The Physiological Functions and Structural Determinants of Catalytic Bias in the [FeFe]-Hydrogenases CpI and CpII of Clostridium pasteurianum Strain W5
Abstract
Here, the first generation of biochemical studies of complex, iron-sulfur-cluster-containing [FeFe]-hydrogenases and Mo-nitrogenase were carried out on enzymes purified from Clostridium pasteurianum (strain W5). Previous studies suggested that two distinct [FeFe]-hydrogenases are expressed differentially under nitrogen-fixing and non-nitrogen-fixing conditions. As a result, the first characterized [FeFe]-hydrogenase (CpI) is presumed to have a primary role in central metabolism, recycling reduced electron carriers that accumulate during fermentation via proton reduction. A role for capturing reducing equivalents released as hydrogen during nitrogen fixation has been proposed for the second hydrogenase, CpII. Biochemical characterization of CpI and CpII indicated CpI has extremely high hydrogen production activity in comparison to CpII, while CpII has elevated hydrogen oxidation activity in comparison to CpI when assayed under the same conditions. This suggests that these enzymes have evolved a catalytic bias to support their respective physiological functions. Using the published genome of C. pasteurianum (strain W5) hydrogenase sequences were identified, including the already known [NiFe]-hydrogenase, CpI, and CpII sequences, and a third hydrogenase, CpIII was identified in the genome as well. Quantitative real-time PCR experiments were performed in order to analyze transcript abundance of the hydrogenases under diazotrophic and non-diazotrophic growth conditions. There is a markedly reduced levelmore »
- Authors:
-
- Montana State Univ., Bozeman, MT (United States)
- Montana State Univ., Bozeman, MT (United States); Washington State Univ., Pullman, WA (United States)
- Montana State Univ., Bozeman, MT (United States); Univ. of Cincinnati, Cincinnati, OH (United States)
- The Pennsylvania State Univ., University Park, PA (United States); Univ. of Southern California, Los Angeles, CA (United States)
- National Renewable Energy Lab. (NREL), Golden, CO (United States)
- Univ. of Georgia, Athens, GA (United States)
- Montana State Univ., Bozeman, MT (United States); The Pennsylvania State Univ., University Park, PA (United States)
- Publication Date:
- Research Org.:
- National Renewable Energy Laboratory (NREL), Golden, CO (United States); Energy Frontier Research Centers (EFRC) (United States). Center for Biological Electron Transfer and Catalysis (BETCy)
- Sponsoring Org.:
- USDOE Office of Science (SC), Basic Energy Sciences (BES)
- OSTI Identifier:
- 1371832
- Report Number(s):
- NREL/JA-2700-68736
Journal ID: ISSN 1664-302X
- Grant/Contract Number:
- AC36-08GO28308
- Resource Type:
- Accepted Manuscript
- Journal Name:
- Frontiers in Microbiology
- Additional Journal Information:
- Journal Volume: 8; Journal ID: ISSN 1664-302X
- Publisher:
- Frontiers Research Foundation
- Country of Publication:
- United States
- Language:
- English
- Subject:
- 09 BIOMASS FUELS; hydrogenase; nitrogenase Clostridium pasteurianum; hydrogen metabolism; nitrogen metabolism; CpI; CpII
Citation Formats
Therien, Jesse B., Artz, Jacob H., Poudel, Saroj, Hamilton, Trinity L., Liu, Zhenfeng, Noone, Seth M., Adams, Michael W. W., King, Paul W., Bryant, Donald A., Boyd, Eric S., and Peters, John W. The Physiological Functions and Structural Determinants of Catalytic Bias in the [FeFe]-Hydrogenases CpI and CpII of Clostridium pasteurianum Strain W5. United States: N. p., 2017.
Web. doi:10.3389/fmicb.2017.01305.
Therien, Jesse B., Artz, Jacob H., Poudel, Saroj, Hamilton, Trinity L., Liu, Zhenfeng, Noone, Seth M., Adams, Michael W. W., King, Paul W., Bryant, Donald A., Boyd, Eric S., & Peters, John W. The Physiological Functions and Structural Determinants of Catalytic Bias in the [FeFe]-Hydrogenases CpI and CpII of Clostridium pasteurianum Strain W5. United States. https://doi.org/10.3389/fmicb.2017.01305
Therien, Jesse B., Artz, Jacob H., Poudel, Saroj, Hamilton, Trinity L., Liu, Zhenfeng, Noone, Seth M., Adams, Michael W. W., King, Paul W., Bryant, Donald A., Boyd, Eric S., and Peters, John W. Wed .
"The Physiological Functions and Structural Determinants of Catalytic Bias in the [FeFe]-Hydrogenases CpI and CpII of Clostridium pasteurianum Strain W5". United States. https://doi.org/10.3389/fmicb.2017.01305. https://www.osti.gov/servlets/purl/1371832.
