Sequencing of multiple clostridial genomes related to biomass conversion and biofuel production

Christopher L. Hemme; Housna Mouttaki; Yong Jin Lee; Gengxin Zhang; Lynne Goodwin; Susan Lucas; Alex Copeland; Alla Lapidus; Tijana Glavina Del Rio; Hope Tice; Elizabeth Saunders; Thomas Brettin; John C. Detter; Cliff S. Han; Sam Pitluck; Miriam L. Land; Loren J. Hauser; Nikos Kyrpides; Natalia Mikhailova; Zhili He; Liyou Wu; Joy D. Van Nostrand; Bernard Henrissat; Qiang He; Paul A. Lawson; Ralph S. Tanner; Lee R. Lynd; Juergen Wiegel; Matthew W. Fields; Adam P. Arkin; Christopher W. Schadt; Bradley S. Stevenson; Michael J. McInerney; Yunfeng Yang; Hailiang Dong; Defeng Xing; Nanqi Ren; Aijie Wang; Raymond L. Huhnke; Jonathan R. Mielenz; Shi You Ding; Michael E. Himmel; Safiyh Taghavi; Daniël Van Der Lelie; Edward M. Rubin; Jizhong Zhou

doi:10.1128/JB.01064-10

Sequencing of multiple clostridial genomes related to biomass conversion and biofuel production

Christopher L. Hemme, Housna Mouttaki, Yong Jin Lee, Gengxin Zhang, Lynne Goodwin, Susan Lucas, Alex Copeland, Alla Lapidus, Tijana Glavina Del Rio, Hope Tice, Elizabeth Saunders, Thomas Brettin, John C. Detter, Cliff S. Han, Sam Pitluck, Miriam L. Land, Loren J. Hauser, Nikos Kyrpides, Natalia Mikhailova, Zhili HeLiyou Wu, Joy D. Van Nostrand, Bernard Henrissat, Qiang He, Paul A. Lawson, Ralph S. Tanner, Lee R. Lynd, Juergen Wiegel, Matthew W. Fields, Adam P. Arkin, Christopher W. Schadt, Bradley S. Stevenson, Michael J. McInerney, Yunfeng Yang, Hailiang Dong, Defeng Xing, Nanqi Ren, Aijie Wang, Raymond L. Huhnke, Jonathan R. Mielenz, Shi You Ding, Michael E. Himmel, Safiyh Taghavi, Daniël Van Der Lelie, Edward M. Rubin, Jizhong Zhou

Integrative Microbiomics

Research output: Contribution to journal › Article › peer-review

73 Scopus citations

Abstract

Modern methods to develop microbe-based biomass conversion processes require a system-level understanding of the microbes involved. Clostridium species have long been recognized as ideal candidates for processes involving biomass conversion and production of various biofuels and other industrial products. To expand the knowledge base for clostridial species relevant to current biofuel production efforts, we have sequenced the genomes of 20 species spanning multiple genera. The majority of species sequenced fall within the class III cellulosome-encoding Clostridium and the class V saccharolytic Thermoanaerobacteraceae. Species were chosen based on representation in the experimental literature as model organisms, ability to degrade cellulosic biomass either by free enzymes or by cellulosomes, ability to rapidly ferment hexose and pentose sugars to ethanol, and ability to ferment synthesis gas to ethanol. The sequenced strains significantly increase the number of noncommensal/nonpathogenic clostridial species and provide a key foundation for future studies of biomass conversion, cellulosome composition, and clostridial systems biology.

