The Beta Subunit of Non-bifurcating NADH-Dependent [FeFe]-Hydrogenases Differs From Those of Multimeric Electron-Bifurcating [FeFe]-Hydrogenases

Losey, Nathaniel A.; Poudel, Saroj; Boyd, Eric S.; McInerney, Michael J.

doi:10.3389/fmicb.2020.01109

The Beta Subunit of Non-bifurcating NADH-Dependent [FeFe]-Hydrogenases Differs From Those of Multimeric Electron-Bifurcating [FeFe]-Hydrogenases

Journal Article · Wed Jun 17 00:00:00 EDT 2020 · Frontiers in Microbiology

DOI:https://doi.org/10.3389/fmicb.2020.01109· OSTI ID:1633663

Losey, Nathaniel A.; Poudel, Saroj; Boyd, Eric S.; McInerney, Michael J.

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Research Organization:: Montana State Univ., Bozeman, MT (United States); Univ. of Oklahoma, Norman, OK (United States)

Sponsoring Organization:: USDOE Office of Science (SC), Basic Energy Sciences (BES) (SC-22). Chemical Sciences, Geosciences & Biosciences Division

Grant/Contract Number:: FG02-96ER20214; SC0020246

OSTI ID:: 1633663

Alternate ID(s):: OSTI ID: 1631530

Journal Information:: Frontiers in Microbiology, Journal Name: Frontiers in Microbiology Vol. 11; ISSN 1664-302X

Publisher:: Frontiers Research FoundationCopyright Statement

Country of Publication:: Switzerland

Language:: English

References (70)