@article{osti_1371832,
title = {The Physiological Functions and Structural Determinants of Catalytic Bias in the [FeFe]-Hydrogenases CpI and CpII of Clostridium pasteurianum Strain W5},
author = {Therien, Jesse B. and Artz, Jacob H. and Poudel, Saroj and Hamilton, Trinity L. and Liu, Zhenfeng and Noone, Seth M. and Adams, Michael W. W. and King, Paul W. and Bryant, Donald A. and Boyd, Eric S. and Peters, John W.},
abstractNote = {Here, the first generation of biochemical studies of complex, iron-sulfur-cluster-containing [FeFe]-hydrogenases and Mo-nitrogenase were carried out on enzymes purified from Clostridium pasteurianum (strain W5). Previous studies suggested that two distinct [FeFe]-hydrogenases are expressed differentially under nitrogen-fixing and non-nitrogen-fixing conditions. As a result, the first characterized [FeFe]-hydrogenase (CpI) is presumed to have a primary role in central metabolism, recycling reduced electron carriers that accumulate during fermentation via proton reduction. A role for capturing reducing equivalents released as hydrogen during nitrogen fixation has been proposed for the second hydrogenase, CpII. Biochemical characterization of CpI and CpII indicated CpI has extremely high hydrogen production activity in comparison to CpII, while CpII has elevated hydrogen oxidation activity in comparison to CpI when assayed under the same conditions. This suggests that these enzymes have evolved a catalytic bias to support their respective physiological functions. Using the published genome of C. pasteurianum (strain W5) hydrogenase sequences were identified, including the already known [NiFe]-hydrogenase, CpI, and CpII sequences, and a third hydrogenase, CpIII was identified in the genome as well. Quantitative real-time PCR experiments were performed in order to analyze transcript abundance of the hydrogenases under diazotrophic and non-diazotrophic growth conditions. There is a markedly reduced level of CpI gene expression together with concomitant increases in CpII gene expression under nitrogen-fixing conditions. Structure-based analyses of the CpI and CpII sequences reveal variations in their catalytic sites that may contribute to their alternative physiological roles. This work demonstrates that the physiological roles of CpI and CpII are to evolve and to consume hydrogen, respectively, in concurrence with their catalytic activities in vitro, with CpII capturing excess reducing equivalents under nitrogen fixation conditions. Comparison of the primary sequences of CpI and CpII and their homologs provides an initial basis for identifying key structural determinants that modulate hydrogen production and hydrogen oxidation activities.},
doi = {10.3389/fmicb.2017.01305},
journal = {Frontiers in Microbiology},
number = ,
volume = 8,
place = {United States},
year = {Wed Jul 12 00:00:00 EDT 2017},
month = {Wed Jul 12 00:00:00 EDT 2017}
}
Web of Science
Works referenced in this record:
Draft Genome Sequence of Clostridium pasteurianum NRRL B-598, a Potential Butanol or Hydrogen Producer
journal, March 2014
- Kolek, J.; Sedlar, K.; Provaznik, I.
- Genome Announcements, Vol. 2, Issue 2
Original Design of an Oxygen-Tolerant [NiFe] Hydrogenase: Major Effect of a Valine-to-Cysteine Mutation near the Active Site
journal, February 2011
- Liebgott, Pierre-Pol; de Lacey, Antonio L.; Burlat, Bénédicte
- Journal of the American Chemical Society, Vol. 133, Issue 4
Genome sequence of Clostridium sporogenes DSM 795T, an amino acid-degrading, nontoxic surrogate of neurotoxin-producing Clostridium botulinum
journal, July 2015
- Poehlein, Anja; Riegel, Karin; König, Sandra M.
- Standards in Genomic Sciences, Vol. 10, Issue 1
[FeFe] hydrogenases and their evolution: a genomic perspective
journal, March 2007
- Meyer, J.
- Cellular and Molecular Life Sciences, Vol. 64, Issue 9, p. 1063-1084
Hitherto Unknown [Fe-Fe]-Hydrogenase Gene Diversity in Anaerobes and Anoxic Enrichments from a Moderately Acidic Fen
journal, January 2010
- Schmidt, O.; Drake, H. L.; Horn, M. A.
- Applied and Environmental Microbiology, Vol. 76, Issue 6
The SWISS-MODEL workspace: a web-based environment for protein structure homology modelling
journal, November 2005
- Arnold, Konstantin; Bordoli, Lorenza; Kopp, Jürgen
- Bioinformatics, Vol. 22, Issue 2
Next-Generation DNA Sequencing Methods
journal, September 2008
- Mardis, Elaine R.
