Extremely thermophilic microorganisms for biomass conversion: status and prospects
Abstract
Many microorganisms that grow at elevated temperatures are able to utilize a variety of carbohydrates pertinent to the conversion of lignocellulosic biomass to bioenergy. The range of substrates utilized depends on growth temperature optimum and biotope. Hyperthermophilic marine archaea (T(opt)>or=80 degrees C) utilize alpha- and beta-linked glucans, such as starch, barley glucan, laminarin, and chitin, while hyperthermophilic marine bacteria (T(opt)>or=80 degrees C) utilize the same glucans as well as hemicellulose, such as xylans and mannans. However, none of these organisms are able to efficiently utilize crystalline cellulose. Among the thermophiles, this ability is limited to a few terrestrial bacteria with upper temperature limits for growth near 75 degrees C. Deconstruction of crystalline cellulose by these extreme thermophiles is achieved by 'free' primary cellulases, which are distinct from those typically associated with large multi-enzyme complexes known as cellulosomes. These primary cellulases also differ from the endoglucanases (referred to here as 'secondary cellulases') reported from marine hyperthermophiles that show only weak activity toward cellulose. Many extremely thermophilic enzymes implicated in the deconstruction of lignocellulose can be identified in genome sequences, and many more promising biocatalysts probably remain annotated as 'hypothetical proteins'. Characterization of these enzymes will require intensive effort but is likely to generate new opportunities for the use of renewable resources as biofuels.
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A higher mutation rate can only be beneficial to a certain extent as it also results in a genetic load.
“It is clear that a higher mutation rate can only be beneficial to a certain extent as it also results in a genetic load [142].”
From Adaptive laboratory evolution—Principles and applications for biotechnology (2013) · cites this paper as [142]
Cites
PHYLIP-Phylogeny inference package (Version 3.2)
Felsenstein, J. (1989) · Cladistics · Cited by 17,848 · see citing works
Nelson, K. E., Clayton, R. A., Gill, S. R., Gwinn, M. L., Dodson, R. J., Haft, D. H., Hickey, E. K., Peterson, J. D., Nelson, W. C., Ketchum, K. A., et al. (1999) · Nature · doi:10.1038/20601 · Cited by 1,493 · see citing works
How biotech can transform biofuels
Lynd, L. R., Laser, M. S., Bransby, D., Dale, B. E., Davison, B., Hamilton, R., Himmel, M., Keller, M., McMillan, J. D., Sheehan, J., et al. (2008) · Nature Biotechnology · doi:10.1038/nbt0208-169 · Cited by 1,121 · see citing works
Fiala, G., & STETTER, K. O. (1986) · Archives of Microbiology · doi:10.1007/bf00413027 · Cited by 932 · see citing works
Huber, R., Langworthy, T. A., K�nig, H., Thomm, M., Woese, C. R., Sleytr, U. B., & STETTER, K. O. (1986) · Archives of Microbiology · doi:10.1007/bf00409880 · Cited by 778 · see citing works
The complete genome of the crenarchaeon Sulfolobus solfataricus P2
She, Q., Singh, R. K., Confalonieri, F., Zivanovic, Y., Allard, G., Awayez, M., Chan-Weiher, C. C.-Y., Clausen, I. G., Curtis, B. A., Moors, A. D., et al. (2001) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.141222098 · Cited by 775 · see citing works
