Publications and Patents

Published Work


2015-Present

192. Conway, J.M., W.S. Pierce, J.H. Le, G.W. Harper, J.H. Wright, A.L. Tucker, J.V. Zurawski, L.L. Lee, S.E. Blumer-Schuette, and R.M. Kelly. 2016. Multi-domain, S-layer associated glycoside hydrolases contribute to plant polysaccharide degradation by Caldicellulosiruptor species. J. Biol. Chem.

191. Schut, G.J., G.L Lipscomb, D.M.N. Nguyen, R. M. Kelly, M.W.W. Adams. 2016. Heterologous production of an energy-conserving sixteen subunit carbon monoxide dehydrogenase in the hyperthermophile Pyrococcus furiosus. Frontiers in Microbiology.

190. Nguyen, D.M.N., G.L. Lipscomb, G.J. Schut, B.J. Vaccaro, M. Basen, R.M. Kelly and M.W.W. Adams. 2016. Temperature-dependent acetoin production by Pyrococcus furiosus is catalyzed by a biosynthetic acetolactate synthase and its deletion improves ethanol production. Metabolic Eng.

189. Keller, M., A.J. Loder, M. Basen, J. Izquierdo, R.M. Kelly, and M.W.W. Adams. 2015. Production of lignofuels and electrofuels by extremely thermophilic microbes. Biofuels 5:499-515

188. Lee L.L., J.A. Izquierdo, S.E. Blumer-Schuette, J.V. Zurawski, J.M. Conway, R.W. Cottingham, M. Huntemann, A. Copelandc, I.A. Chen, N. Kyrpides, V. Markowitz, K. Palaniappan, N. Ivanova, N. Mikhailova, G. Ovchinnikova, E. Andersen, A. Pati, D. Stamatis, T.B.K. Reddy, N. Shapiro, H.P. Nordberg, M.N. Cantor, S.X. Hua, T. Woyke, and R.M. Kelly. Genome Announcements (2015). Complete Genome Sequences of Caldicellulosiruptor sp. Strain Rt8.B8, Caldicellulosiruptor sp. Strain Wai35.B1, and “Thermoanaerobacter cellulolyticus“.

187. Keller, M. W., G.L. Lipscomb, A.J. Loder, G.J. Schut, R.M. Kelly, and M.W.W. Adams. Metabolic Engineering. (2015). A hybrid synthetic pathway for butanol production by a hyperthermophilic microbe.

186. Lewis, D. L., J.S. Notey, S.K. Chandrayan, A.J. Loder, G.L. Lipscomb, M.W.W. Adams, and R.M. Kelly. Extremophiles. (2015). A mutant (‘lab strain’) of the hyperthermophilic archaeon Pyrococcus furiosus, lacking flagella, has unusual growth physiology.

185. Blumer-Schuette, S. E., M. Alahuhta, J.M. Conway, L.L. Lee, J.V. Zurawski, R.J. Giannone, R.L. Hettich, V.V. Lunin, M.E. Himmel, and R.M. Kelly. Journal of Biological Chemistry. (2015). Discrete and structurally unique proteins (tāpirins) mediate attachment of extremely thermophilic Caldicellulosiruptor species to cellulose.

184. Hawkins, A. B., H. Lian, B.M. Zeldes, A.J. Loder, G.L. Lipscomb, G.J. Schut, M.W. Keller, M.W.W. Adams, and R.M. Kelly. Biotechnology and Bioengineering. (2015). Bioprocessing analysis of Pyrococcus furiosus strains engineered for CO2-based 3-hydroxypropionate production.

183. Schilling, J., A.I. Nepomuceno, A. Planchart, J.A. Yoder, R.M. Kelly, D.C. Muddiman, H.V. Daniels, N. Hiramatsu, and B.J. Reading. Proteomics. (2015). Machine learning reveals sex-specific 17β-estradiol-responsive expression patterns in white perch (Morone americana) plasma proteins.

182. Zurawski, J. V., J.M. Conway, L.L. Lee, H.J. Simpson, J.A. Izquierdo, S.E. Blumer-Schuette, I. Nookaew, M.W.W. Adams, and R.M. Kelly. Applied and Environmental Microbiology. (2015). Comparative analysis of extremely thermophilic Caldicellulosiruptor species reveals common and unique cellular strategies for plant biomass utilization.

181. Scott, I.M., G.M. Rubinstein, G.L. Lipscomb, M. Basen, G.J. Schut, A.M. Rhaesa, W.A. Lancaster, F.L. Poole, R.M. Kelly, and M.W.W. Adams. Applied and Environmental Microbiology. (2015). A new class of Tungsten-containing oxidoreductase in Caldicellulosiruptor, a genus of plant biomass-degrading thermophilic bacteria.

180. Loder, A.J., B.M. Zeldes, G.D. Garrison, G.L. Lipscomb, M.W.W. Adams, and R.M. Kelly. Applied and Environmental Microbiology. (2015). Alcohol selectivity in a synthetic thermophilic n-Butanol pathway is driven by biocatalytic and thermostability characteristics of constituent enzymes.

179. Zeldes, B.M., M.W. Keller, A.J. Loder, C.T. Straub, M.W.W. Adams, and R.M. Kelly. Frontiers in Microbiology 6: Paper no. 1209. (2015). Extremely thermophilic microorganisms as metabolic engineering platforms for production of fuels and industrial chemicals.

178. Wheaton, G.H., J.A. Counts, A. Mukherjee, J. Kruh, and R.M. Kelly. Minerals. (2015). The confluence of heavy metal biooxidation and heavy metal resistance: Implications for bioleaching by extreme thermoacidophiles.

2011-2014

177. Blumer-Schuette, S.E., S.D. Brown, K.B. Sander, E.A. Bayer, I. Kataeva, J.V. Zurawski, J.M. Conway, M.W.W. Adams, and R.M. Kelly. 2014. Paradigms for thermophilic lignocellulose deconstruction. FEMS Microbiol. Rev. 38:393-448.

176. Hawkins, A.S., M.W.W. Adams, and R.M. Kelly. 2014. Conversion of 4-Hydroxybutyrate to Acetyl-CoA and its anapleurosis in the Metalloshpaera sedula 3-Hydroxypropionate/4-Hydroxybutyrate carbon fixation pathway. Appl. Environ. Microbiol. 80:2536-2545.

175. Lipscomb, G.L., G.J. Schut, M.P. Thorgersen, W.J. Nixon, R.M. Kelly, and M.W.W. Adams. 2014. Engineering hydrogen gas production from formate in a hyperthermophile by heterologous production of an 18-subunit membrane-bound complex. 2014. J. Biol. Chem. 289:2873-2878.

174. Thorgersen, M.P., G.L. Lipscomb, G.J. Schut, R.M. Kelly, and M.W.W. Adams. 2014. Deletion of Acetyl-CoA Synthetases I and II increase production of 3-Hydroxypropionate by the metabolically-engineered hyperthermophile Pyrococcus furiosus. Metabolic Eng. 22:83-88.

173. Frock, A.D., C.I. Montero, S.E. Blumer-Schuette, and R.M. Kelly. 2013. Stationary phase triggers Transcription of a genomic locus containing a novel peptide (TM1316) in the hyperthermophilic bacterium Thermotoga maritima. Appl. Environ. Microbiol. 79:66377-6646.

172. Kataeva, I., M. Foston, S.-J. Yang, S. Pattathil, A.K. Biswal, P. Dam, V. Olman, T.D. Saffold, D.L. Lewis, C. Doeppke, T. Tschaplinsky, W.S. York, M. Davis, D. Mohnen, Y. Xu, R. M. Kelly, A. Ragauskas, M.G. Hahn and M.W.W. Adams. 2013. Carbohydrate and lignin are simultaneously solubilized from unpretreated switchgrass by microbial action at high temperature. Energy & Environ. Sci. 6:2186-2195.

171. Mukherjee, A., G.H. Wheaton, P.H. Blum, and R.M. Kelly. 2012. Uranium extremophily is an adaptive, rather than intrinsic, feature for extremely thermoacidophilic Metallosphaera species. Proc. Natl. Acad. Sci. USA 109:16702-16707.

170. Hawkins, A.S., P. McTernan, H. Lian, R.M. Kelly, M.W.W. Adams. 2013. Biological conversion of carbon dioxide and hydrogen into liquid fuels and industrial chemicals. Curr. Opin. Biotechnol. 24:1-9.

