose and pentose sugar mixtures to lactic acid by recombinant bacteria [abstract]. American Institute Of Chemical Engineers. Paper No. 161D.

DEVELOPMENT OF MICROBIAL BIOCATALYSTS TO PRODUCE FUELS FROM AGRICULTURAL BIOMASS - (Proceedings)

Cotta, M.A., Nichols, N.N., Dien, B.S., Li, X. 2003. Development of microbial biocatalysts to produce fuels from agricultural biomass. Proceedings 32nd annual United States Japan Natural Resources Protein Panel. p. 387-393.

CLONING AND SEQUENCING OF TWO HIGHLY HOMOLOGOUS CELLULASE GENES, CELH AND CELI FROM THE ANAEROBIC FUNGUS ORPINOMYCES STRAIN PC-2 - (Abstract Only)

Li, X., Ximenes, E.A., Chen, H., Cotta, M.A., Ljungdahl, L.G. 2003. Cloning and sequencing of two highly homologous cellulase genes, celh and celi from the anaerobic fungus orpinomyces strain pc-2 [abstract]. MIE Bioforum. p. 120.

PROPERTIES OF A RECOMBINANT BETA-GLUCOSIDASE FROM THE POLYCENTRIC ANAEROBIC FUNGUS ORPINOMYCES PC-2 AND ITS APPLICATION FOR CELLULOSE HYDROLYSIS - (Peer Reviewed Journal)

Li, X., Ljungdahl, L.G., Ximenes, E.A., Chen, H., Felix, C.R., Cotta, M.A., Dien, B.S. 2004. Properties of a recombinant beta-glucosidase from the polycentric anaerobic fungus Orpinomyces PC-2 and its application for cellulose hydrolysis. Journal of Applied Biochemistry and Biotechnology. 113:233-250.

HIGH PRODUCTIVITY CONTINUOUS BIOFILM REACTOR FOR BUTANOL PRODUCTION: EFFECT OF ACETIC AND BUTYRIC ACIDS AND CSL ON BIOREACTOR PERFORMANCE - (Peer Reviewed Journal)

Qureshi, N., Karcher, P., Cotta, M.A., Blaschek, H.P. 2004. High-productivity continuous biofilm reactor for butanol production: effect of acetate, butyrate, and corn steep liquor on bioreactor performance. Journal of Applied Biochemistry and Biotechnology. 113:713-721.

FERMENTATION OF "QUICK FIBER" PRODUCED FROM A MODIFIED CORN MILLING PROCESS INTO ETHANOL AND RECOVERY OF CORN FIBER OIL - (Peer Reviewed Journal)

Dien, B.S., Nagle, N., Singh, V., Moreau, R.A., Nichols, N.N., Johnston, D., Cotta, M.A., Hicks, K.B., Nguyen, Q., Bothast, R.J. 2004. Fermentation of "quick fiber" produced from a modified corn milling process into ethanol and recovery of corn fiber oil. Journal of Applied Biochemistry and Biotechnology. 115:937-950.

CLONING AND SEQUENCING OF TWO HIGHLY HOMOLOGOUS CELLULASE GENES, CELH AND CELI, FROM THE ANAEROBIC FUNGUS ORPINOMYCES STRAIN PC-2 - (Book / Chapter)

Li, X., Ximenes, E.A., Chen, H., Cotta, M.A., Ljungdahl, L.G. 2004. Cloning and sequencing of two highly homologous cellulase genes, celH and celI from the anaerobic fungi Orpinomyces strain PC-2. Proceedings MIE BIOFORUM 2003: Biotechnology of Lignocellulose Degradation and Biomass Utilization, pp. 638-641.

SEPARATION OF BUTANOL FROM FERMENTATION BROTH BY PERVAPORATION: MASS FLUX AND ENERGY BALANCE - (Abstract Only)

Qureshi, N., Dien, B.S., Saha, B.C., Ezeji, T.C., Blaschek, H.P., Cotta, M.A. 2003. Separation of butanol from fermentation broth by pervaporation: mass flux and energy balance [abstract]. American Institute of Chemical Engineers. Paper No. 162B.

CONVERSION OF LIGNOCELLULOSE TO ETHANOL USING A RECOMBINANT E. COLI STRAIN - (Abstract Only)

Dien, B.S., Iten, L.B., Nichols, N.N., Cotta, M.A. 2003. Conversion of lignocellulose to ethanol using a recombinant E. coli strain [abstract]. Society of Industrial Microbiology. p. 102.