Kawarabayasi, Y. (1998) · DNA Research · doi:10.1093/dnares/5.2.55 · Cited by 691 · see citing works
Fukui, T., Atomi, H., Kanai, T., Matsumi, R., Fujiwara, S., & Imanaka, T. (2005) · Genome Research · doi:10.1101/gr.3003105 · Cited by 425 · see citing works
Grau, J. M. G., Masuchi, Y., Robb, F. T., et al. (1998) · Extremophiles · doi:10.1007/s007920050051 · Cited by 254 · see citing works
Zhang, Y. ‐. P., & Lynd, L. R. (2005) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0408734102 · Cited by 241 · see citing works
Balk, M., Weijma, J., & Stams, A. J. M. (2002) · INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY · doi:10.1099/00207713-52-4-1361 · Cited by 235 · see citing works
Enzyme–microbe synergy during cellulose hydrolysis by Clostridium thermocellum
Lu, Y., Zhang, Y. ‐. P., & Lynd, L. R. (2006) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0605381103 · Cited by 221 · see citing works
Kádár, Z., VRIJE, T. D., van Noorden, G. E., et al. (2004) · Applied Biochemistry and Biotechnology · doi:10.1385/abab:114:1-3:497 · Cited by 196 · see citing works
Rainey, F. A., Donnison, A. M., Janssen, P. H., Saul, D. J., Rodrigo, A. G., Bergquist, P. L., Daniel, R. M., Stackebrandt, E. S., & Morgan, H. W. (1994) · FEMS Microbiology Letters · doi:10.1111/j.1574-6968.1994.tb07043.x · Cited by 191 · see citing works
Characterization of Clostridium thermocellum JW20
Freier, D., Mothershed, C. P., & Wiegel, J. (1988) · Applied and Environmental Microbiology · doi:10.1128/aem.54.1.204-211.1988 · Cited by 186 · see citing works
An integrated analysis of the genome of the hyperthermophilic archaeon Pyrococcus abyssi
Cohen, G. N., Barbe, V., Flament, D., Galperin, M. Y., Heilig, R., Lecompte, O., Poch, O., Prieur, D., Quérellou, J., Ripp, R., et al. (2003) · Molecular Microbiology · doi:10.1046/j.1365-2958.2003.03381.x · Cited by 183 · see citing works
VRIJE, T. D., Mars, A. E., Budde, M. A. W., et al. (2007) · Applied Microbiology and Biotechnology · doi:10.1007/s00253-006-0783-x · Cited by 180 · see citing works
Cellulases of Mesophilic Microorganisms
Doi, R. H. (2008) · Annals of the New York Academy of Sciences · doi:10.1196/annals.1419.002 · Cited by 169 · see citing works
Zverlov, V. V., Mahr, S., Riedel, K., et al. (1998) · Microbiology · doi:10.1099/00221287-144-2-457 · Cited by 162 · see citing works
Thermotoga elfii sp. nov., a Novel Thermophilic Bacterium from an African Oil-Producing Well
Ravot, G., Magot, M., Fardeau, M.-L., et al. (1995) · International Journal of Systematic Bacteriology · doi:10.1099/00207713-45-2-308 · Cited by 160 · see citing works
Bauer, M. W., Driskill, L. E., Callen, W. N., et al. (1999) · Journal of Bacteriology · doi:10.1128/jb.181.1.284-290.1999 · Cited by 144 · see citing works
Gueguen, Y., Voorhorst, W. G. B., John van der, O. O. S. T., et al. (1997) · Journal of Biological Chemistry · doi:10.1074/jbc.272.50.31258 · Cited by 142 · see citing works
Zverlov, V. V., Kellermann, J., & Schwarz, W. H. (2005) · PROTEOMICS · doi:10.1002/pmic.200401199 · Cited by 140 · see citing works
Cellulosomes: microbial nanomachines that display plasticity in quaternary structure
Gilbert, H. J. (2007) · Molecular Microbiology · doi:10.1111/j.1365-2958.2007.05640.x · Cited by 140 · see citing works