Sequence, assembly and evolution of a primordial ferredoxin from Thermotoga maritima. Darimont, B.; Sterner, R. The EMBO Journal, Vol. 13, Issue 8 https://doi.org/10.1002/j.1460-2075.1994.tb06445.x	journal	April 1994
The Genus Dehalococcoides Zinder, Stephen H. Organohalide-Respiring Bacteria https://doi.org/10.1007/978-3-662-49875-0_6	book	January 2016
Evidence of reversed electron transport in syntrophic butyrate or benzoate oxidation by Syntrophomonas wolfei and Syntrophus buswellii Wallrabenstein, Christina; Schink, Bernhard Archives of Microbiology, Vol. 162, Issue 1-2 https://doi.org/10.1007/bf00264387	journal	July 1994
F420H2 oxidase (FprA) from Methanobrevibacter arboriphilus, a coenzyme F420-dependent enzyme involved in O2 detoxification Seedorf, Henning; Dreisbach, Annette; Hedderich, Reiner Archives of Microbiology, Vol. 182, Issue 2-3 https://doi.org/10.1007/s00203-004-0675-3	journal	August 2004
Syntrophus aciditrophicus sp. nov., a new anaerobic bacterium that degrades fatty acids and benzoate in syntrophic association with hydrogen-using microorganisms Jackson, Bradley E.; Bhupathiraju, V. K.; Tanner, Ralph S. Archives of Microbiology, Vol. 171, Issue 2 https://doi.org/10.1007/s002030050685	journal	January 1999
Spectroscopic and biochemical insight into an electron-bifurcating [FeFe] hydrogenase Chongdar, Nipa; Pawlak, Krzysztof; Rüdiger, Olaf JBIC Journal of Biological Inorganic Chemistry, Vol. 25, Issue 1 https://doi.org/10.1007/s00775-019-01747-1	journal	December 2019
A rapid procedure for the purification of ferredoxin from clostridia using polyethyleneimine Schönheit, Peter; Wäscher, Christel; Thauer, Rudolf K. FEBS Letters, Vol. 89, Issue 2 https://doi.org/10.1016/0014-5793(78)80221-x	journal	May 1978
The hyperthermophilic bacterium, Thermotoga maritima, contains an unusually complex iron-hydrogenase: amino acid sequence analyses versus biochemical characterization1GenBank accession number AF044577.1 Verhagen, Marc F. J. M.; O’Rourke, Thomas; Adams, Michael W. W. Biochimica et Biophysica Acta (BBA) - Bioenergetics, Vol. 1412, Issue 3 https://doi.org/10.1016/S0005-2728(99)00062-6	journal	August 1999
Formate dehydrogenase from Methylosinus trichosporium OB3b. Purification and spectroscopic characterization of the cofactors. Jollie, D. R.; Lipscomb, J. D. Journal of Biological Chemistry, Vol. 266, Issue 32 https://doi.org/10.1016/S0021-9258(18)54716-5	journal	November 1991
Molar Extinction Coefficient and Iron and Sulfide Content of Clostridial Ferredoxin Hong, J. S.; Rabinowitz, Jesse C. Journal of Biological Chemistry, Vol. 245, Issue 19 https://doi.org/10.1016/S0021-9258(18)62805-4	journal	October 1970
Anaerobic metabolism of aromatic compounds via the benzoyl-CoA pathway Harwood, C. FEMS Microbiology Reviews, Vol. 22, Issue 5 https://doi.org/10.1016/S0168-6445(98)00026-6	journal	December 1998
Colorimetric ferrozine-based assay for the quantitation of iron in cultured cells Riemer, Jan; Hoepken, Hans Hermann; Czerwinska, Hania Analytical Biochemistry, Vol. 331, Issue 2 https://doi.org/10.1016/j.ab.2004.03.049	journal	August 2004
The multitude of iron–sulfur clusters in respiratory complex I Gnandt, Emmanuel; Dörner, Katerina; Strampraad, Marc F. J. Biochimica et Biophysica Acta (BBA) - Bioenergetics, Vol. 1857, Issue 8 https://doi.org/10.1016/j.bbabio.2016.02.018	journal	August 2016
A new mechanistic model for an O2-protected electron-bifurcating hydrogenase, Hnd from Desulfovibrio fructosovorans Kpebe, Arlette; Benvenuti, Martino; Guendon, Chloé Biochimica et Biophysica Acta (BBA) - Bioenergetics, Vol. 1859, Issue 12 https://doi.org/10.1016/j.bbabio.2018.09.364	journal	December 2018