BACTERIA ENGINEERED FOR FUEL ETHANOL PRODUCTION: CURRENT STATUS - (Review Article)

Dien, B.S., Cotta, M.A., Jeffries, T.W. 2003. Bacteria engineered for fuel ethanol production: current status. Applied Microbiology and Biotechnology. 63:258-266.

DESCRIPTION OF HESPELLIA STERCORISUIS GEN. NOV. SP. NOV. AND HESPELLIA PORCINUS SP. NOV. ISOLATED FROM MANURE STORAGE PITS - (Peer Reviewed Journal)

WHITEHEAD, T.R., COTTA, M.A., COLLINS, M.D., LAWSON, P.A. HESPELLIA STERCORISUIS GEN. NOV., SP. NOV. AND HESPELLIA PORCINUS SP. NOV., ISOLATED FROM SWINE MANURE STORAGE PITS. INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY. 2004. V. 54. P. 241-245.

PHENYLACETIC AND PHENYLPROPIONIC ACIDS DO NOT AFFECT XYLAN DEGRADATION BY RUMINOCOCCUS ALBUS - (Peer Reviewed Journal)

REVENEAU, C., ADAMS, S.E., COTTA, M.A., MORRISON, M. PHENYLACETIC AND PHENYLPROPIONIC ACIDS DO NOT AFFECT XYLAN DEGRADATION BY RUMINOCOCCUS ALBUS. APPLIED AND ENVIRONMENTAL MICROBIOLOGY. 2003. V. 69. P. 6954-6958.

THE COMMENSAL BACTERIAL POPULATIONS OF SWINE FECES AND STORED SWINE MANURE: RESERVOIRS OF ANTIBIOTIC RESISTANCE? - (Abstract Only)

WHITEHEAD, T.R., COTTA, M.A., WHITTLE, G., SHOEMAKER, N., SALYERS, A.A. THE COMMENSAL BACTERIAL POPULATIONS OF SWINE FECES AND STORED SWINE MANURE: RESERVOIRS OF ANTIBIOTIC RESISTANCE?. JOURNAL OF ANIMAL SCIENCE. 2003. V. 81(SUPPL.1): ABSTRACT P. 461.

INCREASING THE ETHANOL YIELD FROM A BUSHEL OF CORN; PROSPECTS FOR BIOMASS CONVERSION - (Abstract Only)

Dien, B.S., Bothast, R.J., Nichols, N.N., Cotta, M.A. 2003. Increasing the ethanol yield from a bushel of corn; prospects for biomass conversion [abstract]. International Starch Technology. Paper No. 2.

IDENTIFICATION OF NEW ERYTHROMYCIN (ERM(35)) AND TETRACYCLINE (TET(36)) RESISTANCE GENES FROM A BACTEROIDES SP. ISOLATED FROM SWINE MANURE - (Abstract Only)

WHITEHEAD, T.R., WHITTLE, G., SHOEMAKER, N., COTTA, M.A., SALYERS, A.A. IDENTIFICATION OF NEW ERYTHROMYCIN (ERM(35)) AND TETRACYCLINE (TET(36)) RESISTANCE GENES FROM A BACTEROIDES SP. ISOLATED FROM SWINE MANURE. 103RD ANNUAL MEETING OF THE AMERICAN SOCIETY FOR MICROBIOLOGY. 2003. ABSTRACT P. 20.

HIGH PRODUCTIVITY CONTINUOUS BIOFILM REACTOR FOR BUTANOL PRODUCTION: EFFECT OF ACETIC AND BUTYRIC ACIDS AND CSL ON BIOREACTOR PERFORMANCE - (Abstract Only)

KARCHER, P., QURESHI, N., BLASCHEK, H.P., COTTA, M.A. HIGH PRODUCTIVITY CONTINUOUS BIOFILM REACTOR FOR BUTANOL PRODUCTION: EFFECT OF ACETIC AND BUTYRIC ACIDS AND CSL ON BIOREACTOR PERFORMANCE. 25TH SYMPOSIUM ON BIOTECHNOLOGY FOR FUELS AND CHEMICALS. 2003. PAPER NO. 3-14.

CONVERSION OF CORN FIBROUS MATERIAL INTO ETHANOL - (Abstract Only)

DIEN, B.S., NICHOLS, N.N., LI, X., COTTA, M.A., BOTHAST, R.J. CONVERSION OF CORN FIBROUS MATERIAL INTO ETHANOL. 25TH SYMPOSIUM ON BIOTECHNOLOGY FOR FUELS AND CHEMICALS. 2003. ABSTRACT P. 68.