169. Hawkins, A.S., Y. Han, R.K. Bennett, M.W.W. Adams, and R.M. Kelly. 2013. Role of 4-Hydroxybutyrate-CoA Synthetase in the CO2 fixation cycle in thermoacidophilic archaea. J Biol. Chem. 288:4012-4022.

168. Keller, M.W., G.J. Schut, G.L. Lipscomb, A.L. Menon, I.J. Iwuchukwu, T. Leuko, M.P. Thorgersen, W.J. Nixon, A.S. Hawkins, R.M. Kelly and M.W.W. Adams. 2013. Exploiting Microbial Hyperthermophilicity to Produce Industrial Chemicals from Hydrogen and Carbon Dioxide. Proc. Natl. Acad. Sci. USA 110:5840-5845.

167. McCarthy, S., A. Chenbing Ai, G. Wheaton, R. Tevatia, V. Eckrich, R. Kelly, and P. Blum. 2014. Role of an archaeal PitA transporter in the copper and arsenic resistance of Metallosphaera sedula an extreme thermoacidophile. J. Bacteriol. 196:3562-3570.

166. Tang, C., C.D. Saquing, S.W. Morton, B.N. Glatz, R.M. Kelly, S.A. Khan. 2014. Cross-linked polymer nanofibers for hyperthermophilic enzyme immobilization: Approaches to improve enzyme performance. ACS Appl. Mater. Interfaces. 6:11899-11906.

165. Tang, C., C.D. Saquing, P.K. Sarin, R.M. Kelly and S.A. Khan. 2014. Nanofibrous membranes for high temperature biocatalysis via single-step immobilization of hyperthermophilic enzymes. J. Membrane Sci. 472:251-260.

164. Basen, M., G.J. Schut, D.M. Nguyen, G.L. Lipscomb, R.A. Benn, C.J. Prybol, B.J. Vaccoro, F.L. Poole, R.M. Kelly, and M.W.W. Adams. 2014. Single gene insertion drives bioalcohol production by a thermophilic archaeon. Proc. Natl. Acad. Sci., USA 111:17618-17623.

163. Frock, A.D., and R.M. Kelly. 2012. Extreme thermophiles: Moving beyond single-enzyme biocatalysis. Curr Opin Chem Eng. 1:363-372.

162. Bielen, A.M.M., M.R.A. Verhaart, A.L. VanFossen, S.E. Blumer-Schuette, A.J. M. Stams, J. van der Oost, R.M. Kelly^ and S.M.W. Kengen. 2013. A thermophile under pressure: Transcriptional analysis of the response of Caldicellulosiruptor saccharolyticus to different H2 partial pressures. Inter J Hydrogen Energy 38:1837-1849.

161. Han, Y., A.S. Hawkins, M.W.W. Adams, and R.M. Kelly. 2012. Epimerase (Msed_ 0639) and Mutase (Msed_0638, Msed_2055) convert (S)-methylmalonyl-CoA to succinyl-CoA in the Metallosphaera sedula 3-hydroxypropionate/4-hydroxybutyrate cycle. Appl. Environ. Microbiol. 78:6194-6202.

160. Blumer-Schuette, S.E., R.J. Giannone, J.V. Zurawski, I. Ozdemir, Q. Ma, Y. Yin, Y. Xu, I. Kataeva, F.L. Poole II, M.W. W. Adams, S.D. Hamilton-Brehm, J.G. Elkins, F.W. Larimar, M.L. Land, L. Hauser, R.W. Cottingham, R.L. Hettich, and R.M. Kelly. 2012. Caldicellulosiruptor core and pan genomes reveal determinants for non-cellulosomal thermophilic deconstruction of plant biomass J. Bacteriol, 194:4015-28.

159. Frock, A.D., S.A. Gray and R.M. Kelly. 2012. Hyperthermophilic Thermotoga species differ with respect to specific carbohydrate transporters and glycoside hydrolases. Appl. Environ. Microbiol., 78:1978-66.

158. Ozdemir, I., S.E. Blumer-Schuette, and R.M. Kelly. 2012. S-layer homology (SLH) domain proteins Csac_0678 and Csac_2722 implicated in plant polysaccharide deconstruction by the extremely thermophilic bacterium Caldicellulosiruptor saccharolyticus. Appl. Environ. Microbiol., 78:768-77.

157. Hawkins, A.B., Y. Han, H. Lian, A.J. Loder, A. Menon, I. Iwuchukwu, M. Keller, T. Leuko, M.W.W. Adams and R.M. Kelly. 2011. Extremely thermophilic routes to microbial electrofuels. ACS Catalysis 1:1043-1050.

156. Daugherty, A., Y. Maezato, K. Dana, E. Soo, C. Cooper, S. Tachdjian, R. Kelly, and P. Blum. 2011. VapC6, a ribonucleolytic toxin regulates thermophilicity in the crenarchaeote Sulfolobus solfataricus. RNA 17:1381-1392.

155. Santa-Maria, M.C. C.G. Yencho, C.H. Haigler, W.F. Thompson, R.M. Kelly, B. Sosinski. 2011. Starch self-processing in transgenic sweetpotato roots expressing a hyperthermophilic α-amylase. Biotechnol. Progress 27:351-359.

154. VanFossen, A.L., I. Ozdemir, S.L. Zelin, and R.M. Kelly. 2011. Glycoside hydrolase inventory drives plant polysaccharide deconstruction by the extremely thermophilic bacterium Caldicellulosiruptor saccharolyticus. Biotechnol. Bioeng. 108:1559-1569.

153. Blumer-Schuette, S.E., I. Ozdemir, D. Mistry, S. Lucas, A. Lapidus, J.-F. Cheng, L.A. Goodwin, S. Pitluck, M.L. Land, L.J. Hauser, T. Woyke, N. Mikhailova, A. Pati, N.C. Kyrpides, N. Ivanova, J.C. Detter, K. Walston-Davenport, S. Han, M.W.W. Adams, and R.M. Kelly. 2011. Complete genome sequences for the anaerobic, extremely thermophilic plant biomass-degrading bacteria Caldicellulosiruptor hydrothermalis, Caldicellulosiruptor kristjanssonii, Caldicellulosiruptor kronotskyensis, Caldicellulosiruptor owensenis, and Caldicellulosiruptor lactoaceticus. J Bacteriol. 193:1483-1484.

152. Cobucci-Ponzano, B., C. Zorzetti, A. Strazzulli, S. Carillo, E. Bedini, M. Michela Corsaro, D.A. Comfort, R.M. Kelly, Mosé Rossi, and M. Moracci. 2011. A novel α-D-galactosynthase, based on the GH36 α-galactosidase from the hyperthermophilic bacterium Thermotoga maritima, converts β-D-galactopyranosyl azide to galacto-oligosaccharides. Glycobiology, 21:448-456.

151. Dam, P., I. Kataeva, S.J. Yang, F. Zhou, Y. Yin, W. Chou, F.L., Poole II, R. Hettich, R. Giannone, D.L. Lewis, R. Kelly, J. Westpheling, H.J. Gilbert, B. Henrissat, Y. Xu, and M. W.W. Adams. 2011. Insights into plant biomass to biofuel conversion from the complete genome sequence of the extremely thermophilic bacterium Caldicellulosiruptor bescii DSM 6725. Nucleic Acids Res. 39:3240-3254.

2006-2010

150. Blumer-Schuette, S.E., D.L. Lewis, and R.M. Kelly. 2010. Phylogenetic, microbiological and glycoside hydrolase diversity within the extremely thermophilic, plant biomass-degrading genus Caldicellulosiruptor. Appl. Environ. Microbiol. 76:8084-8092.

149. Andrews, G., D. Lewis, J. Notey R. Kelly, and D. Muddiman. 2010. Part II: Defining and quantifying individual and co-cultured intracellular proteomes of two thermophilic microorganisms by GeLC-MS(2) and spectral counting. Anal. Bioanal. Chem. 398:391-404.

148. Andrews, G., D. Lewis, J. Notey R. Kelly, and D. Muddiman. 2010. Part I: Characterization of the extracellular proteome of the extreme thermophile Caldicellulosiruptor saccharolyticus by GeLC-MS. Anal. Bioanal. Chem. 398:377-389.

147. Frock, A.D., J.S. Notey, and R.M. Kelly. 2010. The genus Thermotoga: New developments. Environ. Technol. 31:1169-1181.

146. Harris, J.M., K.L. Epting, and R.M. Kelly. N-terminal fusion of a hyperthermophilic chitin-binding domain to xylose isomerase from Thermotoga neapolitana enhances kinetics and thermostability of both unbound and immobilized enzymes. Biotechnol. Prog.26:993-1000.