- Annual Review of Genomics and Human Genetics, Vol. 9, Issue 1
Nitrogen Fixation and Hydrogen Metabolism in Cyanobacteria
journal, November 2010
- Bothe, H.; Schmitz, O.; Yates, M. G.
- Microbiology and Molecular Biology Reviews, Vol. 74, Issue 4
Molecular basis of [FeFe]-hydrogenase function
journal, August 2013
- Winkler, Martin; Esselborn, Julian; Happe, Thomas
- Biochimica et Biophysica Acta (BBA) - Bioenergetics, Vol. 1827, Issue 8-9
Bypassing Cultivation To Identify Bacterial Species: Culture-independent genomic approaches identify credibly distinct clusters, avoid cultivation bias, and provide true insights into microbial species
journal, March 2014
- Rodriguez-R, Luis M.; Konstantinidis, Konstantinos T.
- Microbe Magazine, Vol. 9, Issue 3
On the Efficiency of Oxidative Phosphorylation in Membrane Vesicles of Azotobacter vinelandii and of Rhizobium leguminosarum Bacteroids
journal, July 1979
- Laane, Colja; Haaker, Huub; Veeger, Cees
- European Journal of Biochemistry, Vol. 97, Issue 2
Interactive Tree Of Life (iTOL): an online tool for phylogenetic tree display and annotation
journal, October 2006
- Letunic, I.; Bork, P.
- Bioinformatics, Vol. 23, Issue 1
IMG: the integrated microbial genomes database and comparative analysis system
journal, December 2011
- Markowitz, V. M.; Chen, I. -M. A.; Palaniappan, K.
- Nucleic Acids Research, Vol. 40, Issue D1
The structure and mechanism of iron-hydrogenases
journal, November 1990
- Adams, Michael W. W.
- Biochimica et Biophysica Acta (BBA) - Bioenergetics, Vol. 1020, Issue 2, p. 115-145
Novel and neglected issues of acetone–butanol–ethanol (ABE) fermentation by clostridia: Clostridium metabolic diversity, tools for process mapping and continuous fermentation systems
journal, January 2013
- Patakova, Petra; Linhova, Michaela; Rychtera, Mojmir
- Biotechnology Advances, Vol. 31, Issue 1
Unification of [FeFe]-hydrogenases into three structural and functional groups
journal, September 2016
- Poudel, Saroj; Tokmina-Lukaszewska, Monika; Colman, Daniel R.
- Biochimica et Biophysica Acta (BBA) - General Subjects, Vol. 1860, Issue 9
Mechanism of Proton Transfer in [FeFe]-Hydrogenase from Clostridium pasteurianum
journal, September 2011
- Cornish, Adam J.; Gärtner, Katrin; Yang, Hui
- Journal of Biological Chemistry, Vol. 286, Issue 44
Distinct Physiological Roles of the Three [NiFe]-Hydrogenase Orthologs in the Hyperthermophilic Archaeon Thermococcus kodakarensis
journal, April 2011
- Kanai, T.; Matsuoka, R.; Beppu, H.
- Journal of Bacteriology, Vol. 193, Issue 12
Testing for Phylogenetic Signal in Comparative Data: Behavioral Traits are more Labile
journal, January 2003
- Blomberg, Simon P.; Garland, Theodore; Ives, Anthony R.
- Evolution, Vol. 57, Issue 4
Complete genome sequence of Clostridium pasteurianum NRRL B-598, a non-type strain producing butanol
journal, November 2015
- Sedlar, Karel; Kolek, Jan; Skutkova, Helena
- Journal of Biotechnology, Vol. 214
Ferredoxin and atp, Requirements for Nitrogen Fixation in Cell-Free Extracts of Clostridium Pasteurianum
journal, August 1964
- Mortenson, L. E.
- Proceedings of the National Academy of Sciences, Vol. 52, Issue 2
Direct Detection of a Hydrogen Ligand in the [NiFe] Center of the Regulatory H 2 -Sensing Hydrogenase from Ralstonia e utropha in Its Reduced State by HYSCORE and ENDOR Spectroscopy
journal, October 2003
- Brecht, Marc; van Gastel, Maurice; Buhrke, Thorsten
- Journal of the American Chemical Society, Vol. 125, Issue 43
Improved Draft Genome Sequence of Clostridium pasteurianum Strain ATCC 6013 (DSM 525) Using a Hybrid Next-Generation Sequencing Approach
journal, July 2014
- Pyne, M. E.; Utturkar, S.; Brown, S. D.
- Genome Announcements, Vol. 2, Issue 4
RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies
journal, January 2014
- Stamatakis, Alexandros
- Bioinformatics, Vol. 30, Issue 9
SWISS-MODEL: an automated protein homology-modeling server
journal, July 2003
- Schwede, T.