POTENTIAL TO IMPROVE DRY MILL ECONOMICS BY INCREASING ETHANOL YIELD FROM CORN FIBER RESIDUE - (Abstract Only)

NAGLE, N., TUCKER, M.P., DIEN, B.S., COTTA, M.A., HICKS, K.B., MOREAU, R.A., SINGH, V., NGUYEN, Q. POTENTIAL TO IMPROVE DRY MILL ECONOMICS BY INCREASING ETHANOL YIELD FROM CORN FIBER RESIDUE. 25TH SYMPOSIUM ON BIOTECHNOLOGY FOR FUELS AND CHEMICALS SYMPOSIUM. 2003. ABSTRACT P. 20.

CORN FIBER HYDROLYSIS AND FERMENTATION TO BUTANOL USING CLOSTRIDIUM BEIJERINCKII BA101 - (Abstract Only)

EBENER, J.M., QURESHI, N., EZEJI, T.C., BLASCHEK, H.P., DIEN, B.S., COTTA, M.A. CORN FIBER HYDROLYSIS AND FERMENTATION TO BUTANOL USING CLOSTRIDIUM BEIJERINCKII BA101. 25TH SYMPOSIUM ON BIOTECHNOLOGY FOR FUELS AND CHEMICALS. 2003. PAPER NO. 2-14.

IDENTIFICATION OF A NEW RIBOSOMAL PROTECTION TYPE OF TETRACYCLINE RESISTANCE GENE, TET(36), FROM SWINE MANURE PITS - (Peer Reviewed Journal)

WHITTLE, G., WHITEHEAD, T.R., HAMBURGER, N., SHOEMAKER, N.B., COTTA, M.A., SALYERS, A.A. IDENTIFICATION OF A NEW RIBOSOMAL PROTECTION TYPE OF TETRACYCLINE RESISTANCE GENE, TET(36), FROM SWINE MANURE PITS. APPLIED AND ENVIRONMENTAL MICROBIOLOGY. 2003. V. 69. P. 4151-4158.

STRUCTURAL STUDIES OF THE EXTRACELLULAR POLYSACCHARIDE PRODUCED BY BUTYRIVIBRIO FIBRISOLVENS STRAIN H10B - (Peer Reviewed Journal)

ANDERSSON, L., COTTA, M.A., KENNE, L. STRUCTURAL STUDIES OF THE EXTRACELLULAR POLYSACCHARIDE PRODUCED BY BUTYRIVIBRIO FIBRISOLVENS STRAIN H10B. CARBOHYDRATE RESEARCH. 2003. V. 338. P. 1571-1579.

ISOLATION AND IDENTIFICATION OF HYPER-AMMONIA PRODUCING BACTERIA FROM SWINE MANURE STORAGE PITS - (Peer Reviewed Journal)

WHITEHEAD, T.R., COTTA, M.A. ISOLATION AND IDENTIFICATION OF HYPER-AMMONIA PRODUCING BACTERIA FROM SWINE MANURE STORAGE PITS. CURRENT MICROBIOLOGY. 2004. V. 48. P. 20-26.

HESPELLIA STERCORISUIS GEN. NOV. SP. NOV., AND HESPELLIA PORCINUS SP. NOV., ISOLATED FROM MANURE STORAGE PITS - (Abstract Only)

LAWSON, P.A., COTTA, M.A., COLLINS, M.D., WHITEHEAD, T.R. HESPELLIA STERCORISUIS GEN. NOV. SP. NOV., AND HESPELLIA PORCINUS SP. NOV., ISOLATED FROM MANURE STORAGE PITS. 25TH CONFERENCE ON GASTROINTESTINAL FUNCTION. 2003. ABSTRACT P. 58.

MOLECULAR TAXONOMY: REVEALING UNSEEN DIVERSITY WITH THE GI TRACT - (Abstract Only)

LAWSON, P.A., WHITEHEAD, T.R., COTTA, M.A., COLLINS, M.D. MOLECULAR TAXONOMY: REVEALING UNSEEN DIVERSITY WITH THE GI TRACT. 25TH CONFERENCE ON GASTROINTESTINAL FUNCTION. 2003. ABSTRACT P. 28.