145. Auernik, K.S., and R.M. Kelly. 2010. Molecular hydrogen impacts chalcopyrite bioleaching by the extremely thermoacidophilic archaeon Metallosphaera sedula. Appl. Environ. Microbiol. 76:2668-2672.

144. Auernik, K.S., and R.M. Kelly. 2010. Physiological versatility of the extremely thermoacidophilic archaeon Metallosphaera sedula supported by heterotrophy, autotrophy and mixotrophy transcriptomes. Appl. Environ. Microbiol. 76:931-935.

143. VanFossen, A.L., M.R.A. Verhaart, S.M.W. Kengen, and R.M. Kelly. 2009. Carbohydrate utilization patterns for the extremely thermophilic bacterium Caldicellulosiruptor saccharolyticus reveal broad growth substrate preferences. Appl. Environ. Microbiol. 75:7718-7724.

142. Santa-Maria, M., C.-J. Chou, G. Yencho, C. Haigler, W. Thompson, R. Kelly, and B. Sosinski. 2009. Plant cell calcium-rich environment enhances thermostability of recombinantly produced α-amylase from the hyperthermophilic bacterium Thermotoga maritima. Biotechnol. Bioeng. 104:947-956.

141. Carson, S.E., J.R. Chisnell, and R.M. Kelly. 2009. Integrating modern biology into the ChE DNA through a campus-wide core laboratory education program. 2009. Chem. Eng. Ed.43:257-264.

140. Nichols, J.D., M.R. Johnson, C.-J. Chou, and R.M. Kelly. 2009. Temperature, not LuxS, mediates AI-2 formation in hydrothermal habitats. FEMS Microbiol. Ecol. 68:173-181.

139. Cooper, C.R., A.J. Daugherty, S. Tachdjian, P.H. Blum, and R.M. Kelly. 2009. Role of vapBC Toxin-Antitoxin loci in the thermal stress response of Sulfolobus solfataricus. Biochem. Soc. Trans., 37:123-126.

138. Auernik, K.S., and R.M. Kelly. 2008. Components of electron transport chains in the extremely thermoacidophilic crenarchaeon Metallosphaera sedula identified through iron and sulfur compound oxidation transcriptomes. Appl. Environ. Microbiol. 74:7723-7732.

137. van de Werken, H.J.G, M.R. A. Verhaart, A.L. VanFossen, K.U. Willquist, D.L. Lewis, J.D. Nichols, H.P. Goorissen, E. Mongodin, K.E. Nelson, E.W.J. van Niel, A.J. M. Stams, D.E. Ward, W.M. de Vos, J. van der Oost, R.M. Kelly, S.M. W. Kengen. 2008. Hydrogenomics of the extremely thermophilic bacterium Caldicellulosiruptor saccharolyticus. Appl. Environ. Microbiol. 74:6720-6729.

136. Young, D.D., J.D. Nichols, R.M. Kelly, and A. Deiters. 2008. Microwave activation of enzymatic catalysis. JACS 130:10048-10049.

135. Auernik, K.S., C.R. Cooper, and R.M. Kelly. 2008. Life in hot acid: Genomics-based pathway analysis in the thermoacidophilic archaea. Curr. Opin. Biotechnol. 19:445-453.

134. Chou, C.-J., F.J. Jenney, Jr., M.W.W. Adams, and R.M. Kelly. 2008. Hydrogenesis in hyperthermophilic microorganisms: Implications for biofuels. Metabolic Eng. 10:394-404.

133. Blumer-Schuette, S., I. Kataeva, J. Westpheling, M.W.W. Adams, and R.M. Kelly. 2008. Extremely thermophilic microorganisms for biomass conversion: status and prospects. Curr. Opin. Biotechnol. 19:1-8.

132. VanFossen, A.L., D.L. Lewis, J.D. Nichols, and R.M. Kelly. 2008. Anaerobic polysaccharide formation and degradation in hyperthermophiles. Ann. NY Acad. Sci., 1125:322-337.

131. Comfort, D.A., C.-J. Chou, S.B. Conners, A.L. VanFossen, and R.M. Kelly. 2008. Functional genomics-based identification and characterization of novel α-glucan acting glycosyl hydrolases in the hyperthermophilic archaeon Pyrococcus furiosus. Appl. Environ. Microbiol. 74:1281-1283.

130. Auernik, K.S., Y. Maezato, P.H. Blum, and R.M. Kelly. 2008. The genome sequence of the metal-mobilizing, extremely thermoacidophilic archaeon Metallosphaera sedula provides insights into bioleaching-associated metabolism. Appl. Environ. Microbiol. 74:682-692.

129. Kaczowka, S.J., L.S. Madding, K.L. Epting, R.M. Kelly, G.J. Ciancioloa and S.V. Pizzo. 2007. Probing the stability of native and activated forms of α2-macroglobulin. Int. J. Biol. Macromol. 42:62-67.

128. Montero, C.I., M.R. Johnson, C.-J. Chou, S.B. Conners, S.G. Geouge, S. Tachdjian, J.D. Nichols and R.. M. Kelly. 2007. Response of wild-type and resistant strains of the hyperthermophilic bacterium Thermotoga maritima to chloramphenicol challenge. Appl. Environ. Microbiol. 73:5058-5065.

127. Chou, C.-J., K.R. Shockley, S.B. Conners, D.L. Lewis, D.A. Comfort, M.W.W. Adams and R.M. Kelly. 2007. Impact of glucoside substrate linkage and elemental sulfur on bioenergetics and hydrogen production by the hyperthermophilic archaeon Pyrococcus furiosus. Appl. Environ. Microbiol., 73:6842-53.

126. Mahammad, S., D.A. Comfort, R.M. Kelly and S.A. Khan. 2007. Rheological properties of guar galactomannan solutions during hydrolysis with galactomannanase and α-galactosidase enzyme mixtures. Biomacromolecules 8:949-956.

125. Madding, L.S., J.K. Michel, K.R. Shockley, S.B. Conners, K.L. Epting, M.R. Johnson and R.M. Kelly. 2007. Role of β1 subunit in the function and stability of the 20S proteasome from the hyperthermophilic archaeon Pyrococcus furiosus .J. Bacteriol. 189:583-590.

124. Comfort, D.A., K.S. Bobrov, D.R. Ivanen, K.A. Shabalin, J.M. Harris, A.A. Kulminskaya, H. Brumer, and R.M. Kelly. 2007. Biochemical analysis of Thermotoga maritima GH36 α-galactosidase (TmGalA) confirms the mechanistic commonality of clan GH-D glycoside hydrolases. Biochemistry 46:3319-3330.

123. Montero, C.I., D.L. Lewis, M.R. Johnson, S.B. Conners, E.A. Nance, J.D. Nichols, and R.M. Kelly. 2006. Co-location of genes encoding tRNA-mRNA hybrid and a putative signaling peptide on complementary strands in the genome of the hyperthermophilic bacterium Thermotoga maritima. J. Bacteriol. 188:6802-6807.

122. Conners, S.B. E.F. Mongodin, M.R. Johnson, C.I. Montero, K.E. Nelson and R.M. Kelly. 2006. Microbial biochemistry, physiology, ecology and biotechnology of hyperthermophilic Thermotoga species. FEMS Microbiol.Rev. 30:872-905.

121. Ahlborn, G.J., D.A. Clare, B.W. Sheldon, and R.M. Kelly. 2006. Identification of eggshell membrane proteins and purification of ovotransferrin and β-NAGase from hen egg white. Protein J. 25:71-81.

120. Tachdjian, S., and R.M. Kelly. 2006. Metabolic adjustments and genome plasticity are implicated in Sulfolobus solfataricus response to pH and thermal stress. J. Bacteriol. 188:4553-4559.

119. Barrangou, R., A. Azcarate-Peril, T. Duong, S.B. Conners, R.M. Kelly, and T.K. Klaenhammer. 2006. Global analysis of carbohydrate utilization by Lactobacillus acidophilus using DNA microarrays. Proc.Natl. Acad. Sci. USA. 103:3816-3821.

118. Lee, H.-S., K.R. Shockley, G.J. Schut, S.B. Conners, C.I. Montero, M.R. Johnson, C.-J. Chou, S.L. Bridger, N.A. Wigner, S.D. Brehm, F.E. Jenney, Jr., D.A. Comfort, R.M. Kelly, and M.W.W. Adams. 2006. Transcriptional and biochemical analysis of starch metabolism in the hyperthermophilic archaeon Pyrococcus furiosus. J. Bacteriol. 188:2115-2125.