Original language	English
Pages (from-to)	6494-6496
Number of pages	3
Journal	Journal of Bacteriology
Volume	192
Issue number	24
DOIs	https://doi.org/10.1128/JB.01064-10
State	Published - Dec 2010

Funding

Funders	Funder number
National Science Foundation	0814361

UN SDGs

This output contributes to the following UN Sustainable Development Goals (SDGs)

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10.1128/JB.01064-10

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Hemme, C. L., Mouttaki, H., Lee, Y. J., Zhang, G., Goodwin, L., Lucas, S., Copeland, A., Lapidus, A., Del Rio, T. G., Tice, H., Saunders, E., Brettin, T., Detter, J. C., Han, C. S., Pitluck, S., Land, M. L., Hauser, L. J., Kyrpides, N., Mikhailova, N., ... Zhou, J. (2010). Sequencing of multiple clostridial genomes related to biomass conversion and biofuel production. Journal of Bacteriology, 192(24), 6494-6496. https://doi.org/10.1128/JB.01064-10

@article{1f8c1da557534c0399003b6b3e780ce4,

title = "Sequencing of multiple clostridial genomes related to biomass conversion and biofuel production",

abstract = "Modern methods to develop microbe-based biomass conversion processes require a system-level understanding of the microbes involved. Clostridium species have long been recognized as ideal candidates for processes involving biomass conversion and production of various biofuels and other industrial products. To expand the knowledge base for clostridial species relevant to current biofuel production efforts, we have sequenced the genomes of 20 species spanning multiple genera. The majority of species sequenced fall within the class III cellulosome-encoding Clostridium and the class V saccharolytic Thermoanaerobacteraceae. Species were chosen based on representation in the experimental literature as model organisms, ability to degrade cellulosic biomass either by free enzymes or by cellulosomes, ability to rapidly ferment hexose and pentose sugars to ethanol, and ability to ferment synthesis gas to ethanol. The sequenced strains significantly increase the number of noncommensal/nonpathogenic clostridial species and provide a key foundation for future studies of biomass conversion, cellulosome composition, and clostridial systems biology.",

author = "Hemme, {Christopher L.} and Housna Mouttaki and Lee, {Yong Jin} and Gengxin Zhang and Lynne Goodwin and Susan Lucas and Alex Copeland and Alla Lapidus and {Del Rio}, {Tijana Glavina} and Hope Tice and Elizabeth Saunders and Thomas Brettin and Detter, {John C.} and Han, {Cliff S.} and Sam Pitluck and Land, {Miriam L.} and Hauser, {Loren J.} and Nikos Kyrpides and Natalia Mikhailova and Zhili He and Liyou Wu and {Van Nostrand}, {Joy D.} and Bernard Henrissat and Qiang He and Lawson, {Paul A.} and Tanner, {Ralph S.} and Lynd, {Lee R.} and Juergen Wiegel and Fields, {Matthew W.} and Arkin, {Adam P.} and Schadt, {Christopher W.} and Stevenson, {Bradley S.} and McInerney, {Michael J.} and Yunfeng Yang and Hailiang Dong and Defeng Xing and Nanqi Ren and Aijie Wang and Huhnke, {Raymond L.} and Mielenz, {Jonathan R.} and Ding, {Shi You} and Himmel, {Michael E.} and Safiyh Taghavi and {Van Der Lelie}, Dani{\"e}l and Rubin, {Edward M.} and Jizhong Zhou",

year = "2010",

month = dec,

doi = "10.1128/JB.01064-10",

language = "English",

volume = "192",

pages = "6494--6496",

journal = "Journal of Bacteriology",

issn = "0021-9193",

publisher = "American Society for Microbiology",

number = "24",

}

Hemme, CL, Mouttaki, H, Lee, YJ, Zhang, G, Goodwin, L, Lucas, S, Copeland, A, Lapidus, A, Del Rio, TG, Tice, H, Saunders, E, Brettin, T, Detter, JC, Han, CS, Pitluck, S, Land, ML, Hauser, LJ, Kyrpides, N, Mikhailova, N, He, Z, Wu, L, Van Nostrand, JD, Henrissat, B, He, Q, Lawson, PA, Tanner, RS, Lynd, LR, Wiegel, J, Fields, MW, Arkin, AP, Schadt, CW, Stevenson, BS, McInerney, MJ, Yang, Y, Dong, H, Xing, D, Ren, N, Wang, A, Huhnke, RL, Mielenz, JR, Ding, SY, Himmel, ME, Taghavi, S, Van Der Lelie, D, Rubin, EM & Zhou, J 2010, 'Sequencing of multiple clostridial genomes related to biomass conversion and biofuel production', Journal of Bacteriology, vol. 192, no. 24, pp. 6494-6496. https://doi.org/10.1128/JB.01064-10

TY - JOUR

T1 - Sequencing of multiple clostridial genomes related to biomass conversion and biofuel production

AU - Hemme, Christopher L.