ISOLATION, CHARACTERIZATION, AND COMPARISON OF BACTERIA FROM SWINE FECES AND MANURE STORAGE PITS - (Peer Reviewed Journal)

COTTA, M.A., WHITEHEAD, T.R., ZELTWANGER, R.L. ISOLATION, CHARACTERIZATION, AND COMPARISON OF BACTERIA FROM SWINE FECES AND MANURE STORAGE PITS. ENVIRONMENTAL MICROBIOLOGY. 2003. V. 5. P. 737-745.

ARYL-GLYCOSIDASE ACTIVITIES IN GERMINATING MAIZE - (Peer Reviewed Journal)

BIELY, P., AHLGREN, J.A., LEATHERS, T.D., GREENE, R.V., COTTA, M.A. ARYL-GLYCOSIDASE ACTIVITIES IN GERMINATING MAIZE. CEREAL CHEMISTRY. 2003. V. 80. P. 144-147.

BIOCATALYSTS FOR PRODUCTION OF BIOETHANOL - (Abstract Only)

BOTHAST, R.J., NICHOLS, N.N., DIEN, B.S., COTTA, M.A. BIOCATALYSTS FOR PRODUCTION OF BIOETHANOL. SOCIETY OF INDUSTRIAL MICROBIOLOGY ANNUAL MEETING. 2002. PAPER NO. 12-1.

PERSISTENCE AND FUNCTIONAL IMPACT OF A MICROBIAL INOCULANT ON NATIVE MICROBIAL COMMUNITY STRUCTURE, NUTRIENT DIGESTION, AND FERMENTATION CHARACTERISTICS IN A RUMEN MODEL - (Peer Reviewed Journal)

ZIEMER, C.J., SHARP, R., STERN, M.D., COTTA, M.A., WHITEHEAD, T.R., STAHL, D.A. PERSISTENCE AND FUNCTIONAL IMPACT OF A MICROBIAL INOCULANT ON NATIVE MICROBIAL COMMUNITY STRUCTURE, NUTRIENT DIGESTION, AND FERMENTATION CHARACTERISTICS IN A RUMEN MODEL. SYSTEMATIC AND APPLIED MICROBIOLOGY. 2002. V. 25. P. 416-422.

ISOLATION AND CHARACTERIZATION OF AMMONIA-HYPERPRODUCING BACTERIA FROM STORED SWINE MANURE - (Abstract Only) - (15-Jun-02)

THE U.S. CORN ETHANOL INDUSTRY: AN OVERVIEW OF CURRENT TECHNOLOGY AND FUTURE PROSPECTS - (Review Article)

DIEN, B.S., BOTHAST, R.J., NICHOLS, N.N., COTTA, M.A. THE U.S. CORN ETHANOL INDUSTRY: AN OVERVIEW OF CURRENT TECHNOLOGY AND FUTURE PROSPECTS. INTERNATIONAL SUGAR JOURNAL. 2002. V. 104. P. 204-211.

DIFFERENTIATION BETWEEN MICROBIAL POPULATIONS OF SWINE FECES AND STORED MANURE BY GROUP SPECIFIC AMPLIFIED RDNA RESTRICTION ANALYSIS - (Abstract Only) - (30-Aug-01)

PHYLOGENETIC AND PCR ANALYSES OF ANTIBIOTIC RESISTANT BACTERIA FROM SWINE FECES AND MANURE STORAGE PITS - (Abstract Only) - (30-Aug-01)

EFFECTS OF MONENSIN ON MICROBIAL ACTIVITY IN IN VITRO SWINE MANURE SLURRIES - (Abstract Only) - (28-Jul-01)

CHARACTERIZATION AND COMPARISON OF MICROBIAL POPULATIONS IN SWINE FECES ANDMANURE STORAGE PITS BY 16S RDNA GENE SEQUENCE ANALYSES - (Peer Reviewed Journal) - (10-May-01)

METABOLIC ENGINEERING OF ESCHERICHIA COLI FOR IMPROVED PRODUCTION OF ETHANOL AND LACTIC ACID - (Abstract Only) - (09-May-01)

IDENTIFICATION OF A BROAD-SPECIFICITY XYLOSIDASE/ARABINOSIDASE IMPORTANT FOR XYLOOLIGOSACCHARIDE FERMENTATION BY THE RUMINAL ANAEROBE SELENOMONAS RUMINANTIUM - (Peer Reviewed Journal) - (05-Mar-01)

MICROBIAL ECOLOGY OF THE RUMEN AND PROSPECTS FOR MANIPULATING RUMEN FUNCTION - (Proceedings) - (02-Mar-01)