117. Johnson, M.R., S.B. Conners, C.I. Montero, K.R. Shockley, and R.M. Kelly. 2006. Thermotoga maritima phenotype is impacted by symbiotic interaction with Methanococcus jannaschii in hyperthermophilic co-culture. Appl. Environ. Microbiol. 72:811-818.

2000-2005

116. Conners, S.B., C.I. Montero, D.A. Comfort, K.R. Shockley, M.R. Johnson, S.R. Chhabra, and R.M. Kelly. 2005. An expression-driven approach to the prediction of carbohydrate transport and utilization in the hyperthermophilic bacterium Thermotoga maritima. J. Bacteriol. 187:7267-7282.

115. Shockley, K.R., K.L. Scott, M.A. Pysz, S.B. Conners, M.R. Johnson, C.I. Montero, R.D. Wolfinger and R.M. Kelly. 2005. Genome-wide transcriptional variation within and between steady states for continuous growth of the hyperthermophile Thermotoga maritima. Appl. Environ. Microbiol. 71:5572-76.

114. Price, M.S., S.B. Conners, S. Tachdjian, R.M. Kelly, G.A. Payne. 2005. Aflatoxin conducive and non-conducive growth conditions reveal new gene associations with aflatoxin production. Fungal Genet. Biol. 42:506-518.

113. McGuffey, M.K., K.L. Epting, R.M. Kelly, and E.A. Foegeding. 2005. Denaturation and aggregation of 3 α-lactalbumin. J. Agricult. Food Chem. 53:3182-3190.

112. Epting, K.L., C. Vieille, J.G. Zeikus, and R.M. Kelly. 2005. Influence of divalent metal cations on the structural thermostability and thermal inactivation kinetics of class II xylose isomerases. FEBS J. 272:1454-1464.

111. Johnson, M.R., C.I. Montero, S.B. Conners, K.R. Shockley, S.L. Bridger and R.M. Kelly. 2005. Population density-dependent regulation of exopolysaccharide formation in the hyperthermophilic bacterium Thermotoga maritima. Mol. Microbiol. 55:664-674.

110. Comfort, D.A., S.R. Chhabra, S.B. Conners, C.-J. Chou, K.L. Epting, M.R. Johnson, K.L. Jones, A.C. Sehgal, and R.M. Kelly. 2004. Strategic biocatalysis with hyperthermophilic enzymes. Green Chem. 6:459-465.

109. Pysz, M.A., S.B. Conners, C.I. Montero, K.R. Shockley, M.R. Johnson, D.E. Ward, and R.M. Kelly. 2004. Transcriptional analysis of biofilm formation processes in the anerobic hyperthermophilic bacterium Thermotoga maritima. Appl. Environ. Microbiol. 70:6098-6112.

108. Johnson, M.R., C.I. Montero, S.B. Conners, K.R. Shockley, M.A. Pysz, and R.M. Kelly. 2004. Functional genomics-based studies of the microbial ecology of hyperthermophilic microorganisms. Biochem. Soc. Trans. 32:188-192.

107. Pysz, M.A., D.E. Ward, K.R. Shockley, C.I. Montero, S.B. Conners, M.R. Johnson, and R.M. Kelly. 2004. Transcriptional analysis of dynamic heat shock response by the hyperthermophilic bacterium Thermotoga maritima. Extremophiles, 8:209-17.

106. Sehgal, A.C., and R.M. Kelly. 2003. Strategic selection of hyperthermophilic esterases/lipases for racemic resolution of 2-aryl propionic esters. Biotechnol. Prog. 19:1410-1416.

105. Shockley, K.R., D.E. Ward, S.R. Chhabra, S.B. Conners, C.I. Montero and R.M. Kelly. 2003. Heat shock response by the hyperthermophilic archaeon Pyrococcus furiosus. Appl. Environ. Microbiol. 69:2365-2371.

104. Gao, J., M.W. Bauer, K.R. Shockley, M.A. Pysz, and R.M. Kelly. 2003. Hyperthermophilic archaeon Pyrococcus furiosus growth on chitin involves two family 18 chitinases. Appl. Environ. Microbiol. 69:3119-3128.

103. Chhabra, S.R., K.R. Shockley, S.B. Conners, K.E. Scott, R.D. Wolfinger and R.M. Kelly. 2003. Carbohydrate-induced differential gene expression patterns in the hyperthermophilic bacterium Thermotoga maritima. J. Biol. Chem. 278:7540-7552.

102. Chhabra, S.R., and R.M. Kelly. 2002. Biochemical characterization of Thermotoga maritima endoglucanase Cel74 in its recombinant form and as a fusion protein containing a family 2 carbohydrate binding module (CBM). FEBS Lett. 531:375-380.

101. Sehgal, A.C., R. Thompson, J. Cavanaugh and R.M. Kelly. 2002. Structural and catalytic response to temperature and co-solvents of a carboxylesterase from the extremely thermophilic archaeon Sulfolobus solfataricus P1. Biotechnol. Bioeng. 80:784-793.

100. Bandlish, R.K., J.M. Hess, K.L. Epting, C. Vieille, and R.M. Kelly. 2002. Glucose to fructose conversion at high temperatures with xylose (glucose) isomerases from Streptomyces murinus and two hyperthermophilic Thermotoga species. Biotechnol. Bioeng. 80:185-194.

99. Sehgal, A.C., and R.M. Kelly. 2002. Enantiomeric resolution of 2-aryl propionic esters with hyperthermophilic and mesophilic esterases: Contrasting thermodynamic mechanisms. JACS 124:8190-8191.

98. Ward, D.E., K.R. Shockley, L.S. Chang, R.D. Levy and R.M. Kelly. 2002. Hyperthermophilic proteases. Archaea 1:63-74.

97. Chhabra, S.R., K.R. Shockley, D.E. Ward and R.M. Kelly. 2002. Regulation of endo-acting glycosyl hydrolases in the hyperthermophilic bacterium Thermotoga maritima grown on glucan- and mannan-based polysaccharides. Appl. Environ. Microbiol. 68:545-554.

96. Vieille, C., K.L. Epting, R.M. Kelly, and J.G. Zeikus. 2001. Bivalent cations and amino acid composition contribute to the thermostability of Bacillus licheniformis xylose isomerase. Eur. J. Biochem. 268:6291-6301.

95. Parker, K.N., S.R. Chhabra, D. Lam, W. Callen, G.D. Duffaud, M.A. Snead, J.M. Short, E.J. Mathur, and R.M. Kelly. 2001. Galactomannanases Man2 and Man5 from Thermotoga species: Growth physiology on galactomannans, gene sequence analysis and biochemical properties of recombinant enzymes. Biotechnol. Bioeng. 75:323-333.

94. Sehgal, A.C., W. Callen, E.J. Mathur, J.M. Short and R.M. Kelly. 2001. Carboxylesterase from Sulfolobus solfataricus P1. Meth. Enzymol. 330:461-471.

93. Hicks, P.M., L.S. Chang, and R.M. Kelly. 2001. Homomultimeric protease and putative bacteriocin homologue from Thermotoga maritima. Meth. Enzymol. 330:455-460.

92. Chang, L.S., P.M. Hicks and R.M. Kelly. 2001. Pyrococcus furiosus protease I (PfpI). Meth. Enzymol. 330:403-412.

91. Cady, S.G., M.W. Bauer, W. Callen, M.A. Snead, E.J. Mathur, J.M. Short and R.M. Kelly. 2001. β-Endoglucanase (EglA) from Pyrococcus furiosus. Meth. Enzymol. 330:346-354.

90. Chang, S., K.N. Parker, M.W. Bauer and R.M. Kelly. 2001. α-glucosidase from Pyrococcus furiosus. Meth. Enzymol. 330:260-269.

89. Miller, E.S., K.N. Parker, W. Liebl, D. Lam, W. Callen, M.A. Snead, E.J. Mathur, J.M. Short and R.M. Kelly. 2001. α-galactosidases from Thermotoga species. Meth. Enzymol. 330:246-260.

88. Parker, K.N., S.R. Chhabra, D. Lam, M.A. Snead, E.J. Mathur, J.M. Short and R.M. Kelly. β-mannosidase from Thermotoga species. 2001. Meth. Enzymol. 330:238-246.