- Nucleic Acids Research, Vol. 31, Issue 13
Occurrence, Classification, and Biological Function of Hydrogenases: An Overview
journal, October 2007
- Vignais, Paulette M.; Billoud, Bernard
- Chemical Reviews, Vol. 107, Issue 10, p. 4206-4272
Occurrence, Classification, and Biological Function of Hydrogenases: An Overview
journal, December 2007
- Vignais, Paulette M.; Billoud, Bernard
- ChemInform, Vol. 38, Issue 50
Nickel-Iron-Selenium Hydrogenases - An Overview
journal, January 2011
- Baltazar, Carla S. A.; Marques, Marta C.; Soares, Cláudio M.
- European Journal of Inorganic Chemistry, Vol. 2011, Issue 7
X-ray Crystal Structure of the Fe-Only Hydrogenase (CpI) from Clostridium pasteurianum to 1.8 Angstrom Resolution
journal, December 1998
- Peters, J. W.
- Science, Vol. 282, Issue 5395
Mating pair stabilization mediates bacterial conjugation species specificity
journal, June 2022
- Low, Wen Wen; Wong, Joshua L. C.; Beltran, Leticia C.
- Nature Microbiology, Vol. 7, Issue 7
Occurrence, Classification, and Biological Function of Hydrogenases: An Overview
journal, October 2007
- Vignais, Paulette M.; Billoud, Bernard
- Chemical Reviews, Vol. 107, Issue 10, p. 4206-4272
Cyanobacterial hydrogenases: diversity, regulation and applications
journal, November 2007
- Tamagnini, Paula; Leitão, Elsa; Oliveira, Paulo
- FEMS Microbiology Reviews, Vol. 31, Issue 6
Swiss-model : an automated protein homology-modeling server
text, January 2003
- Schwede, T.; Kopp, J.; Guex, N.
- Oxford University Press
Closed Genome Sequence of Clostridium pasteurianum ATCC 6013
journal, February 2015
- Rotta, Carlo; Poehlein, Anja; Schwarz, Katrin
- Genome Announcements, Vol. 3, Issue 1
The purification of hydrogenase II (uptake hydrogenase) from the anaerobic N2-fixing bacterium Clostridium pasteurianum
journal, July 1984
- Adams, Michael W. W.; Mortenson, Leonard E.
- Biochimica et Biophysica Acta (BBA) - Bioenergetics, Vol. 766, Issue 1
The surprising diversity of clostridial hydrogenases: a comparative genomic perspective
journal, April 2010
- Calusinska, M.; Happe, T.; Joris, B.
- Microbiology, Vol. 156, Issue 6
The Acetylene-Ethylene Assay for N 2 Fixation: Laboratory and Field Evaluation
journal, August 1968
- Hardy, R. W. F.; Holsten, R. D.; Jackson, E. K.
- Plant Physiology, Vol. 43, Issue 8
The enveomics collection: a toolbox for specialized analyses of microbial genomes and metagenomes
preprint, March 2016
- Rodriguez-R, Luis M.; Konstantinidis, Konstantinos T.
- PeerJ Preprints 4:e1900v1
The Uptake Hydrogenase in the Unicellular Diazotrophic Cyanobacterium Cyanothece sp. Strain PCC 7822 Protects Nitrogenase from Oxygen Toxicity
journal, December 2013
- Zhang, X.; Sherman, D. M.; Sherman, L. A.
- Journal of Bacteriology, Vol. 196, Issue 4
Iron-sulfur clusters of hydrogenase I and hydrogenase II of Clostridium pasteurianum.
journal, July 1989
- Adams, M. W.; Eccleston, E.; Howard, J. B.
- Proceedings of the National Academy of Sciences, Vol. 86, Issue 13
Guiding Principles of Hydrogenase Catalysis Instigated and Clarified by Protein Film Electrochemistry
journal, April 2016
- Armstrong, Fraser A.; Evans, Rhiannon M.; Hexter, Suzannah V.
- Accounts of Chemical Research, Vol. 49, Issue 5
The SEED and the Rapid Annotation of microbial genomes using Subsystems Technology (RAST)
journal, November 2013
- Overbeek, Ross; Olson, Robert; Pusch, Gordon D.
- Nucleic Acids Research, Vol. 42, Issue D1
The hydrogen cycle in nitrogen-fixing Azotobacter chroococcum
journal, June 1978
- Walker, Colin C.; Yates, M. Geoffrey
- Biochimie, Vol. 60, Issue 3
The structure and mechanism of iron-hydrogenases
journal, November 1990
- Adams, Michael W. W.
- Biochimica et Biophysica Acta (BBA) - Bioenergetics, Vol. 1020, Issue 2, p. 115-145
Insights into [FeFe]-Hydrogenase Structure, Mechanism, and Maturation
journal, August 2011
- Mulder, David W.; Shepard, Eric M.; Meuser, Jonathan E.