Integrated thermodynamic analysis of electron bifurcating [FeFe]-hydrogenase to inform anaerobic metabolism and H2 production Jay, Zackary J.; Hunt, Kristopher A.; Chou, Katherine J. Biochimica et Biophysica Acta (BBA) - Bioenergetics, Vol. 1861, Issue 1 https://doi.org/10.1016/j.bbabio.2019.148087	journal	January 2020
Unification of [FeFe]-hydrogenases into three structural and functional groups Poudel, Saroj; Tokmina-Lukaszewska, Monika; Colman, Daniel R. Biochimica et Biophysica Acta (BBA) - General Subjects, Vol. 1860, Issue 9 https://doi.org/10.1016/j.bbagen.2016.05.034	journal	September 2016
Syntrophy in anaerobic global carbon cycles McInerney, Michael J.; Sieber, Jessica R.; Gunsalus, Robert P. Current Opinion in Biotechnology, Vol. 20, Issue 6 https://doi.org/10.1016/j.copbio.2009.10.001	journal	December 2009
Heterologous overproduction of 2[4Fe4S]- and [2Fe2S]-type clostridial ferredoxins and [2Fe2S]-type agrobacterial ferredoxin Huang, Haiyan; Hu, Liejie; Yu, Wenjun Protein Expression and Purification, Vol. 121 https://doi.org/10.1016/j.pep.2015.12.019	journal	May 2016
The NADH:ubiquinone oxidoreductase (complex I) of respiratory chains Walker, John E. Quarterly Reviews of Biophysics, Vol. 25, Issue 3 https://doi.org/10.1017/S003358350000425X	journal	August 1992
Flavin-Based Electron Bifurcation, A New Mechanism of Biological Energy Coupling Buckel, Wolfgang; Thauer, Rudolf K. Chemical Reviews, Vol. 118, Issue 7 https://doi.org/10.1021/acs.chemrev.7b00707	journal	February 2018
Respiratory Complex I: Mechanistic and Structural Insights Provided by the Crystal Structure of the Hydrophilic Domain † Sazanov, Leonid A. Biochemistry, Vol. 46, Issue 9 https://doi.org/10.1021/bi602508x	journal	March 2007
The Mononuclear Molybdenum Enzymes Hille, Russ; Hall, James; Basu, Partha Chemical Reviews, Vol. 114, Issue 7 https://doi.org/10.1021/cr400443z	journal	January 2014
A hydrogenosome with a genome Akhmanova, Anna; Voncken, Frank; van Alen, Theo Nature, Vol. 396, Issue 6711 https://doi.org/10.1038/25023	journal	December 1998
Microbial degradation of aromatic compounds — from one strategy to four Fuchs, Georg; Boll, Matthias; Heider, Johann Nature Reviews Microbiology, Vol. 9, Issue 11, p. 803-816 https://doi.org/10.1038/nrmicro2652	journal	October 2011
Syntrophus conductive pili demonstrate that common hydrogen-donating syntrophs can have a direct electron transfer option Walker, David J. F.; Nevin, Kelly P.; Holmes, Dawn E. The ISME Journal, Vol. 14, Issue 3 https://doi.org/10.1038/s41396-019-0575-9	journal	January 2020
On the nature of organic and inorganic centers that bifurcate electrons, coupling exergonic and endergonic oxidation–reduction reactions Peters, John W.; Beratan, David N.; Schut, Gerrit J. Chemical Communications, Vol. 54, Issue 33 https://doi.org/10.1039/C8CC01530A	journal	January 2018
The tungsten-containing formate dehydrogenase from Methylobacterium extorquens AM1: Purification and properties Laukel, Markus; Chistoserdova, Ludmila; Lidstrom, Mary E. European Journal of Biochemistry, Vol. 270, Issue 2 https://doi.org/10.1046/j.1432-1033.2003.03391.x	journal	January 2003
The genome of Syntrophus aciditrophicus: Life at the thermodynamic limit of microbial growth McInerney, M. J.; Rohlin, L.; Mouttaki, H. Proceedings of the National Academy of Sciences, Vol. 104, Issue 18 https://doi.org/10.1073/pnas.0610456104	journal	April 2007
The genome of Clostridium kluyveri, a strict anaerobe with unique metabolic features Seedorf, H.; Fricke, W. F.; Veith, B. Proceedings of the National Academy of Sciences, Vol. 105, Issue 6 https://doi.org/10.1073/pnas.0711093105	journal	January 2008