87. Chhabra, S.R., K.N. Parker, D. Lam, W. Callen, M.A. Snead, E.J. Mathur, J.M. Short and R.M. Kelly. 2001. β-mannanases from Thermotoga species. Meth. Enzymol. 330:224-238.

86. Vielle, C., D. Sriprapundh, R.M. Kelly, and J.G. Zeikus. 2001. Xylose isomerases from Thermotoga spp. Meth. Enzymol. 330:215-224.

85. Pysz, M.A., K.D. Rinker, K.R. Shockley, and R.M. Kelly. 2001. Continuous cultivation methods of hyperthermophiles. Meth. Enzymol. 330:31-40.

84. Rinker, K.D., and R.M. Kelly. 2000. Effect of carbon and nitrogen sources on growth dynamics and exopolysaccharide production for the hyperthermophilic archaeon Thermococcus litoralis and bacterium Thermotoga maritima. Biotechnol. Bioeng. 69:537-547.

1990-1999

83. Driskill, L.E., M.W. Bauer and R.M. Kelly. 1999. Synergistic interactions among β-laminarinase, β-1,4-glucanase and β-glucosidase from the hyperthermophilic archaeon Pyrococcus furiosus during the hydrolysis of β-1,4-, β-1,3-, and mixed-linked polysaccharides. Biotechnol. Bioeng. 66:51-60.

82. Rinker, K.D., C.J. Han and R.M. Kelly. 1999. Continuous culture as a tool for investigating the growth physiology of heterotrophic hyperthermophiles and extreme thermoacidophiles. J. Appl. Bacteriol. 85:118S-127S.

81. Kelly, R.M., and H. Waldmann. 1999. Biocatalysis and biotransformation. Editorial overview. Current Opin. Biol.3:9-10.

80. Driskill, L.E., K. Kusy, M.W. Bauer, and R.M. Kelly. 1999. Relationship between glycosyl hydrolase inventory and growth physiology of the hyperthermophile Pyrococcus furiosus on carbohydrate-based media. Appl. Environ. Microbiol. 65:893-897.

79. Bauer, M.W., L.E. Driskill, W. Callen, E.J. Mathur, and R. M. Kelly. 1999. An endoglucanase from the hyperthermophilic archaeon Pyrococcus furiosus hydrolyzes β-1,4 bonds in mixed linkage (1→3),(1→4)-β-D-glucans and cellulose. J. Bacteriol. 181:284-290.

78. Tayal, A., R.M. Kelly, and S.A. Khan. 1999. Rheological and molecular weight distribution patterns during enzymatic degradation of water-soluble polymers. Macromolecules 32:294-300.

77. Hess, J.M., and R.M. Kelly. 1999. Influence of polymolecular events on the inactivation behavior of the xylose isomerase from Thermotoga neapolitana 5068. Biotechnol. Bioeng. 62:509-517.

76. Bauer, M.W., and R.M. Kelly. 1998. The Family 1 β-Glucosidases from Pyrococcus furiosus and Agrobacterium faecalis Share a Common Catalytic Mechanism. Biochemistry 37:17170-17178.

75. Hicks, P.M., K.D. Rinker, J.R. Baker, and R.M. Kelly. 1998. Homomultimeric protease in the hyperthermophilic bacterium Thermotoga maritima has structural and amino acid sequence homology to bacteriocins in mesophilic bacteria. FEBS Letters 440:393-398.

74. Kowalski, J.M., R.M. Kelly, J. Konisky, D.S. Clark, and D.K. Wittrup. 1998. Purification and functional characterization of a chaperone from Methanococcus jannaschii. Syst. Appl. Microbiol. 21:173-178.

73. Hess, J.M., V. Tchernajenko, C. Vieille, J.G. Zeikus, and R.M. Kelly. 1998. Thermotoga neapolitana homotetrameric xylose isomerase is expressed as a catalytically active and thermostable dimer in Eschericia coli. Appl. Environ. Microbiol. 64:2357-2360.

72. Bauer, M.W., L.E. Driskill, and R.M. Kelly. 1998. Glycosyl hydrolases from hyperthermophilic microorganisms. Curr. Opin. Biotechnol. 9:141-145.

71. Adams, M.W.W., and R.M. Kelly. 1998. Finding and using hyperthermophilic enzymes. Trends in Biotech. 16:329-332.

70. Han, C.J., and R.M. Kelly. 1998. Biooxidation capacity of the extremely thermoacidophilic archaeon Metallosphaera sedula under bioenergetic challenge. Biotechnol. Bioeng. 58:617-624.

69. Duffaud, G.D., O.B. D’Hennezel, A.S. Peek, A.-L. Reysenbach, and R.M. Kelly. 1998. Isolation and characterization of Thermococcus barossii, sp. nov., a hyperthermophilic archaeon isolated from a hydrothermal vent flange formation. Syst. Appl. Microbiol. 21:40-49.

68. Tayal, A., R.M. Kelly, and S.A. Khan. 1997. Viscosity reduction of hydraulic fracturing fluids through enzymatic hydrolysis. J. Soc. Petr. Eng.SPE 2:204-212.

67. Muralidharan, V., K.D. Rinker, I.S. Hirsh, E.J. Bouwer, and R.M. Kelly. 1997. Hydrogen transfer between methanogens and fermentative heterotrophs in hyperthermophilic co-cultures. Biotechnol. Bioeng. 56:268-278.

66. Han, C.J., C.H. Park, and R.M. Kelly. 1997. Acquired thermotolerance and stressed phase growth of the extremely thermoacidophilic archaeon Metallosphaera sedula in continuous culture. Appl. Environ. Microbiol.63:2391-2396.

65. Bauer, M.W., S.B. Bauer and R.M. Kelly. 1997. Purification and characterization of a proteasome from the hyperthermophilic archaeon, Pyrococcus furiosus. Appl. Environ. Microbiol. 63:1160-1164.

64. Halio, S.B., M.W. Bauer, S. Mukund, M.W.W. Adams, and R.M. Kelly. 1997. Purification and biochemical characterization of two functional forms of intracellular protease PfpI from the hyperthermophilic archaeon Pyrococcus furiosus. Appl. Environ. Microbiol. 63:289-295.

63. Duffaud, G.D., C.M. McCutchen, P. Leduc, K.N. Parker and R.M. Kelly. 1997. Purification and characterization of extremely thermostable β-mannanase, β-mannosidase and α-galactosidase from the hyperthermophilic eubacterium Thermotoga neapolitana 5068. Appl. Environ. Microbiol. 63:169-177.

62. Rinker, K.D., and R.M. Kelly. 1996. Growth physiology of the hyperthermophilic archaeon Thermococcus litoralis: Development of a sulfur-free defined medium, characterization of an exopolysaccharide, and evidence of biofilm formation. Appl. Environ. Microbiol. 62:4478-4485.

61. Bauer, M.W., S.B. Halio, and R.M. Kelly. 1996. Proteases and glycosyl hydrolases from hyperthermophilic microorganisms. Adv. Prot. Chem. 48:271-310.

60. Kelly, R.M. 1996. Confessions of a graduate student recruiter. Chem. Eng. Educ.30:262-265.

59. Bauer, M.W., R. Swanson, E. Bylina, and R.M. Kelly. 1996. Comparison of a β-Glucosidase and a β-Mannosidase from the hyperthermophilic archaeon Pyrococcus furiosus: Purification, characterization, gene cloning, and sequence analysis. J. Biol. Chem. 271:23749-23755.

58. McCutchen, C.M., G.D. Duffaud, P. Leduc, A.R.H. Petersen, A. Tayal, S.A. Khan and R.M. Kelly. 1996. Characterization of extremely thermostable enzymatic breakers (α-1,6-galactosidase and β-1,4-mannanase) from the hyperthermophilic bacterium Thermotoga neapolitana 5068 for hydrolysis of guar gum. Biotechnol. Bioeng. 52:332-339.

57. Halio, S.B., I.I. Blumentals, S.A. Short, B.M. Merrill and R.M. Kelly. 1996. Sequence, expression in Eschericia coli, and analysis of the gene encoding a novel intracellular protease (PfpI) from the hyperthermophilic archaeon Pyrococcus furiosus. J. Bacteriol. 178:2605- 2612.

56. Adams, M.W.W., and R.M. Kelly. 1995. Enzymes from microorganisms from extreme environments. Chem. Eng. News.73:32-42.

55. Adams, M.W.W., F.B. Perler and R.M. Kelly. 1995. Extremozymes: Expanding the limits of biocatalysis. Biotechnology 13:662-668.