- Structure, Vol. 19, Issue 8
Bridging Rare and Abundant Bacteria with Ecosystem Multifunctionality in Salinized Agricultural Soils: from Community Diversity to Environmental Adaptation
journal, April 2021
- Wan, Wenjie; Liu, Song; Li, Xiang
- mSystems, Vol. 6, Issue 2
Testing for Phylogenetic Signal in Comparative Data: Behavioral Traits are more Labile
journal, April 2003
- Blomberg, Simon P.; Garland, Theodore; Ives, Anthony R.
- Evolution, Vol. 57, Issue 4
Genome sequence of a proteolytic (Group I) Clostridium botulinum strain Hall A and comparative analysis of the clostridial genomes
journal, June 2007
- Sebaihia, M.; Peck, M. W.; Minton, N. P.
- Genome Research, Vol. 17, Issue 7
Genomics of green algal hydrogen research
journal, December 2004
- Melis, Anastasios; Seibert, Michael; Happe, Thomas
- Photosynthesis Research, Vol. 82, Issue 3
The effect of a C298D mutation in CaHydA [FeFe]-hydrogenase: Insights into the protein-metal cluster interaction by EPR and FTIR spectroscopic investigation
journal, January 2016
- Morra, Simone; Maurelli, Sara; Chiesa, Mario
- Biochimica et Biophysica Acta (BBA) - Bioenergetics, Vol. 1857, Issue 1
Understanding and Tuning the Catalytic Bias of Hydrogenase
journal, May 2012
- Abou Hamdan, Abbas; Dementin, Sébastien; Liebgott, Pierre-Pol
- Journal of the American Chemical Society, Vol. 134, Issue 20
Next-Generation DNA Sequencing Methods
journal, September 2008
- Mardis, Elaine R.
- Annual Review of Genomics and Human Genetics, Vol. 9, Issue 1
A Glutamate Is the Essential Proton Transfer Gate during the Catalytic Cycle of the [NiFe] Hydrogenase
journal, December 2003
- Dementin, Sébastien; Burlat, Bénédicte; De Lacey, Antonio L.
- Journal of Biological Chemistry, Vol. 279, Issue 11
Hitherto Unknown [Fe-Fe]-Hydrogenase Gene Diversity in Anaerobes and Anoxic Enrichments from a Moderately Acidic Fen
journal, January 2010
- Schmidt, O.; Drake, H. L.; Horn, M. A.
- Applied and Environmental Microbiology, Vol. 76, Issue 6
The SWISS-MODEL workspace: a web-based environment for protein structure homology modelling
journal, November 2005
- Arnold, Konstantin; Bordoli, Lorenza; Kopp, Jürgen
- Bioinformatics, Vol. 22, Issue 2
The genome sequence of Clostridium botulinum type C neurotoxin-converting phage and the molecular mechanisms of unstable lysogeny
journal, November 2005
- Sakaguchi, Y.; Hayashi, T.; Kurokawa, K.
- Proceedings of the National Academy of Sciences, Vol. 102, Issue 48
Complete genome sequence of Clostridium pasteurianum NRRL B-598, a non-type strain producing butanol
journal, November 2015
- Sedlar, Karel; Kolek, Jan; Skutkova, Helena
- Journal of Biotechnology, Vol. 214
Genomics of green algal hydrogen research
journal, December 2004
- Melis, Anastasios; Seibert, Michael; Happe, Thomas
- Photosynthesis Research, Vol. 82, Issue 3
Genome sequence of a proteolytic (Group I) Clostridium botulinum strain Hall A and comparative analysis of the clostridial genomes
journal, June 2007
- Sebaihia, M.; Peck, M. W.; Minton, N. P.
- Genome Research, Vol. 17, Issue 7
Interactive Tree Of Life (iTOL): an online tool for phylogenetic tree display and annotation
journal, October 2006
- Letunic, I.; Bork, P.
- Bioinformatics, Vol. 23, Issue 1
Isolation and properties of a unidirectional H2-oxidizing hydrogenase from the strictly anaerobic N2-fixing bacterium Clostridium pasteurianum W5
journal, October 1978
- Chen, Jiann-Shin; Blanchard, D. Kay
- Biochemical and Biophysical Research Communications, Vol. 84, Issue 4
Hydrogenases from Methanogenic Archaea, Nickel, a Novel Cofactor, and H 2 Storage
journal, June 2010
- Thauer, Rudolf K.; Kaster, Anne-Kristin; Goenrich, Meike
- Annual Review of Biochemistry, Vol. 79, Issue 1
Guiding Principles of Hydrogenase Catalysis Instigated and Clarified by Protein Film Electrochemistry
journal, April 2016
- Armstrong, Fraser A.; Evans, Rhiannon M.; Hexter, Suzannah V.