Chhabra, S. R., Shockley, K. R., Conners, S. B., Scott, K. L., Wolfinger, R. D., & Kelly, R. M. (2003) · Journal of Biological Chemistry · doi:10.1074/jbc.m211748200 · Cited by 139 · see citing works
Self-citationMaeder, D. L., Weiss, R. B., Dunn, D. M., Cherry, J. L., Grau, J. M. G., DiRuggiero, J., & Robb, F. T. (1999) · Genetics · doi:10.1093/genetics/152.4.1299 · Cited by 136 · see citing works
Hyperthermostable Endoglucanase from Pyrococcus horikoshii
Ando, S., Ishida, H., Kosugi, Y., et al. (2002) · Applied and Environmental Microbiology · doi:10.1128/aem.68.1.430-433.2002 · Cited by 135 · see citing works
Purification of Thermotoga maritima enzymes for the degradation of cellulosic materials
Bronnenmeier, K., Kern, A. D., Liebl, W., et al. (1995) · Applied and Environmental Microbiology · doi:10.1128/aem.61.4.1399-1407.1995 · Cited by 135 · see citing works
Microbial biochemistry, physiology, and biotechnology of hyperthermophilicThermotogaspecies
Conners, S. B., Mongodin, E. F., Johnson, M. R., Montero, C. I., Nelson, K. E., & Kelly, R. M. (2006) · FEMS Microbiology Reviews · doi:10.1111/j.1574-6976.2006.00039.x · Cited by 132 · see citing works
Self-citationTakahata, Y., Nishijima, M., Hoaki, T., et al. (2001) · INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY · doi:10.1099/00207713-51-5-1901 · Cited by 127 · see citing works
Tanaka, T., Fukui, T., Atomi, H., et al. (2003) · Journal of Bacteriology · doi:10.1128/jb.185.17.5175-5181.2003 · Cited by 105 · see citing works
Berger, E., Zhang, D., Zverlov, V. V., et al. (2007) · FEMS Microbiology Letters · doi:10.1111/j.1574-6968.2006.00583.x · Cited by 98 · see citing works
Lee, S., Engelmann, A., Horlacher, R., et al. (2003) · Journal of Biological Chemistry · doi:10.1074/jbc.m210236200 · Cited by 97 · see citing works
Cannio, R., Prizito, N. D., Rossi, M., et al. (2004) · Extremophiles · doi:10.1007/s00792-003-0370-3 · Cited by 94 · see citing works
SAIKI, T., Kobayashi, Y., Kawagoe, K., et al. (1985) · International Journal of Systematic Bacteriology · doi:10.1099/00207713-35-3-253 · Cited by 92 · see citing works
Kanai, T., Akerboom, J., Takedomi, S., et al. (2007) · Journal of Biological Chemistry · doi:10.1074/jbc.m703424200 · Cited by 91 · see citing works
Lecompte, O., Ripp, R., Barbe, V., Duprat, S., Heilig, R., Dietrich, J., Thierry, J., & Poch, O. (2001) · Genome Research · doi:10.1101/gr.165301 · Cited by 86 · see citing works
Ooteghem, S. A. V., Jones, A., van der Lelie, D., et al. (2004) · Biotechnology Letters · doi:10.1023/b:bile.0000036602.75427.88 · Cited by 85 · see citing works
Conners, S. B., Montero, C. I., Comfort, D. A., Shockley, K. R., Johnson, M. R., Chhabra, S. R., & Kelly, R. M. (2005) · Journal of Bacteriology · doi:10.1128/jb.187.21.7267-7282.2005 · Cited by 84 · see citing works
Self-citationBredholt, S., Sonne-Hansen, J., Nielsen, P., et al. (1999) · INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY · doi:10.1099/00207713-49-3-991 · Cited by 83 · see citing works
Lee, H., Shockley, K. R., Schut, G. J., et al. (2006) · Journal of Bacteriology · doi:10.1128/jb.188.6.2115-2125.2006 · Cited by 81 · see citing works
Te’o, J., Saul, D. J., & Bergquist, P. L. (1995) · Applied Microbiology and Biotechnology · doi:10.1007/bf00172827 · Cited by 73 · see citing works
Lecompte, O. (2001) · Genome Research · doi:10.1101/gr.gr1653r · Cited by 73 · see citing works
