The modular respiratory complexes involved in hydrogen and sulfur metabolism by heterotrophic hyperthermophilic archaea and their evolutionary implications.
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J. W. Peters | E. Boyd | M. Adams | G. Schut | John W Peters | Gerrit J Schut | Michael W W Adams | Eric S Boyd
[1] Robert D. Finn,et al. InterPro: the integrative protein signature database , 2008, Nucleic Acids Res..
[2] C. Hägerhäll,et al. Transmembrane topology of the NuoL, M and N subunits of NADH:quinone oxidoreductase and their homologues among membrane-bound hydrogenases and bona fide antiporters. , 2002, Biochimica et biophysica acta.
[3] E. Bonch‐Osmolovskaya,et al. Isolation of the anaerobic thermoacidophilic crenarchaeote Acidilobus saccharovorans sp. nov. and proposal of Acidilobales ord. nov., including Acidilobaceae fam. nov. and Caldisphaeraceae fam. nov. , 2009, International journal of systematic and evolutionary microbiology.
[4] C. Hägerhäll,et al. The Evolution of Respiratory Chain Complex I from a Smaller Last Common Ancestor Consisting of 11 Protein Subunits , 2011, Journal of Molecular Evolution.
[5] J. Meyer,et al. Classification and phylogeny of hydrogenases. , 2001, FEMS microbiology reviews.
[6] C. Schleper,et al. “Hot standards” for the thermoacidophilic archaeon Sulfolobus solfataricus , 2009, Extremophiles.
[7] S. Singer,et al. CO-dependent H2 evolution by Rhodospirillum rubrum: role of CODH:CooF complex. , 2006, Biochimica et biophysica acta.
[8] M. Adams,et al. Phosphoenolpyruvate Synthetase from the Hyperthermophilic Archaeon Pyrococcus furiosus , 2001, Journal of bacteriology.
[9] D. Boone,et al. Emendation of the Genus Thermobacteroides: Thermobacteroides proteolyticus sp. nov., a Proteolytic Acetogen from a Methanogenic Enrichment , 1985 .
[10] A. Stams,et al. Sugar metabolism of hyperthermophiles , 1996 .
[11] M. Adams,et al. Deletion Strains Reveal Metabolic Roles for Key Elemental Sulfur-Responsive Proteins in Pyrococcus furiosus , 2011, Journal of bacteriology.
[12] J. Meyer,et al. [FeFe] hydrogenases and their evolution: a genomic perspective , 2007, Cellular and Molecular Life Sciences.
[13] R. Sawers,et al. Differential expression of hydrogenase isoenzymes in Escherichia coli K-12: evidence for a third isoenzyme , 1985, Journal of bacteriology.
[14] R. Hedderich,et al. Methanobacterium thermoautotrophicum encodes two multisubunit membrane-bound [NiFe] hydrogenases. Transcription of the operons and sequence analysis of the deduced proteins. , 1999, European journal of biochemistry.
[15] W. D. de Vos,et al. The Ferredoxin-dependent Conversion of Glyceraldehyde-3-phosphate in the Hyperthermophilic ArchaeonPyrococcus furiosus Represents a Novel Site of Glycolytic Regulation* , 1998, The Journal of Biological Chemistry.
[16] M. Adams,et al. Purification and Characterization of a Membrane-Bound Hydrogenase from the Hyperthermophilic ArchaeonPyrococcus furiosus , 2000, Journal of bacteriology.
[17] P. Vignais,et al. Occurrence, classification, and biological function of hydrogenases: an overview. , 2007, Chemical reviews.
[18] Rodrigo Lopez,et al. Clustal W and Clustal X version 2.0 , 2007, Bioinform..
[19] T. Swartz,et al. The Mrp system: a giant among monovalent cation/proton antiporters? , 2005, Extremophiles.
[20] F. Robb,et al. Enzymes of hydrogen metabolism in Pyrococcus furiosus. , 2000, European journal of biochemistry.