SEQUENCE ANALYSES OF A BROAD HOST-RANGE PLASMID CONTAINING ERMT FROM A TYLOSIN-RESISTANT LACTOBACILLUS SP. ISOLATED FROM SWINE FECES - (Peer Reviewed Journal) - (04-Dec-00)

ANALYSES OF ANTIBIOTIC RESISTANCE GENES IN ANAEROBIC BACTERIA AND TOTAL DNA FROM SWINE FECES MANURE - (Abstract Only) - (16-Nov-00)

COMPARATIVE CHEMISTRY AND MICROBIAL COMMUNITY STRUCTURE OF MODEL AND NATURAL RUMENS - (Peer Reviewed Journal) - (16-Aug-00)

SCREENING FOR ANTIBIOTIC RESISTANCE IN ANAEROBIC BACTERIA FROM SWINE FECES AND WASTE STORAGE PITS - (Abstract Only) - (12-Jul-00)

ANALYSES OF ANTIBIOTIC RESISTANCE IN ANAEROBIC BACTERIA FROM SWINE FECES AND WASTE PITS - (Abstract Only) - (25-May-00)

GROUP SPECIFIC AMPLIFIED RIBOSOMAL-DNA RESTRICTION ANALYSIS TO EVALUATE MICROBIAL COMMUNITY CHANGES AMONG SWINE FECES AND STORAGE PIT SAMPLES - (Abstract Only) - (25-May-00)

THE FAMILY LACHNOSPIRACEAE INCLUDING THE GENERA BUTYRIVIBRIO, LACHNOSPIRA, AND ROSEBURIA: - (Book / Chapter) - (11-May-00)

DEVELOPMENT OF MOLECULAR METHODS FOR IDENTIFICATION OF STREPTOCOCCUS BOVIS FROM HUMAN AND RUMINAL ORIGINS - (Peer Reviewed Journal) - (08-Nov-99)

PHYLOGENETIC DIVERSITY OF METHANOGENIC ARCHAEBACTERIA IN SWINE WASTE STORAGE PITS - (Peer Reviewed Journal) - (19-Aug-99)

ANALYSES OF MICROBIAL DIVERSITY OF SWINE FECES AND WASTE HANDLING PITS USING 16S PCR AND PURE CULTURE ISOLATION - (Abstract Only) - (09-Aug-99)

WHO'S THERE?-COMMUNITY ANALYSES OF BACTERIA IN SWINE FECES AND WASTE HANDLING PITS USING PCR AND PURE CULTURE ISOLATION - (Abstract Only) - (23-Jul-99)

ISOLATION AND CHARACTERIZATION OF THE MICROBIAL POPULATIONS OF SWINE WASTE - (Abstract Only) - (03-Jun-99)

CHARACTERIZATION OF MICROBIAL POPULATIONS IN SWINE FECES AND WASTE HANDLING PITS BY 16S RDNA SEQUENCE ANALYSES - (Abstract Only) - (03-Jun-99)

ISOLATION AND CHARACTERIZATION OF A NEW SPECIES OF XYLANOLYTIC BACTERIUM FROM THE BOVINE RUMEN - (Abstract Only) - (14-Aug-98)

USE OF 16S RDNA SEQUENCES TO IDENTIFY PREDOMINANT BACTERIA FROM PORCINE FECES AND WASTE HANDLING PITS - (Abstract Only) - (14-Aug-98)

DEGRADATION OF CORN FIBER XYLAN BY A RUMINAL PREVOTELLA SP. ISOLATED FROM RUMEN ENRICHMENT CULTURES - (Abstract Only) - (21-May-98)

CLONING, EXPRESSION AND SEQUENCING OF AN ADENYLATE CYCLASE GENE FROM THE RUMINAL ANAEROBIC BACTERIUM, PREVOTELLA RUMINICOLA - (Abstract Only) - (21-May-98)

IDENTIFICATION OF A NOVEL ADENYLATE CYCLASE IN THE RUMINAL ANAEROBE, PREVOTELLA RUMINICOLA D31D - (Peer Reviewed Journal) - (20-May-98)

COMPLEMENTATION OF AN ESCHERICHIA COLI ADENYLATE CYCLASE MUTANT WITH A GENE FROM PREVOTELLA RUMINICOLA D31D - (Abstract Only) - (13-Nov-97)