- Accounts of Chemical Research, Vol. 49, Issue 5
Unification of [FeFe]-hydrogenases into three structural and functional groups
journal, September 2016
- Poudel, Saroj; Tokmina-Lukaszewska, Monika; Colman, Daniel R.
- Biochimica et Biophysica Acta (BBA) - General Subjects, Vol. 1860, Issue 9
Novel and neglected issues of acetone–butanol–ethanol (ABE) fermentation by clostridia: Clostridium metabolic diversity, tools for process mapping and continuous fermentation systems
journal, January 2013
- Patakova, Petra; Linhova, Michaela; Rychtera, Mojmir
- Biotechnology Advances, Vol. 31, Issue 1
MEGA6: Molecular Evolutionary Genetics Analysis Version 6.0
journal, October 2013
- Tamura, Koichiro; Stecher, Glen; Peterson, Daniel
- Molecular Biology and Evolution, Vol. 30, Issue 12
IMG: the integrated microbial genomes database and comparative analysis system
journal, December 2011
- Markowitz, V. M.; Chen, I. -M. A.; Palaniappan, K.
- Nucleic Acids Research, Vol. 40, Issue D1
On the Efficiency of Oxidative Phosphorylation in Membrane Vesicles of Azotobacter vinelandii and of Rhizobium leguminosarum Bacteroids
journal, July 1979
- Laane, Colja; Haaker, Huub; Veeger, Cees
- European Journal of Biochemistry, Vol. 97, Issue 2
Importance of the Protein Framework for Catalytic Activity of [FeFe]-Hydrogenases
journal, November 2011
- Knörzer, Philipp; Silakov, Alexey; Foster, Carina E.
- Journal of Biological Chemistry, Vol. 287, Issue 2
Culture of Clostridium pasteurianum in Defined Medium and Growth as a Function of Sulfate Concentration1
journal, January 1974
- Mallette, M. F.; Reece, Paul; Dawes, E. A.
- Applied Microbiology, Vol. 28, Issue 6
Bypassing Cultivation To Identify Bacterial Species: Culture-independent genomic approaches identify credibly distinct clusters, avoid cultivation bias, and provide true insights into microbial species
journal, March 2014
- Rodriguez-R, Luis M.; Konstantinidis, Konstantinos T.
- Microbe Magazine, Vol. 9, Issue 3
The Acetylene-Ethylene Assay for N 2 Fixation: Laboratory and Field Evaluation
journal, August 1968
- Hardy, R. W. F.; Holsten, R. D.; Jackson, E. K.
- Plant Physiology, Vol. 43, Issue 8
[FeFe] hydrogenases and their evolution: a genomic perspective
journal, March 2007
- Meyer, J.
- Cellular and Molecular Life Sciences, Vol. 64, Issue 9, p. 1063-1084
The SEED and the Rapid Annotation of microbial genomes using Subsystems Technology (RAST)
journal, November 2013
- Overbeek, Ross; Olson, Robert; Pusch, Gordon D.
- Nucleic Acids Research, Vol. 42, Issue D1
Nitrogen Fixation and Hydrogen Metabolism in Cyanobacteria
journal, November 2010
- Bothe, H.; Schmitz, O.; Yates, M. G.
- Microbiology and Molecular Biology Reviews, Vol. 74, Issue 4
Stepwise [FeFe]-hydrogenase H-cluster assembly revealed in the structure of HydAΔEFG
journal, April 2010
- Mulder, David W.; Boyd, Eric S.; Sarma, Ranjana
- Nature, Vol. 465, Issue 7295
The Effect of Nutrient Limitation on Hydrogen Production by Nitrogenase in Continuous Cultures of Azotobacter chroococcum
journal, June 1981
- Walker, C. C.; Partridge, C. D. P.; Yates, M. G.
- Microbiology, Vol. 124, Issue 2
The hyperthermophilic bacterium, Thermotoga maritima, contains an unusually complex iron-hydrogenase: amino acid sequence analyses versus biochemical characterization1GenBank accession number AF044577.1
journal, August 1999
- Verhagen, Marc F. J. M.; O’Rourke, Thomas; Adams, Michael W. W.
- Biochimica et Biophysica Acta (BBA) - Bioenergetics, Vol. 1412, Issue 3
Oxygen and Hydrogen in Biological Nitrogen Fixation
journal, October 1980
- Robson, R. L.; Postgate, J. R.
- Annual Review of Microbiology, Vol. 34, Issue 1
Iron-sulfur clusters of hydrogenase I and hydrogenase II of Clostridium pasteurianum.
journal, July 1989
- Adams, M. W.; Eccleston, E.; Howard, J. B.