Bacterial Na+-translocating ferredoxin:NAD+ oxidoreductase Biegel, E.; Muller, V. Proceedings of the National Academy of Sciences, Vol. 107, Issue 42 https://doi.org/10.1073/pnas.1010318107	journal	October 2010
A Bacterial Electron-bifurcating Hydrogenase Schuchmann, Kai; Müller, Volker Journal of Biological Chemistry, Vol. 287, Issue 37 https://doi.org/10.1074/jbc.M112.395038	journal	July 2012
The rapid generation of mutation data matrices from protein sequences Jones, David T.; Taylor, William R.; Thornton, Janet M. Bioinformatics, Vol. 8, Issue 3 https://doi.org/10.1093/bioinformatics/8.3.275	journal	January 1992
COBALT: constraint-based alignment tool for multiple protein sequences Papadopoulos, J. S.; Agarwala, R. Bioinformatics, Vol. 23, Issue 9 https://doi.org/10.1093/bioinformatics/btm076	journal	March 2007
The Organellar Genome and Metabolic Potential of the Hydrogen-Producing Mitochondrion of Nyctotherus ovalis de Graaf, Rob M.; Ricard, Guenola; van Alen, Theo A. Molecular Biology and Evolution, Vol. 28, Issue 8 https://doi.org/10.1093/molbev/msr059	journal	March 2011
MEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms Kumar, Sudhir; Stecher, Glen; Li, Michael Molecular Biology and Evolution, Vol. 35, Issue 6 https://doi.org/10.1093/molbev/msy096	journal	May 2018
CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice Thompson, Julie D.; Higgins, Desmond G.; Gibson, Toby J. Nucleic Acids Research, Vol. 22, Issue 22, p. 4673-4680 https://doi.org/10.1093/nar/22.22.4673	journal	January 1994
A multisubunit membrane-bound [NiFe] hydrogenase and an NADH-dependent Fe-only hydrogenase in the fermenting bacterium Thermoanaerobacter tengcongensis Soboh, B. Microbiology, Vol. 150, Issue 7 https://doi.org/10.1099/mic.0.27159-0	journal	July 2004
The importance of hydrogen and formate transfer for syntrophic fatty, aromatic and alicyclic metabolism: Importance of interspecies hydrogen and formate transfer Sieber, Jessica R.; Le, Huynh M.; McInerney, Michael J. Environmental Microbiology, Vol. 16, Issue 1 https://doi.org/10.1111/1462-2920.12269	journal	October 2013
Comparative proteome analysis of propionate degradation by Syntrophobacter fumaroxidans in pure culture and in coculture with methanogens: Proteome analysis of Syntrophobacter fumaroxidans Sedano-Núñez, Vicente T.; Boeren, Sjef; Stams, Alfons J. M. Environmental Microbiology, Vol. 20, Issue 5 https://doi.org/10.1111/1462-2920.14119	journal	April 2018
Syntrophus aciditrophicus uses the same enzymes in a reversible manner to degrade and synthesize aromatic and alicyclic acids James, Kimberly L.; Kung, Johannes W.; Crable, Bryan R. Environmental Microbiology, Vol. 21, Issue 5 https://doi.org/10.1111/1462-2920.14601	journal	March 2019
The oxygen-tolerant and NAD ⁺ -dependent formate dehydrogenase from Rhodobacter capsulatus is able to catalyze the reduction of CO ₂ to formate Hartmann, Tobias; Leimkühler, Silke FEBS Journal, Vol. 280, Issue 23 https://doi.org/10.1111/febs.12528	journal	October 2013
CO2 Reduction to Formate by NADH Catalysed by Formate Dehydrogenase from Pseudomonas oxalaticus Rusching, Ulrich; Muller, Ulrich; Willnow, Peter European Journal of Biochemistry, Vol. 70, Issue 2 https://doi.org/10.1111/j.1432-1033.1976.tb11021.x	journal	November 1976
Formate Dehydrogenase from Pseudomonas oxalaticus Muller, Ulrich; Willnow, Peter; Ruschig, Ulrich European Journal of Biochemistry, Vol. 83, Issue 2 https://doi.org/10.1111/j.1432-1033.1978.tb12115.x	journal	February 1978