54. Peeples, T.L., and R.M. Kelly. 1995. Bioenergetic response of the thermoacidophilic archaeum Metallosphaera sedula to thermal and nutritional stress. Appl. Environ. Microbiol. 61:2314-2321.

53. Vieille, C., J.M. Hess, R.M. Kelly and J.G. Zeikus. 1995. xylA cloning and sequencing and biochemical characterization of xylose isomerase from Thermotoga neapolitana. Appl. Environ. Microbiol. 61:1867-1875.

52. Kelly, R.M., and M.W.W. Adams. 1994. Metabolism in hyperthermophilic microorganisms. Antonie van Leeuwehoek 66:247-270.

51. Adams, M.W.W., and R.M. Kelly. 1994. Thermostability and thermoactivity of enzymes from hyperthermophilic archaea. Bioorg. Med. Chem. 2:659-667.

50. Kelly, R.M., T.L. Peeples, S.B. Halio, K.D. Rinker and G.D. Duffaud. 1994. Metabolic strategies, genetic characteristics and biotechnological potential of extremely thermophilic microorganisms. Ann. NY Acad. Sci.745:409-425.

49. Adams, M.W.W., J.A. Baross and R.M. Kelly. 1994. Biotechnology and life in boiling water. Chemistry in Britain30:555-558.

48. DiRuggiero, J., S.H. Brown, L.A. Achenbach, R.M. Kelly, and F.T. Robb. 1993. Regulation of ribosomal RNA transcription in the hyperthermophilic Archaeon Pyrococcus furiosus FEMS Lett. 111:159-164.

47. Peeples, T.L., and R.M. Kelly. 1993. Bioenergetics of the metal/sulfur-oxidizing extreme thermoacidophile, Metallosphaera sedula. Fuel 72:1619-1624.

46. Ma, K., Schicho, R. N., Kelly, R. M., Adams, M. W. W. 1993. Hydrogenase of the hyperthermophile, Pyrococcus furiosus, is an elemental sulfur reductase or sulfhydrogenase: evidence for a sulfur-reducing hydrogenase ancestor. Proc. Natl. Acad. Sci. USA 90:5341-5344.

45. Schuliger, J.W., S.H. Brown, J.A. Baross, and R.M. Kelly. 1993. Purification of a novel amylolytic enzyme from ES4, a hyperthermophilic archaeum. Mol. Marine Biol. Biotechnol.2:76-87.

44. Schicho, R. N., Ma, K., Adams, M. W. W. and Kelly, R. M. 1993. Bioenergetics of sulfur reduction in the hyperthermophilic archaeon, Pyrococcus furiosus J. Bacteriol. 175:1823-1830.

43. Kelly, R.M., and S.H. Brown. 1993. Enzymes from high temperature microorganisms. Curr. Opin. Biotechnol. 4:188-192.

42. Brown, S.H., and R.M. Kelly. 1993. Characterization of amylolytic enzymes, having both α-1,4 and α-1,6 hydrolytic activity from the thermophilic archaea Pyrococcus furiosus and Thermococcus litoralis. Appl. Environ. Microbiol. 59:2614-2621.

41. Brown, S.H., C. Sjoholm, and R.M. Kelly. 1993. Purification and characterization of a highly thermostable glucose isomerase produced by the extremely thermophilic eubacterium Thermotoga maritima. Biotechnol. Bioeng. 41:878-886.

40. Kelly, R.M., I.I. Blumentals, L.J. Snowden, and M.W.W. Adams. 1992. Physiological and biochemical characteristics of Pyrococcus furiosus, a hyperthermophilic archaebacterium. Ann. N.Y. Acad. Sci. 665:309-320.

39. Schicho, R.N., Snowden, L.J., S. Mukund, J.B. Park, M.W.W. Adams, and R.M. Kelly. 1993. Influence of tungsten on metabolic patterns in the hyperthermophile Pyrococcus furiosus. Arch. Microbiol. 159:380-385.

38. Snowden, L.J., I.I. Blumentals, and R.M. Kelly. 1992. Regulation of proteolytic activity in the hyperthermophile Pyrococcus furiosus. Appl. Environ. Microbiol. 58:1134-41.

37. Olson, G.J., and R.M. Kelly. 1991. Chemical and microbiological problems associated with research on the biodesulfurization of coal. Resources, Conservation, and Recycling 5:183-189.

36. Peeples, T.L., S. Hirosue, G.J. Olson, and R.M. Kelly. 1991. Coal sulfur transformations monitored by hyperthermophilic archaebacteria. Fuel 70:599-604.

35. Pihl, T.D., R.N. Schicho, L. Black, R.J. Maier, and R.M. Kelly. 1990. Hydrogen-sulfur autotrophy in the growth of the hyperthermophilic archaebacterium, Pyrodictium brockii. Biotechnol. Genetic Eng. Rev.8:345-377.

34. Brown, S.H., H.R. Costantino, and R.M. Kelly. 1990. Characterization of amylolytic enzyme activities associated with the hyperthermophilic archaebacteium, Pyrococcus furiosus. Appl. Environ. Microbiol. 56:1985-1991.

33. Blumentals, I.I., A.S. Robinson, and R.M. Kelly. 1990. Characterization of SDS-resistant proteolytic activity in the hyperthermophilic archaebacterium Pyrococcus furiosus. Appl. Environ. Microbiol. 56:1992-1998.

32. Costantino, H.R., S.H. Brown, and R.M. Kelly. 1990. Purification and characterization of an α-glucosidase from the hyperthermophilic archaebacterium, Pyrococcus furiosus, exhibiting a temperature optimum of 105-115°C. J. Bacteriol. 172:3564-3660.

31. Blumentals, I.I., M. Itoh, G.J. Olson, and R.M. Kelly. 1990. The role of polysulfides in the reduction of elemental sulfur by the hyperthermophilic archaebacterium Pyrococcus furiosus. Appl. Environ. Microbiol. 56:1255-1262.

30. Clark, D.S., and R.M. Kelly. 1990. Microorganisms at extreme temperatures and pressures: Engineering insights. CHEMTECH 20(11):641-648.

29. Reilly, J.T., C.N. Schubert, J.R. Lindner, M.D. Donohue, and R.M. Kelly. 1990. Effect of heterocyclic amine additives on the absorption rates of carbonyl sulfide and carbon dioxide in aqueous methyldiethanolamine solutions. Chem. Eng. Commun. 93:181-187.

28. Blumentals, I.I., S.H. Brown, R.N. Schicho, A.K. Skaja, H.R. Costantino, and R.M. Kelly. 1990. The hyperthermophilic archaebacterium, Pyrococcus furiosus: development of culturing protocols, perspectives on scale-up, and potential applications. Ann. N.Y. Acad. Sci. 589:301-314.

1980-1989

27. Malik, B., Su, W.-w., H.L. Wald, I.I. Blumentals, S. Brown, and R.M. Kelly. 1988. Growth and gas production by the hyperthermophilic archaebacterium Pyrococcus furiosus. Biotechnol. Bioeng. 36:1050-1057.

26. Schicho, R.N., S.H. Brown, G.J. Olson, and R.M. Kelly. 1989. Probing coals for non-pyritic sulfur using sulfur-metabolizing mesophilic and hyperthermophilic bacteria. Fuel 68:1368-1375.

25. Brown, S.H., and R.M. Kelly. 1989. Cultivation techniques for hyperthermophilic archaebacteria: Continuous culture of Pyrococcus furiosus at temperatures near 100°C. Appl. Environ. Microbiol. 55:2086-2088.

24. Pihl, T.D., R.N. Schicho, R.M. Kelly, and R.J. Maier. 1989. Characterization of hydrogen-uptake activity in the hyperthermophile Pyrodictium brockii. Proc. Nat. Acad. Sci. USA 86:138-143.

23. Blumentals, I.I., R.M. Kelly, and J. Shiloach. 1989. Bioreactor operation for the production of exotoxin A by Pseudomonas aeruginosa. Biotechnol. Bioeng. 34:1214-1220.

22. Johnston, J.B., R.E. Hannah, V.L. Cunningham, B.P. Daggy, F.J. Sturm, and R.M. Kelly. 1988. Destruction of pharmaceutical and biopharmaceutical wastes by the MODAR supercritical water oxidation process. Nature Biotechnology 6:1423-1428.

21. Kelly, R.M., and J.W. Deming. 1988. Extremely thermophilic archaebacteria: Biological and engineering considerations. Biotechnol. Prog. 4:47-62.