[21] H. Sakuraba,et al. Unique sugar metabolism and novel enzymes of hyperthermophilic archaea. , 2004, Chemical record.
[22] E. Boyd,et al. Isolation, Characterization, and Ecology of Sulfur-Respiring Crenarchaea Inhabiting Acid-Sulfate-Chloride-Containing Geothermal Springs in Yellowstone National Park , 2007, Applied and Environmental Microbiology.
[23] R. Hedderich,et al. Purification and catalytic properties of a CO-oxidizing:H2-evolving enzyme complex from Carboxydothermus hydrogenoformans. , 2002, European journal of biochemistry.
[24] H. Huber,et al. The respiratory chain of the thermophilic archaeon Sulfolobus metallicus: studies on the type-II NADH dehydrogenase. , 2003, Biochimica et biophysica acta.
[25] R. Ladenstein,et al. A protein disulfide oxidoreductase from the archaeon Pyrococcus furiosus contains two thioredoxin fold units , 1998, Nature Structural Biology.
[26] Bi Cheng Wang,et al. SurR regulates hydrogen production in Pyrococcus furiosus by a sulfur‐dependent redox switch , 2010, Molecular microbiology.
[27] M. Adams,et al. Key Role for Sulfur in Peptide Metabolism and in Regulation of Three Hydrogenases in the Hyperthermophilic ArchaeonPyrococcus furiosus , 2001, Journal of bacteriology.
[28] H. Klenk,et al. Hyperthermus butylicus, a hyperthermophilic sulfur-reducing archaebacterium that ferments peptides , 1990, Journal of bacteriology.
[29] Thomas L. Madden,et al. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. , 1997, Nucleic acids research.
[30] S. Shima,et al. The crystal structure of C176A mutated [Fe]‐hydrogenase suggests an acyl‐iron ligation in the active site iron complex , 2009, FEBS letters.
[31] R. Thauer,et al. Energy Conservation in Chemotrophic Anaerobic Bacteria , 1977, Bacteriological reviews.
[32] W. Doolittle,et al. Kosmotoga olearia gen. nov., sp. nov., a thermophilic, anaerobic heterotroph isolated from an oil production fluid. , 2009, International journal of systematic and evolutionary microbiology.
[33] Erin Beck,et al. The comprehensive microbial resource , 2000, Nucleic Acids Res..
[34] M. Adams,et al. Purification and characterization of pyruvate ferredoxin oxidoreductase from the hyperthermophilic archaeon Pyrococcus furiosus. , 1993, Biochimica et biophysica acta.
[35] August Böck,et al. Nucleotide sequence and expression of an operon in Escherichia coli coding for formate hydrogenylase components , 1990 .
[36] M. Tivey,et al. A ubiquitous thermoacidophilic archaeon from deep-sea hydrothermal vents , 2006, Nature.
[37] R. Hedderich,et al. Energy-Converting [NiFe] Hydrogenases: More than Just H2 Activation , 2006, Journal of Molecular Microbiology and Biotechnology.
[38] J. W. Peters,et al. Identification and Characterization of a Novel Member of the Radical AdoMet Enzyme Superfamily and Implications for the Biosynthesis of the Hmd Hydrogenase Active Site Cofactor , 2009, Journal of bacteriology.
[39] P. Soucaille,et al. Complete activity profile of Clostridium acetobutylicum [FeFe]-hydrogenase and kinetic parameters for endogenous redox partners. , 2007, FEMS microbiology letters.
[40] N. Ravin,et al. Metabolic Versatility and Indigenous Origin of the Archaeon Thermococcus sibiricus, Isolated from a Siberian Oil Reservoir, as Revealed by Genome Analysis , 2009, Applied and Environmental Microbiology.
[41] M. Posewitz,et al. New Frontiers in Hydrogenase Structure and Biosynthesis , 2008 .