The genome of Syntrophomonas wolfei: new insights into syntrophic metabolism and biohydrogen production: Syntrophomonas wolfei genome Sieber, Jessica R.; Sims, David R.; Han, Cliff Environmental Microbiology https://doi.org/10.1111/j.1462-2920.2010.02237.x	journal	June 2010
Structure of the Hydrophilic Domain of Respiratory Complex I from Thermus thermophilus Sazanov, L. A. Science, Vol. 311, Issue 5766 https://doi.org/10.1126/science.1123809	journal	March 2006
Syntrophomonas wolfei Uses an NADH-Dependent, Ferredoxin-Independent [FeFe]-Hydrogenase To Reoxidize NADH Losey, Nathaniel A.; Mus, Florence; Peters, John W. Applied and Environmental Microbiology, Vol. 83, Issue 20 https://doi.org/10.1128/AEM.01335-17	journal	August 2017
H2 Production by Selenomonas ruminantium in the Absence and Presence of Methanogenic Bacteria Scheifinger, C. C.; Linehan, B.; Wolin, M. J. Applied Microbiology, Vol. 29, Issue 4 https://doi.org/10.1128/AEM.29.4.480-483.1975	journal	January 1975
Benzoate Fermentation by the Anaerobic Bacterium Syntrophus aciditrophicus in the Absence of Hydrogen-Using Microorganisms Elshahed, M. S.; McInerney, M. J. Applied and Environmental Microbiology, Vol. 67, Issue 12 https://doi.org/10.1128/AEM.67.12.5520-5525.2001	journal	December 2001
Cyclohexanecarboxyl-Coenzyme A (CoA) and Cyclohex-1-ene-1-Carboxyl-CoA Dehydrogenases, Two Enzymes Involved in the Fermentation of Benzoate and Crotonate in Syntrophus aciditrophicus Kung, J. W.; Seifert, J.; von Bergen, M. Journal of Bacteriology, Vol. 195, Issue 14 https://doi.org/10.1128/JB.00322-13	journal	May 2013
NADP-Specific Electron-Bifurcating [FeFe]-Hydrogenase in a Functional Complex with Formate Dehydrogenase in Clostridium autoethanogenum Grown on CO Wang, S.; Huang, H.; Kahnt, J. Journal of Bacteriology, Vol. 195, Issue 19 https://doi.org/10.1128/JB.00678-13	journal	July 2013
The Iron-Hydrogenase of Thermotoga maritima Utilizes Ferredoxin and NADH Synergistically: a New Perspective on Anaerobic Hydrogen Production Schut, G. J.; Adams, M. W. W. Journal of Bacteriology, Vol. 191, Issue 13 https://doi.org/10.1128/JB.01582-08	journal	May 2009
A Reversible Electron-Bifurcating Ferredoxin- and NAD-Dependent [FeFe]-Hydrogenase (HydABC) in Moorella thermoacetica Wang, S.; Huang, H.; Kahnt, J. Journal of Bacteriology, Vol. 195, Issue 6 https://doi.org/10.1128/JB.02158-12	journal	January 2013
Clostridium acidurici Electron-Bifurcating Formate Dehydrogenase Wang, Shuning; Huang, Haiyan; Kahnt, Jörg Applied and Environmental Microbiology, Vol. 79, Issue 19 https://doi.org/10.1128/aem.02015-13	journal	July 2013
Meta-Analyses of Dehalococcoides mccartyi Strain 195 Transcriptomic Profiles Identify a Respiration Rate-Related Gene Expression Transition Point and Interoperon Recruitment of a Key Oxidoreductase Subunit Mansfeldt, Cresten B.; Rowe, Annette R.; Heavner, Gretchen L. W. Applied and Environmental Microbiology, Vol. 80, Issue 19 https://doi.org/10.1128/aem.02130-14	journal	July 2014
Methanogenic bacteria as endosymbionts of the ciliate Nyctotherus ovalis in the cockroach hindgut. Gijzen, H. J.; Broers, C. A.; Barughare, M. Applied and Environmental Microbiology, Vol. 57, Issue 6 https://doi.org/10.1128/aem.57.6.1630-1634.1991	journal	January 1991
Hydrogen Formation and Its Regulation in Ruminococcus albus: Involvement of an Electron-Bifurcating [FeFe]-Hydrogenase, of a Non-Electron-Bifurcating [FeFe]-Hydrogenase, and of a Putative Hydrogen-Sensing [FeFe]-Hydrogenase Zheng, Y.; Kahnt, J.; Kwon, I. H. Journal of Bacteriology, Vol. 196, Issue 22 https://doi.org/10.1128/jb.02070-14	journal	August 2014