20. Parameswaran, A.K., R.N. Schicho, J.P. Soisson, and R.M. Kelly. 1988. Effect of hydrogen and carbon dioxide partial pressures on growth and sulfide production by the extremely thermophilic archaebacterium Pyrodictium brockii. Biotechnol. Bioeng. 32:432-440.

19. Lindner, J.R., C.N. Schubert, and R.M. Kelly. 1988. Influence of hydrodynamics on mass transfer in packed columns. Ind. Eng. Chem. Res. 27:636-642.

18. Parameswaran, A.K., W-W. Su, R.N. Schicho, C.N. Provan, B. Malik, and R.M. Kelly. 1988. Engineering considerations for growth of bacteria at temperatures around 100°C. Appl. Biochem. Biotechnol. 18:53-73.

17. Su, W.W., and R.M. Kelly. 1988. Effect of hyperbaric oxygen and carbon dioxide on the heterotrophic growth of the extreme thermophile Sulfolobus acidocaldarius. Biotechnol. Bioeng. 31:750-754.

16. Yeh, T.Y., R.M. Kelly, J. Cox, and G.J. Olson. 1987. Significance of cell fluorescence color of acridine orange-stained Thiobacillus ferrooxidans under epifluoresence microscopy. Science and Technology Letters.

15. Blumentals, I.I., R.M. Kelly, M. Gorziglia, J.B. Kaufman, and J. Shiloach. 1987. Development of a defined medium and two-step culturing method for improved exotoxin A yields from Pseudomonas aeruginosa. Appl. Environ. Microbiol. 53:2013-1220.

14. Parameswaran, A.K., C.N. Provan, F.J. Sturm, and R.M. Kelly. 1987. Sulfur reduction by the extremely thermophilic Bacterium Pyrodictium occultum. Appl. Environ. Microbiol. 53:1690-1693.

13. Sturm, F.J., A.K. Parameswaran, C.N. Provan, and R.M. Kelly. 1987. Growth of extremely thermophilic archaebacteia under elevated hyperbaric conditions. Ann. N.Y. Acad. Sci. 506:51-59.

12. Blumentals, I.I., A.K. Skaja, R.M. Kelly, and J. Shiloach. 1987. Effect of culturing conditions on the production of exotoxin A by Pseudomonas aeruginosa. Ann. N.Y. Acad. Sci. 506:663-670.

11. Yeh, T.Y., J.R. Godshalk, G.J. Olson, and R.M. Kelly. 1987. Use of epifluorescence microscopy for characterizing the activity of Thiobacillus ferrooxidans on iron pyrite. Biotechnol. Bioeng. 30:138-146.

10. Sturm, F.S., S.A. Hurwitz, J.W. Deming, and R.M. Kelly. 1987. Growth of the extreme thermophile Sulfolobus acidocaldarius in a hyperbaric helium bioreactor. Biotechnol. Bioeng. 29:1066-1074.

9. Shiloach, J., J.B. Kaufman, and R.M. Kelly. 1986. Hollow fiber microfiltration methods for recovery of rat basophilic leukemia cells (RBL-2H3) from tissue culture media. Biotechnol. Prog. 2:230-233.

8. Schubert, C.N., J.R. Lindner, and R.M. Kelly. 1986. Experimental methods for measuring static liquid holdup in packed columns. AIChE J. 32:1920-1923.

7. Olson, G.J., and R.M. Kelly. 1986. Microbiological metal transformations: Biotechnological applications and potential. Biotechnol. Prog. 2:1-15.

6. Rousseau, R.W., J.K. Ferrell, and R.M. Kelly. 1985. Cleaning of gases produced from coal using refrigerated methanol. Chem. Eng. Commun.34:27-34.

5. Kelly, R.M., R.W. Rousseau, and J.K. Ferrell. 1984. Design of packed adiabatic absorbers: Physical absorption of acid gases in methanol. Ind. Eng. Chem. Process Des. Dev. 23:102-109.

4. Kelly, R.M., R.W. Rousseau, and J.K. Ferrell. 1982. Physical absorption of CO2 and sulfur gases from coal: Simulation and experimental results. Sep. Sci. Technol. 16:1389-1396.

3. Felder, R.M., R.M. Kelly, J.F. Ferrell, and R.W. Rousseau. 1980. How clean gas is made from coal. Eng. Sci. Technol. 19:658-666.

1976-1979

2. Kelly, R.M. and D.J. Kirwan. 1977. The electrochemical regeneration of NAD+ on carbon electrodes. Biotechnol. Bioeng. 19:1275-1282.

1. Gainer, J.V., J.L. Gainer, and R.M. Kelly. 1976. Steroids and oxygen solubility. J. Steroids 28:307-310.

Patents


13. Kelly, R.M., M.W.W. Adams et al. Sequestration of CO2 with H2 into useful products. US Application Serial Based on Provisional No. 61/697/654 (filed September, 2013).

12. Kelly, R.M., M.W.W. Adams, G. Lipscomb, A. Menon, and M. Basen. Methods for expressing polypeptides in hyperthermophiles. International Application No. PCT/US2012/063289 (filed November, 2012).

11. Kelly, R.M., S.A. Khan, P. Leduc, A. Tayal and R. Prud’homme. Methods and compositions for fracturing subterranean formations. U.S. Patent Number 6,936,454, August, 2005.

10. Kelly, R.M., S.A. Khan, P. Leduc, A. Tayal and R. Prud’homme. Methods and compositions for fracturing subterranean formations. U.S. Patent Number 6,428,995, August, 2002.

9. Kelly, R.M., S.H. Brown, H.R. Costantino, and C.B. Anfinsen. Saccharification enzymes from hyperthermophilic bacteria and processes for their production. U.S. Patent Number 6,355,467, March, 2002.

8. Kelly, R.M., S.A. Khan, P. Leduc, A. Tayal and R. Prud’homme. Methods and compositions for fracturing subterranean formations. U.S. Patent Number 6,197,730, March, 2001.

7. Kelly, R.M., S.A. Khan, P. Leduc, A. Tayal and R. Prud’homme. Methods and compositions for fracturing subterranean formations. U.S. Patent Number 5,869,435, February, 1999.

6. Luhm, R.A., O.B. d’Hennezel, G.D. Duffaud, J.F. Jolly, R.M. Kelly, and E. Y.-F.Ting. Purified Thermococcus barossii DNA polymerase. U.S. Patent Number 5,602,011, February, 1997.

5. Kelly, R.M., S.A. Khan, P. Leduc, A. Tayal and R. Prud’homme. Methods and compositions for fracturing subterranean formations. U.S. Patent Number 5,421,412, June, 1995.

4. Kelly, R.M., A.S. Robinson, I.I. Blumentals, S.H. Brown, and C.B. Anfinsen. Proteolytic enzymes from hyperthermophilic bacteria and processes for their production. U.S. Patent Number 5,391,489, February, 1995.

3. Starnes, R.L., R.M. Kelly, and S.H. Brown. Method for glucose isomerization using xylose isomerase purified from Thermotoga maritima and Thermotoga neapolitana. U.S. Patent Number 5,268,280, December, 1993

2. Starnes, R.L., R.M. Kelly, and S.H. Brown. Novel Isomerization Enzymes. U.S. Patent Number 5,219,751, June 15, 1993.

1. Kelly, R.M., A.S. Robinson, I.I. Blumentals, S.H. Brown, and C.B. Anfinsen. Proteolytic Enzymes from Hyperthermophilic Bacteria and Processes for their Production. U.S. Patent Number 5,242,817, Sept. 7, 1993.

Books and Journal Volumes


6. Adams, M.W.W., and R.M. Kelly (Eds.) 2001. Hyperthermophilic Enzymes, Part C. Methods in Enzymology, Volume 334, Academic Press, New York.

5. Adams, M.W.W., and R.M. Kelly (Eds.) 2001. Hyperthermophilic Enzymes, Part B. Methods in Enzymology, Volume 331, Academic Press, New York.

4. Adams, M.W.W., and R.M. Kelly (Eds.) 2001. Hyperthermophilic Enzymes, Part A. Methods in Enzymology, Volume 330, Academic Press, New York.

3. Kelly, R.M., and H. Waldmann. 1999. Biocatalysis and biotransformation. in Current Opin. Biol. 3:9-59.

2. Kelly, R.M., K.D. Wittrup and S. Karkare (Eds.) 1994. Biochemical Engineering VIII – Proceedings. Ann. N.Y. Acad. Sci. Vol. 745.