Nanavati, D. M., Thirangoon, K., & Noll, K. M. (2006) · Applied and Environmental Microbiology · doi:10.1128/aem.72.2.1336-1345.2006 · Cited by 69 · see citing works
Polysaccharide Degradation and Synthesis by Extremely Thermophilic Anaerobes
VanFossen, A. L., Lewis, D. L., Nichols, J. D., et al. (2008) · Annals of the New York Academy of Sciences · doi:10.1196/annals.1419.017 · Cited by 66 · see citing works
Gibbs, M. D., Reeves, R. A., Farrington, G. K., et al. (2000) · Current Microbiology · doi:10.1007/s002849910066 · Cited by 65 · see citing works
Lee, S., Moulakakis, C., Koning, S. M., et al. (2005) · Molecular Microbiology · doi:10.1111/j.1365-2958.2005.04804.x · Cited by 62 · see citing works
Kluskens, L., van Alebeek, G. W. M., Voragen, A. G. J., et al. (2003) · Biochemical Journal · doi:10.1042/bj20021595 · Cited by 62 · see citing works
Jiang, Z., Zhu, Y., Li-te, L., et al. (2004) · Journal of Biotechnology · doi:10.1016/j.jbiotec.2004.05.007 · Cited by 59 · see citing works
Hydrogen Production from Paper Sludge Hydrolysate
Kádár, Z., VRIJE, T. D., Budde, M. A. W., et al. (2003) · Applied Biochemistry and Biotechnology · doi:10.1385/abab:107:1-3:557 · Cited by 59 · see citing works
Completing the sequence of the Sulfolobus solfataricus P2 genome
Sensen, C. W., Charlebois, R. L., Chow, C., et al. (1998) · Extremophiles · doi:10.1007/s007920050073 · Cited by 57 · see citing works
Kambourova, M. S., Mandeva, R., Fiume, I., et al. (2006) · Journal of Applied Microbiology · doi:10.1111/j.1365-2672.2006.03197.x · Cited by 56 · see citing works
Improvement of the enzymatic activity of the hyperthermophilic cellulase from Pyrococcus horikoshii
Kang, H., Uegaki, K., Fukada, H., et al. (2006) · Extremophiles · doi:10.1007/s00792-006-0033-2 · Cited by 54 · see citing works
Kluskens, L., van Alebeek, G. W. M., Walther, J., et al. (2005) · FEBS Journal · doi:10.1111/j.1742-4658.2005.04935.x · Cited by 52 · see citing works
Flikweert, M. T., Kuyper, M., van Maris, A. J. A., K�tter, P., van Dijken, J. P., & Pronk, J. T. (1999) · Biotechnology and Bioengineering · doi:10.1002/(sici)1097-0290(1999)66:1 · Cited by 47 · see citing works
Xylanase Attachment to the Cell Wall of the Hyperthermophilic Bacterium Thermotoga maritima
Liebl, W., Winterhalter, C., Baumeister, W. P., et al. (2007) · Journal of Bacteriology · doi:10.1128/jb.01149-07 · Cited by 42 · see citing works
Kashima, Y., Mori, K., Fukada, H., et al. (2004) · Extremophiles · doi:10.1007/s00792-004-0418-z · Cited by 40 · see citing works
Kaper, T., van Heusden, H. H., van Loo, B., et al. (2002) · Biochemistry · doi:10.1021/bi011935a · Cited by 39 · see citing works
Morana, A., Paris, O., Maurelli, L., et al. (2006) · Extremophiles · doi:10.1007/s00792-006-0020-7 · Cited by 38 · see citing works
Chitinase from Thermococcus kodakaraensis KOD1
Imanaka, T., Fukui, T., & Fujiwara, S. (2001) · Methods in enzymology on CD-ROM/Methods in enzymology · doi:10.1016/s0076-6879(01)30385-3 · Cited by 35 · see citing works
Isolation and characterization of an extremely thermophilic, cellulolytic, anaerobic bacterium
Taya, M., Hinoki, H., Yagi, T., et al. (1988) · Applied Microbiology and Biotechnology · doi:10.1007/bf00269071 · Cited by 32 · see citing works