[42] R. Hedderich,et al. Purification and catalytic properties of Ech hydrogenase from Methanosarcina barkeri. , 1999, European journal of biochemistry.
[43] T. Kudo,et al. Characterization of a gene responsible for the Na+/H+ antiporter system of alkalophilic Bacillus species strain C‐125 , 1994, Molecular microbiology.
[44] W. D. de Vos,et al. The unique features of glycolytic pathways in Archaea. , 2003, The Biochemical journal.
[45] Sun-Shin Cha,et al. Formate-driven growth coupled with H2 production , 2010, Nature.
[46] T. Friedrich,et al. The respiratory complex I of bacteria, archaea and eukarya and its module common with membrane‐bound multisubunit hydrogenases , 2000, FEBS letters.
[47] R. Huber,et al. Sulfur-inhibited Thermosphaera aggregans sp. nov., a new genus of hyperthermophilic archaea isolated after its prediction from environmentally derived 16S rRNA sequences. , 1998, International journal of systematic bacteriology.
[48] M. Adams,et al. The Iron-Hydrogenase of Thermotoga maritima Utilizes Ferredoxin and NADH Synergistically: a New Perspective on Anaerobic Hydrogen Production , 2009, Journal of bacteriology.
[49] M. Adams,et al. Sulfide dehydrogenase from the hyperthermophilic archaeon Pyrococcus furiosus: a new multifunctional enzyme involved in the reduction of elemental sulfur , 1994, Journal of bacteriology.
[50] Patrick Wincker,et al. Genome analysis and genome-wide proteomics of Thermococcus gammatolerans, the most radioresistant organism known amongst the Archaea , 2009, Genome Biology.
[51] P. D. de Jong,et al. Bovine-heart NADH:ubiquinone oxidoreductase is a monomer with 8 Fe-S clusters and 2 FMN groups. , 1997, Biochimica et biophysica acta.
[52] Sean D. Hooper,et al. Genomic Characterization of Methanomicrobiales Reveals Three Classes of Methanogens , 2009, PloS one.
[53] Michel Frey,et al. Crystal structure of the nickel–iron hydrogenase from Desulfovibrio gigas , 1995, Nature.
[54] S. Salzberg,et al. Evidence for lateral gene transfer between Archaea and Bacteria from genome sequence of Thermotoga maritima , 1999, Nature.
[55] Harald Huber,et al. Ignicoccus hospitalis sp. nov., the host of 'Nanoarchaeum equitans'. , 2007, International journal of systematic and evolutionary microbiology.
[56] B. Patel,et al. Aminobacterium colombiensegen. nov. sp. nov., an amino acid-degrading anaerobe isolated from anaerobic sludge. , 1998, Anaerobe.
[57] Natalia N. Ivanova,et al. A genomic analysis of the archaeal system Ignicoccus hospitalis-Nanoarchaeum equitans , 2008, Genome Biology.
[58] H. Atomi,et al. Distinct Physiological Roles of the Three [NiFe]-Hydrogenase Orthologs in the Hyperthermophilic Archaeon Thermococcus kodakarensis , 2011, Journal of bacteriology.
[59] M. Adams,et al. Hydrogenase of the hyperthermophile Pyrococcus furiosus is an elemental sulfur reductase or sulfhydrogenase: evidence for a sulfur-reducing hydrogenase ancestor. , 1993, Proceedings of the National Academy of Sciences of the United States of America.
[60] W. Whitman,et al. Characterization of Energy-Conserving Hydrogenase B in Methanococcus maripaludis , 2010, Journal of bacteriology.
[61] August Böck,et al. Maturation of hydrogenases. , 2006, Advances in microbial physiology.
[62] M. Adams,et al. A simple energy-conserving system: Proton reduction coupled to proton translocation , 2003, Proceedings of the National Academy of Sciences of the United States of America.