IDENTIFICATION OF A BIFUNCTIONAL XYLOSIDASE/ARABINOSIDASE IMPORTANT FOR XYLOOLIGOSACCHARIDE FERMENTATION BY THE RUMINAL ANAEROBE SELENOMONAS RUMINANTIUM GA192 - (Abstract Only) - (13-Nov-97)

USE OF THE BACTEROIDES OVATUS XSA GENE AS A TRANSCRIPTIONAL REPORTER GENE FOR VARIOUS GRAM-NEGATIVE ANAEROBES AND ESCHERICHIA COLI - (Abstract Only) - (09-Nov-97)

CHEMISTRY AND SCOUTING: ACS AND BSA WORKING TOGETHER FOR PUBLIC AWARENESS OF CHEMISTRY AMONG YOUTH - (Abstract Only) - (20-Oct-97)

IDENTIFICATION OF A BIFUNCTIONAL XYLOSIDASE/ARABINOSIDASE IMPORTANT FOR XYLOOLIGOSACCHARIDE FERMENTATION BY THE RUMINAL ANAEROBE SELENOMONAS RUMINANTIUM GA192 - (Abstract Only) - (03-Oct-97)

XYLOOLIGOSACCHARIDE UTILIZATION BY THE RUMINAL ANAEROBIC BACTERIUM, SELENOMONAS RUMINANTIUM - (Peer Reviewed Journal) - (18-Sep-97)

ISOLATION AND CHARACTERIZATION OF A XYLANOLYTIC BACTERIUM CAPABLE OF FERMENTING CORN FIBER XYLAN - (Abstract Only) - (07-Aug-97)

IDENTIFICATION OF A BIFUNCTIONAL XYLOSIDASE/ARABINOSIDASE IMPORTANT FOR XYLOOLIGOSACCHARIDE FERMENTATION BY THE RUMINAL ANAEROBE SELENOMONAS RUMINANTIUM - (Abstract Only) - (08-Jun-97)

XYLOOLIGOSACCHARIDE UTILIZATION BY THE RUMINAL BACTERIUM, SELENOMONAS RUMINANTIUM - (Abstract Only) - (21-Mar-97)

STRUCTURAL STUDIES OF THE EXTRACELLULAR POLYSACCHARIDE FROM BUTYRIVIBRIO FIBRISOLVENS STRAIN CF3 - (Peer Reviewed Journal) - (23-Dec-96)

CLONING, SEQUENCE AND EXPRESSION OF THE L-(+) LACTATE DEHYDROGENASE OF STREPTOCOCCUS BOVIS - (Peer Reviewed Journal) - (03-Dec-96)

SURVIVAL OF THE RECOMBINANT BACTEROIDES THETAIOTAOMICRON STRAIN BTX IN IN VITRO RUMEN INCUBATIONS - (Peer Reviewed Journal) - (28-Oct-96)

EVALUATION OF RUMINAL MICROBIAL POPULATION CHANGES DURING ACIDOSIS USING RIBOSOMAL RNA-TARGETED DNA PROBES - (Abstract Only) - (17-Jul-96)

METABOLISM OF NITROGEN-CONTAINING COMPOUNDS - (Book / Chapter) - (29-May-96)

UTILITY OF ALKALINE PROTEASE FROM MARINE SHIPWORM BACTERIUM IN INDUSTRIAL CLEANSING APPLICATIONS - (Peer Reviewed Journal) - (10-May-96)

CROSSFEEDING OF XYLOOLIGOSACCHARIDES BETWEEN XYLANOLYTIC AND NON-XYLANOLYTIC RUMINAL BACTERIA - (Abstract Only) - (14-Dec-95)

CLONING, EXPRESSION, AND SEQUENCE OF THE L-LACTATE DEHYDROGEANSE (LDH) GENE OF STREPTOCOCCUS BOVIS - (Abstract Only) - (16-Nov-95)

PHYLOGENETICALLY-BASED PROBES FOR THE STUDY OF RUMEN MICROBIAL POPULATIONS - (Abstract Only) - (16-Nov-95)

COMPARISON BETWEEN MICROBIAL POPULATIONS IN THE RUMEN AND CONTINUOUS CULTURE FERMENTERS USING RIBOSOMAL RNA-TARGETED DNA PROBES - (Abstract Only) - (16-Nov-95)

DEGRADATION AND UTILIZATION OF XYLAN BY THE RUMINAL BACTERIA, BUTYRIVIBRIO FIBRISOLVENS AND SELENOMONAS RUMINANTIUM - (Peer Reviewed Journal) - (03-Oct-95)