Lee, S., Surma, M., Seitz, S., et al. (2007) · Molecular Microbiology · doi:10.1111/j.1365-2958.2007.05780.x · Cited by 32 · see citing works
Jiang, Z., Deng, W., Yan, Q., et al. (2006) · Journal of Biotechnology · doi:10.1016/j.jbiotec.2006.05.006 · Cited by 28 · see citing works
Lee, S., Surma, M., Seitz, S., et al. (2007) · Molecular Microbiology · doi:10.1111/j.1365-2958.2007.05737.x · Cited by 26 · see citing works
Ohtsuki, T., Suyanto, S., Yazaki, S., et al. (2005) · Letters in Applied Microbiology · doi:10.1111/j.1472-765x.2004.01644.x · Cited by 26 · see citing works
Driskill, L. E., Bauer, M. W., & Kelly, R. M. (1999) · PubMed · Cited by 25 · see citing works
Self-citationKleine, J., & Liebl, W. (2006) · Extremophiles · doi:10.1007/s00792-006-0509-0 · Cited by 22 · see citing works
Yang, H., Ichinose, H., Yoshida, M., et al. (2006) · Bioscience Biotechnology and Biochemistry · doi:10.1271/bbb.70.538 · Cited by 19 · see citing works
Xue, Y., Wu, A., Zeng, H., et al. (2006) · Biotechnology Letters · doi:10.1007/s10529-005-5934-0 · Cited by 13 · see citing works
Bolshakova, E. V., Ponomariev, A. A., Novikov, A. A., et al. (1994) · Biochemical and Biophysical Research Communications · doi:10.1006/bbrc.1994.2038 · Cited by 11 · see citing works
Variation of xylanosomal subunit composition of Streptomyces olivaceoviridis by nitrogen sources
Deng, W., Jiang, Z., Li-te, L., et al. (2005) · Biotechnology Letters · doi:10.1007/s10529-005-1880-0 · Cited by 9 · see citing works
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Dragosits, M., & Mattanovich, D. (2013) · Microbial Cell Factories · doi:10.1186/1475-2859-12-64 · Cited by 827 · see citing works
- Authors
- Blumer-Schuette, S. E., Kataeva, I., Westpheling, J., Adams, M. W., & Kelly, R. M.
- Affiliations
- Oak Ridge National Laboratory (US)
- Corresponding author
- Kelly, Robert M
- Venue
- Current Opinion in Biotechnology
- Publisher
- Elsevier BV
- Published
- 2008-06
- Volume
- 19
- Issue
- 3
- Pages
- 210-217
- ISSN
- 0958-1669 (ISSN-L)
- OpenAlex
- W2143926699
- Cited by
- 269
- References
- 71
- Citations by year
- 2026: 2 · 2025: 3 · 2024: 9 · 2023: 8 · 2022: 8 · 2021: 8 · 2020: 10 · 2019: 8 · 2018: 21 · 2017: 18 · 2016: 11 · 2015: 19 · 2014: 23 · 2013: 30 · 2012: 30
- FWCI
- 1.54
- Type
- journal article
- Language
- en
- Open access
- closed
- Locations
- Current Opinion in Biotechnology (publishedVersion)
- PubMed (publishedVersion)
- Funders
- National Science Foundation
- U.S. Department of Energy
- Office of Science
- Biological and Environmental Research
- Topics
- Physical Sciences › Engineering › Biomedical Engineering › Biofuel production and bioconversion
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Biotechnology › Enzyme Production and Characterization
- Physical Sciences › Engineering › Building and Construction › Anaerobic Digestion and Biogas Production
- Keywords
- lignocellulosic biomass conversion, hyperthermophilic archaea, hyperthermophilic bacteria, endoglucanase, cellulosome, glucan, hemicellulose, biofuels, biocatalysts, carbohydrate utilization
- MeSH terms
- Archaea, Bacteria, Bioelectric Energy Sources, Biotechnology, Cellulase, Cellulose, Energy-Generating Resources, Hot Temperature, Marine Biology, Phylogeny, Biomass, Carbohydrate Metabolism
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