[63] A. Volbeda,et al. High-resolution crystallographic analysis of Desulfovibrio fructosovorans [NiFe] hydrogenase , 2002 .
[64] R. Hedderich,et al. A multisubunit membrane-bound [NiFe] hydrogenase and an NADH-dependent Fe-only hydrogenase in the fermenting bacterium Thermoanaerobacter tengcongensis. , 2004, Microbiology.
[65] John P. Huelsenbeck,et al. MrBayes 3: Bayesian phylogenetic inference under mixed models , 2003, Bioinform..
[66] Lynne A. Goodwin,et al. Complete genome sequence of Aminobacterium colombiense type strain (ALA-1T) , 2010, Standards in genomic sciences.
[67] J. W. Peters,et al. Evolutionary significance of an algal gene encoding an [FeFe]-hydrogenase with F-domain homology and hydrogenase activity in Chlorella variabilis NC64A , 2011, Planta.
[68] Lynne A. Goodwin,et al. Complete genome sequence of Ignisphaera aggregans type strain (AQ1.S1T) , 2010, Standards in genomic sciences.
[69] S. Shima,et al. Carbon monoxide as an intrinsic ligand to iron in the active site of the iron-sulfur-cluster-free hydrogenase H2-forming methylenetetrahydromethanopterin dehydrogenase as revealed by infrared spectroscopy. , 2004, Journal of the American Chemical Society.
[70] M. Adams,et al. SurR: a transcriptional activator and repressor controlling hydrogen and elemental sulphur metabolism in Pyrococcus furiosus , 2009, Molecular microbiology.
[71] Olga Zhaxybayeva,et al. On the chimeric nature, thermophilic origin, and phylogenetic placement of the Thermotogales , 2009, Proceedings of the National Academy of Sciences.
[72] H. Sakuraba,et al. Novel energy metabolism in anaerobic hyperthermophilic archaea: a modified Embden-Meyerhof pathway. , 2002, Journal of bioscience and bioengineering.
[73] M. Thomm,et al. Thermococcus aegaeicus sp. nov. and Staphylothermus hellenicus sp. nov., two novel hyperthermophilic archaea isolated from geothermally heated vents off Palaeochori Bay, Milos, Greece. , 2000, International journal of systematic and evolutionary microbiology.
[74] K. Ma,et al. Minimal sulfur requirement for growth and sulfur-dependent metabolism of the hyperthermophilic archaeon Staphylothermus marinus. , 2003, Archaea.
[75] A. Böck,et al. Mutational analysis of the operon (hyc) determining hydrogenase 3 formation in Escherichia coli , 1992, Molecular microbiology.
[76] H. Huber,et al. A sodium ion‐dependent A1AO ATP synthase from the hyperthermophilic archaeon Pyrococcus furiosus , 2007, The FEBS journal.
[77] S. Kang,et al. Proteome analysis of Thermococcus onnurineus NA1 reveals the expression of hydrogen gene cluster under carboxydotrophic growth. , 2011, Journal of proteomics.
[78] M. Adams,et al. [18] Hydrogenases I and II from Pyrococcus furiosus , 2001 .
[79] Hans-Peter Klenk,et al. The genome of Hyperthermus butylicus: a sulfur-reducing, peptide fermenting, neutrophilic Crenarchaeote growing up to 108 °C , 2007 .
[80] Michael W. W. Adams,et al. Insights into the Metabolism of Elemental Sulfur by the Hyperthermophilic Archaeon Pyrococcus furiosus: Characterization of a Coenzyme A- Dependent NAD(P)H Sulfur Oxidoreductase , 2007, Journal of bacteriology.
[81] T. Fukui,et al. Complete genome sequence of the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1 and comparison with Pyrococcus genomes. , 2005, Genome research.
[82] I. McDonald,et al. Ignisphaera aggregans gen. nov., sp. nov., a novel hyperthermophilic crenarchaeote isolated from hot springs in Rotorua and Tokaanu, New Zealand. , 2006, International journal of systematic and evolutionary microbiology.