1. Adams, M.W.W., and R.M. Kelly (Eds.) 1992. Biocatalysis at Extreme Temperatures: Enzyme Systems Near and Above 100°C. ACS Symposium Series No. 498.

Book Chapters and Other Publications


29. Conway, J.M., J.V. Zurawski, L.L. Lee, S.E. Blumer-Schuette and R.M. Kelly. 2015. Lignocellulosic Biomass Deconstruction by the Extremely Thermophilic Genus Caldicellulosiruptor. In Thermophilic Microorganisms(F. Li, Editor), Horizon Scientific Press. (in press).

28. Schut, G.J., G.L. Lipscomb, Y. Han, J.S. Notey, R.M. Kelly, and M.W.W. Adams. 2014. Order and Family Thermococcales. The Prokaryotes, 4th Ed. (Rosenberg, Lory, DeLong, Thompson, Stackebrandt, Eds.), in press

27. Zurawski, J.V., S.E. Blumer-Schuette, J.M. Conway, and R.M. Kelly. The Extremely Thermophilic Genus Caldicellulosiruptor. Physiological and Genomic Characteristics for Complex Carbohydrate Conversion to Molecular Hydrogen. 2014. Adv. In Photosynthesis and Respiration, Volume on Microbial Bioenergy (D. Zannoni and R. DePhilippis, Eds

26. Ozdemir, I., and R.M. Kelly. 2010. Extremophiles. Encyclopedia of Catalysis, I.T. Horváth, Ed., John Wiley and Sons, NY. DOI: 10.1002/0471227617.eoc089.pub2

25. Harris, J.M., M.W.W. Adams, and R.M. Kelly. 2010. Extremely thermophilic enzymes. Encyclopedia of Industrial Biotechnology: Bioprocess, Bioseparation, and Cell Technology, 2nd edition, M.C. Flickinger, Editor, John Wiley and Sons, NY, 4:2247-2264.

24. Gray, S.R., M.W.W. Adams, and R.M. Kelly. 2010. Extremely thermophilic microorganisms. Encyclopedia of Industrial Biotechnology: Bioprocess, Bioseparation, and Cell Technology, 2nd edition, M.C. Flickinger, Editor, John Wiley and Sons, NY, 5:3481-3499.

23. Tachdjian, S., and R.M. Kelly. 2007. Functional Genomics of Stress Response. in Archaea: New Models for Prokaryotic Biology, P. Blum, Editor.

22. Michel, J.K., and R.M. Kelly. 2007. Chapter 20. The Archaeal 20S Proteasome: A Simple and Thermostable Model System for the Core Particle (CP), in Thermophiles: Biology and Technology at High Temperatures, FT Robb, Editors. Taylor and Francis Group Publishers.

21. Haugh, J.M., and R.M. Kelly. 2007. Biochemical/Biomolecular engineering. McGraw-Hill Encyclopedia of Science and Technology, 10th Ed.

20. Jenney, F.E., Jr., S. Tachdjian, C.-J. Chou, R.M. Kelly, and M.W.W. Adams. 2007. Chapter 21. Functional Genomics. In Archaea: Molecular Cell Biology, Rick Cavicchioli, Editor, ASM Press, Washington, DC, pp. 434-462.

19. Adams, M.W.W., F.E. Jenney Jr., C.-J. Chou, S. Hamilton-Brehm, F.L. Poole, II, K.R. Shockley, S. Tachdjian, and R.M. Kelly. 2007. Transcriptomics, Proteomics and Structural Genomics of Pyrococcus furiosus. In Archaea – physiology, molecular biology and evolution, H.-P. Klenk and R. Garrett, Editors, Blackwell Publishing, pp. 239-247.

18. Hicks, P.M., L.S. Chang, and R. M. Kelly. 2004. 430. Pyrococcus furiosus Protease I (PfpI) in Handbook of Proteolytic Enzymes, F. Woessner, N. Rawlings, A. Barrett, eds., Academic Press Limited, London, pp. 1393-1395

17. Grunden, A.M., D.A. Comfort, E.L. Malotky, and R.M. Kelly. 2004. Expression of Extremophilic Proteins. Expression Technologies: Current Status and Future Trends, F. Baneyx, Ed., Horizon Scientific.

16. Kelly, R.M., and K.R. Shockley. Applications of Genomic Data: Enzyme Discovery and Microbial Genomics. 2004. Microbial Genomics. C.M. Fraser, T. Read, and K.E. Nelson, Eds., Humana Press, Inc., Totowa, NJ.

15. Pysz, M.A., C. Montero, S.R. Chhabra and R.M. Kelly. 2004. Significance of polysaccharides in the microbial physiology and ecology of hot deep-sea subsurface biotopes. American Geophysical Union Monograph Series 144 on The Subseafloor Biosphere at Mid-Ocean Ridges, W. Wilcock, C. Cary, E. DeLong, D. Kelley, and J. Baross, Eds., pp. 213-226.

14. Gao, J., D.E. Ward, and R.M. Kelly. 2002. Hyperthermophiles. Encyclopedia of Environmental Microbiology, G. Bitton, Ed., John Wiley and Sons, NY, pp. 1628-1646.

13. Sehgal, A.C., and R.M. Kelly. 2002. Extremophiles. Encyclopedia of Catalysis, I.T. Horváth, Ed., John Wiley and Sons, NY.

12. Hicks, P.M., M.W.W. Adams, and R.M. Kelly. 1999. Hyperthermophilic enzymes. Encyclopedia of Bioprocess Technology, M.C. Flickinger and S.W. Drew, Eds., John Wiley and Sons, NY, pp. 987-1004.

11. Hicks, P.M., and R.M. Kelly. 1999. Extremely thermophilic microorganisms. Encyclopedia of Bioprocess Technology, M.C. Flickinger and S.W. Drew, eds., John Wiley and Sons, NY, pp. 2536-2552.

10. Tayal, A., V.B. Pai, R.M. Kelly and S.A. Khan. 1998. Enzymatic modification of guar solutions: viscosity – Molecular weight relationship, Water Soluble Polymers: Solution Properties and Applications, Ed. Z. Amjad, Plenum Press, pp. 41-49.

9. Rinker, K.D., C.J. Han, M.W.W. Adams, and R.M. Kelly. 1999. Cultivation of hyperthermophilic and extremely thermoacidophilic microorganisms. ASM Manual of Industrial Microbiology and Biotechnology, 2nd Edition.

8. Hicks, P.M., and R. M. Kelly. 1998. Pyrococcus furiosus Protease I (PfpI) in Handbook of Proteolytic Enzymes, F. Woessner, N. Rawlings, A. Barrett, eds., Academic Press Limited, London.

7. Kelly, R.M. Biochemical engineering. McGraw-Hill Encyclopedia of Science and Technology, 8th Ed., 1995.

6. Schicho, R.N., S.H. Brown, I.I. Blumentals, T.L. Peeples, G.D. Duffaud and R.M. Kelly. 1995. Continuous culture techniques for extremely thermophilic and hyperthermophilic microorganisms, in Archaea – A Laboratory Manual, F.T. Robb, ed., Cold Spring Harbor Press.

5. Kelly, R.M., and G. Whitesides. Biocatalysis: An overview, in Biomolecular Engineering, National Institutes of Health, G. Georgiou and I. Glowinski, eds., NIH Press.

4. Kelly, R.M. 1993. Biocatalysis at extreme temperatures, in Biomolecular Engineering, National Institutes of Health, G. Georgiou and I. Glowinski, eds., NIH Press.

3. Kelly, R.M., S.H. Brown, I.I. Blumentals, and M.W.W. Adams. 1992. Characterization of Enzymes from High Temperature Bacteria, in Biocatalysis at Extreme Temperatures, M.W.W. Adams and R.M. Kelly, eds., ACS Symposium Series No. 498, pp. 23-42.

2. Adams, M.W.W., J.-B. Park, S. Mukund, J. Blamey, and R.M. Kelly. 1992. Biocatalysis near and above 100°C by sulfur-dependent extremely thermophilic organisms. in Biocalalysis at Extreme Temperatures, M.W.W. Adams and R.M. Kelly, eds., ACS Symposium Series No. 498, pp. 4-23 .

1. Olson, G.J., and R.M. Kelly. 1990. Microbiological Processing of Coal. in Biotechnology Applied to Fossil Fuels, D.L. Wise, ed., Marcel Dekker, New York.