Physiological and biochemical characterization of the soluble formate dehydrogenase, a molybdoenzyme from Alcaligenes eutrophus. Friedebold, J.; Bowien, B. Journal of Bacteriology, Vol. 175, Issue 15 https://doi.org/10.1128/jb.175.15.4719-4728.1993	journal	August 1993
Pyrophosphate-Dependent ATP Formation from Acetyl Coenzyme A in Syntrophus aciditrophicus , a New Twist on ATP Formation James, Kimberly L.; Ríos-Hernández, Luis A.; Wofford, Neil Q. mBio, Vol. 7, Issue 4 https://doi.org/10.1128/mBio.01208-16	journal	August 2016
Genomic Insights into Syntrophy: The Paradigm for Anaerobic Metabolic Cooperation Sieber, Jessica R.; McInerney, Michael J.; Gunsalus, Robert P. Annual Review of Microbiology, Vol. 66, Issue 1 https://doi.org/10.1146/annurev-micro-090110-102844	journal	October 2012
Electron Bifurcation: A Long-Hidden Energy-Coupling Mechanism Müller, Volker; Chowdhury, Nilanjan Pal; Basen, Mirko Annual Review of Microbiology, Vol. 72, Issue 1 https://doi.org/10.1146/annurev-micro-090816-093440	journal	September 2018
The [FeFe] hydrogenase of Nyctotherus ovalis has a chimeric origin Boxma, Brigitte; Ricard, Guenola; van Hoek, Angela HAM BMC Evolutionary Biology, Vol. 7, Issue 1 https://doi.org/10.1186/1471-2148-7-230	journal	January 2007
Physiology, Ecology, Phylogeny, and Genomics of Microorganisms Capable of Syntrophic Metabolism McInerney, Michael J.; Struchtemeyer, Christopher G.; Sieber, Jessica Annals of the New York Academy of Sciences, Vol. 1125, Issue 1 https://doi.org/10.1196/annals.1419.005	journal	March 2008
A Proteomic View at the Biochemistry of Syntrophic Butyrate Oxidation in Syntrophomonas wolfei Schmidt, Alexander; Müller, Nicolai; Schink, Bernhard PLoS ONE, Vol. 8, Issue 2 https://doi.org/10.1371/journal.pone.0056905	journal	February 2013
Genome-Guided Analysis and Whole Transcriptome Profiling of the Mesophilic Syntrophic Acetate Oxidising Bacterium Syntrophaceticus schinkii Manzoor, Shahid; Bongcam-Rudloff, Erik; Schnürer, Anna PLOS ONE, Vol. 11, Issue 11 https://doi.org/10.1371/journal.pone.0166520	journal	November 2016
Activity and properties of fumarate reductase in ruminal bacteria. Asanuma, Narito; Hino, Tsuneo The Journal of General and Applied Microbiology, Vol. 46, Issue 3 https://doi.org/10.2323/jgam.46.119	journal	January 2000
Proteomic analysis reveals metabolic and regulatory systems involved in the syntrophic and axenic lifestyle of Syntrophomonas wolfei Sieber, Jessica R.; Crable, Bryan R.; Sheik, Cody S. Frontiers in Microbiology, Vol. 6 https://doi.org/10.3389/fmicb.2015.00115	journal	February 2015
Membrane Complexes of Syntrophomonas wolfei Involved in Syntrophic Butyrate Degradation and Hydrogen Formation Crable, Bryan R.; Sieber, Jessica R.; Mao, Xinwei Frontiers in Microbiology, Vol. 7 https://doi.org/10.3389/fmicb.2016.01795	journal	November 2016
On the Natural History of Flavin-Based Electron Bifurcation Baymann, Frauke; Schoepp-Cothenet, Barbara; Duval, Simon Frontiers in Microbiology, Vol. 9 https://doi.org/10.3389/fmicb.2018.01357	journal	July 2018
Complex Multimeric [FeFe] Hydrogenases: Biochemistry, Physiology and New Opportunities for the Hydrogen Economy Schuchmann, Kai; Chowdhury, Nilanjan Pal; Müller, Volker Frontiers in Microbiology, Vol. 9 https://doi.org/10.3389/fmicb.2018.02911	journal	December 2018
Genome analysis of Desulfotomaculum kuznetsovii strain 17T reveals a physiological similarity with Pelotomaculum thermopropionicum strain SIT. Visser, Michael; Worm, Petra; Muyzer, Gerard Standards in Genomic Sciences, Vol. 8, Issue 1 https://doi.org/10.4056/sigs.3627141	journal	April 2013

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