AU - Mouttaki, Housna

AU - Lee, Yong Jin

AU - Zhang, Gengxin

AU - Goodwin, Lynne

AU - Lucas, Susan

AU - Copeland, Alex

AU - Lapidus, Alla

AU - Del Rio, Tijana Glavina

AU - Tice, Hope

AU - Saunders, Elizabeth

AU - Brettin, Thomas

AU - Detter, John C.

AU - Han, Cliff S.

AU - Pitluck, Sam

AU - Land, Miriam L.

AU - Hauser, Loren J.

AU - Kyrpides, Nikos

AU - Mikhailova, Natalia

AU - He, Zhili

AU - Wu, Liyou

AU - Van Nostrand, Joy D.

AU - Henrissat, Bernard

AU - He, Qiang

AU - Lawson, Paul A.

AU - Tanner, Ralph S.

AU - Lynd, Lee R.

AU - Wiegel, Juergen

AU - Fields, Matthew W.

AU - Arkin, Adam P.

AU - Schadt, Christopher W.

AU - Stevenson, Bradley S.

AU - McInerney, Michael J.

AU - Yang, Yunfeng

AU - Dong, Hailiang

AU - Xing, Defeng

AU - Ren, Nanqi

AU - Wang, Aijie

AU - Huhnke, Raymond L.

AU - Mielenz, Jonathan R.

AU - Ding, Shi You

AU - Himmel, Michael E.

AU - Taghavi, Safiyh

AU - Van Der Lelie, Daniël

AU - Rubin, Edward M.

AU - Zhou, Jizhong

PY - 2010/12

Y1 - 2010/12

N2 - Modern methods to develop microbe-based biomass conversion processes require a system-level understanding of the microbes involved. Clostridium species have long been recognized as ideal candidates for processes involving biomass conversion and production of various biofuels and other industrial products. To expand the knowledge base for clostridial species relevant to current biofuel production efforts, we have sequenced the genomes of 20 species spanning multiple genera. The majority of species sequenced fall within the class III cellulosome-encoding Clostridium and the class V saccharolytic Thermoanaerobacteraceae. Species were chosen based on representation in the experimental literature as model organisms, ability to degrade cellulosic biomass either by free enzymes or by cellulosomes, ability to rapidly ferment hexose and pentose sugars to ethanol, and ability to ferment synthesis gas to ethanol. The sequenced strains significantly increase the number of noncommensal/nonpathogenic clostridial species and provide a key foundation for future studies of biomass conversion, cellulosome composition, and clostridial systems biology.

AB - Modern methods to develop microbe-based biomass conversion processes require a system-level understanding of the microbes involved. Clostridium species have long been recognized as ideal candidates for processes involving biomass conversion and production of various biofuels and other industrial products. To expand the knowledge base for clostridial species relevant to current biofuel production efforts, we have sequenced the genomes of 20 species spanning multiple genera. The majority of species sequenced fall within the class III cellulosome-encoding Clostridium and the class V saccharolytic Thermoanaerobacteraceae. Species were chosen based on representation in the experimental literature as model organisms, ability to degrade cellulosic biomass either by free enzymes or by cellulosomes, ability to rapidly ferment hexose and pentose sugars to ethanol, and ability to ferment synthesis gas to ethanol. The sequenced strains significantly increase the number of noncommensal/nonpathogenic clostridial species and provide a key foundation for future studies of biomass conversion, cellulosome composition, and clostridial systems biology.

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DO - 10.1128/JB.01064-10

M3 - Article

C2 - 20889752

AN - SCOPUS:78649689623

SN - 0021-9193

VL - 192

SP - 6494

EP - 6496

JO - Journal of Bacteriology

JF - Journal of Bacteriology

IS - 24

ER -

Sequencing of multiple clostridial genomes related to biomass conversion and biofuel production

Abstract

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UN SDGs

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