- Proceedings of the National Academy of Sciences, Vol. 86, Issue 13
Electrocatalytic mechanism of reversible hydrogen cycling by enzymes and distinctions between the major classes of hydrogenases
journal, July 2012
- Hexter, S. V.; Grey, F.; Happe, T.
- Proceedings of the National Academy of Sciences, Vol. 109, Issue 29
Direct Detection of a Hydrogen Ligand in the [NiFe] Center of the Regulatory H 2 -Sensing Hydrogenase from Ralstonia e utropha in Its Reduced State by HYSCORE and ENDOR Spectroscopy
journal, October 2003
- Brecht, Marc; van Gastel, Maurice; Buhrke, Thorsten
- Journal of the American Chemical Society, Vol. 125, Issue 43
CDD: NCBI's conserved domain database
journal, November 2014
- Marchler-Bauer, Aron; Derbyshire, Myra K.; Gonzales, Noreen R.
- Nucleic Acids Research, Vol. 43, Issue D1
CDD: NCBI's conserved domain database
journal, November 2014
- Marchler-Bauer, Aron; Derbyshire, Myra K.; Gonzales, Noreen R.
- Nucleic Acids Research, Vol. 43, Issue D1
Ferredoxin and atp, Requirements for Nitrogen Fixation in Cell-Free Extracts of Clostridium Pasteurianum
journal, August 1964
- Mortenson, L. E.
- Proceedings of the National Academy of Sciences, Vol. 52, Issue 2
Swiss-model : an automated protein homology-modeling server
text, January 2003
- Schwede, T.; Kopp, J.; Guex, N.
- Oxford University Press
Cyanobacterial hydrogenases: diversity, regulation and applications
journal, November 2007
- Tamagnini, Paula; Leitão, Elsa; Oliveira, Paulo
- FEMS Microbiology Reviews, Vol. 31, Issue 6
Maturation of the [NiFe] hydrogenases
journal, May 2001
- Casalot, L.
- Trends in Microbiology, Vol. 9, Issue 5, p. 228-237
The surprising diversity of clostridial hydrogenases: a comparative genomic perspective
journal, April 2010
- Calusinska, M.; Happe, T.; Joris, B.
- Microbiology, Vol. 156, Issue 6
The genome and transcriptomes of the anti-tumor agent Clostridium novyi-NT
journal, November 2006
- Bettegowda, Chetan; Huang, Xin; Lin, Jimmy
- Nature Biotechnology, Vol. 24, Issue 12
Understanding and Tuning the Catalytic Bias of Hydrogenase
journal, May 2012
- Abou Hamdan, Abbas; Dementin, Sébastien; Liebgott, Pierre-Pol
- Journal of the American Chemical Society, Vol. 134, Issue 20
The genome and transcriptomes of the anti-tumor agent Clostridium novyi-NT
journal, November 2006
- Bettegowda, Chetan; Huang, Xin; Lin, Jimmy
- Nature Biotechnology, Vol. 24, Issue 12
Understanding and Tuning the Catalytic Bias of Hydrogenase
journal, May 2012
- Hamdan, Abbas Abou; Dementin, Sébastien; Liebgott, Pierre-Pol
- Journal of the American Chemical Society, Vol. 134, Issue 23
A genomic update on clostridial phylogeny: Gram-negative spore formers and other misplaced clostridia: Genomics update
journal, July 2013
- Yutin, Natalya; Galperin, Michael Y.
- Environmental Microbiology
Electrocatalytic mechanism of reversible hydrogen cycling by enzymes and distinctions between the major classes of hydrogenases
journal, July 2012
- Hexter, S. V.; Grey, F.; Happe, T.
- Proceedings of the National Academy of Sciences, Vol. 109, Issue 29
Stepwise [FeFe]-hydrogenase H-cluster assembly revealed in the structure of HydAΔEFG
journal, April 2010
- Mulder, David W.; Boyd, Eric S.; Sarma, Ranjana
- Nature, Vol. 465, Issue 7295
The Uptake Hydrogenase in the Unicellular Diazotrophic Cyanobacterium Cyanothece sp. Strain PCC 7822 Protects Nitrogenase from Oxygen Toxicity
journal, December 2013
- Zhang, X.; Sherman, D. M.; Sherman, L. A.
- Journal of Bacteriology, Vol. 196, Issue 4
Testing for Phylogenetic Signal in Comparative Data: Behavioral Traits are more Labile
journal, April 2003
- Blomberg, Simon P.; Garland, Theodore; Ives, Anthony R.
- Evolution, Vol. 57, Issue 4
The enveomics collection: a toolbox for specialized analyses of microbial genomes and metagenomes
preprint, March 2016
- Rodriguez-R, Luis M.; Konstantinidis, Konstantinos T.
- PeerJ Preprints 4:e1900v1
Oxygen and Hydrogen in Biological Nitrogen Fixation
journal, October 1980
- Robson, R. L.; Postgate, J. R.
- Annual Review of Microbiology, Vol. 34, Issue 1
The hydrogen cycle in nitrogen-fixing Azotobacter chroococcum
journal, June 1978
- Walker, Colin C.; Yates, M. Geoffrey
- Biochimie, Vol. 60, Issue 3
The enveomics collection: a toolbox for specialized analyses of microbial genomes and metagenomes
preprint, March 2016
- Rodriguez-R., Luis M.; Konstantinidis, Konstantinos T.
Sphingopyxis jiangsuensis sp. nov. Isolated From the Surface Water of the Yellow Sea
journal, June 2022
- Gao, Zeng-Yu; Xue, Hua-Peng; Wang, Lu
- Current Microbiology, Vol. 79, Issue 7
RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies
text, January 2014
- Stamatakis, A.
- Karlsruhe
Hydrogenases from Methanogenic Archaea, Nickel, a Novel Cofactor, and H 2 Storage
journal, June 2010
- Thauer, Rudolf K.; Kaster, Anne-Kristin; Goenrich, Meike
- Annual Review of Biochemistry, Vol. 79, Issue 1
MEGA6: Molecular Evolutionary Genetics Analysis Version 6.0
journal, October 2013
- Tamura, Koichiro; Stecher, Glen; Peterson, Daniel
- Molecular Biology and Evolution, Vol. 30, Issue 12
X-ray Crystal Structure of the Fe-Only Hydrogenase (CpI) from Clostridium pasteurianum to 1.8 Angstrom Resolution
journal, December 1998
- Peters, J. W.
- Science, Vol. 282, Issue 5395
DNA–DNA hybridization values and their relationship to whole-genome sequence similarities
journal, January 2007
- Klappenbach, Joel A.; Goris, Johan; Vandamme, Peter
- International Journal of Systematic and Evolutionary Microbiology, Vol. 57, Issue 1
The purification of hydrogenase II (uptake hydrogenase) from the anaerobic N2-fixing bacterium Clostridium pasteurianum
journal, July 1984
- Adams, Michael W. W.; Mortenson, Leonard E.
- Biochimica et Biophysica Acta (BBA) - Bioenergetics, Vol. 766, Issue 1
Genetic diversity and amplification of different clostridial [FeFe] hydrogenases by group-specific degenerate primers: Amplification of [FeFe] hydrogenases
journal, September 2011
- Calusinska, M.; Joris, B.; Wilmotte, A.
- Letters in Applied Microbiology, Vol. 53, Issue 4
The physical and catalytic properties of hydrogenase II of Clostridium pasteurianum. A comparison with hydrogenase I.
journal, June 1984
- Adams, M. W.; Mortenson, L. E.
- Journal of Biological Chemistry, Vol. 259, Issue 11
The Enzymology of Nitrogen Fixation in Cell-free Extracts of Clostridium Pasteurianum
journal, January 1969
- Taylor, K. B.
- Journal of Biological Chemistry, Vol. 244, Issue 1
The Hydrogenase System of Clostridium pasteurianum
journal, March 1963
- Valentine, R. C.; Mortenson, L. E.; Carnahan, J. E.
- Journal of Biological Chemistry, Vol. 238, Issue 3
Works referencing / citing this record:
Probing the geological source and biological fate of hydrogen in Yellowstone hot springs
journal, July 2019
- Lindsay, Melody R.; Colman, Daniel R.; Amenabar, Maximiliano J.
- Environmental Microbiology, Vol. 21, Issue 10
Clostridial whole cell and enzyme systems for hydrogen production: current state and perspectives
journal, November 2018
- Latifi, Amel; Avilan, Luisana; Brugna, Myriam
- Applied Microbiology and Biotechnology, Vol. 103, Issue 2
Hydrogen-based metabolism as an ancestral trait in lineages sibling to the Cyanobacteria
journal, January 2019
- Matheus Carnevali, Paula B.; Schulz, Frederik; Castelle, Cindy J.
- Nature Communications, Vol. 10, Issue 1
Author Correction: Hydrogen-based metabolism as an ancestral trait in lineages sibling to the Cyanobacteria
journal, March 2019
- Matheus Carnevali, Paula B.; Schulz, Frederik; Castelle, Cindy J.
- Nature Communications, Vol. 10, Issue 1
Enhanced electron transfer of different mediators for strictly opposite shifting of metabolism in Clostridium pasteurianum grown on glycerol in a new electrochemical bioreactor
journal, March 2019
- Utesch, Tyll; Sabra, Wael; Prescher, Christin
- Biotechnology and Bioengineering, Vol. 116, Issue 7