[83] Philip Hinchliffe,et al. Structure of the Hydrophilic Domain of Respiratory Complex I from Thermus thermophilus , 2006, Science.
[84] C. Hägerhäll,et al. The ‘antiporter module’ of respiratory chain Complex I includes the MrpC/NuoK subunit – a revision of the modular evolution scheme , 2003, FEBS letters.
[85] R. Ladenstein,et al. Protein disulfides and protein disulfide oxidoreductases in hyperthermophiles , 2006, The FEBS journal.
[86] M. Adams,et al. Glyceraldehyde-3-phosphate Ferredoxin Oxidoreductase, a Novel Tungsten-containing Enzyme with a Potential Glycolytic Role in the Hyperthermophilic Archaeon Pyrococcus furiosus(*) , 1995, The Journal of Biological Chemistry.
[87] M. Adams,et al. Natural Competence in the Hyperthermophilic Archaeon Pyrococcus furiosus Facilitates Genetic Manipulation: Construction of Markerless Deletions of Genes Encoding the Two Cytoplasmic Hydrogenases , 2011, Applied and Environmental Microbiology.
[88] Daniel H. Huson,et al. Dendroscope: An interactive viewer for large phylogenetic trees , 2007, BMC Bioinformatics.
[89] P. Oger,et al. Complete Genome Sequence of the Hyperthermophilic, Piezophilic, Heterotrophic, and Carboxydotrophic Archaeon Thermococcus barophilus MP , 2011, Journal of bacteriology.
[90] J. Crolet,et al. Thiosulfate reduction, an important physiological feature shared by members of the order thermotogales , 1995, Applied and environmental microbiology.
[91] C. Vieille,et al. Hyperthermophilic Enzymes: Sources, Uses, and Molecular Mechanisms for Thermostability , 2001, Microbiology and Molecular Biology Reviews.
[92] A. Stams,et al. Thermotoga lettingae sp. nov., a novel thermophilic, methanol-degrading bacterium isolated from a thermophilic anaerobic reactor. , 2002, International journal of systematic and evolutionary microbiology.
[93] T. Hoaki,et al. Thermotoga petrophila sp. nov. and Thermotoga naphthophila sp. nov., two hyperthermophilic bacteria from the Kubiki oil reservoir in Niigata, Japan. , 2001, International journal of systematic and evolutionary microbiology.
[94] B J Lemon,et al. A novel FeS cluster in Fe-only hydrogenases. , 2000, Trends in biochemical sciences.
[95] R. Ladenstein,et al. Functional properties of the protein disulfide oxidoreductase from the archaeon Pyrococcus furiosus: a member of a novel protein family related to protein disulfide-isomerase. , 2004, European journal of biochemistry.
[96] R. Hedderich. Energy-Converting [NiFe] Hydrogenases from Archaea and Extremophiles: Ancestors of Complex I , 2004, Journal of bioenergetics and biomembranes.
[97] Matthew R. Johnson,et al. Microbial biochemistry, physiology, and biotechnology of hyperthermophilic Thermotoga species. , 2006, FEMS microbiology reviews.
[98] F. Lottspeich,et al. Membrane-bound hydrogenase and sulfur reductase of the hyperthermophilic and acidophilic archaeon Acidianus ambivalens. , 2003, Microbiology.
[99] W. Hagen,et al. UvA-DARE (Digital Academic Repository) Similarities in the architecture of the active sites of Ni-hydrogenases and Fe-hydrogenases detected by means of infrared spectroscopy , 2004 .
[100] S. Kang,et al. Identification of a Novel Class of Membrane-Bound [NiFe]-Hydrogenases in Thermococcus onnurineus NA1 by In Silico Analysis , 2010, Applied and Environmental Microbiology.
[101] Robert Huber,et al. Thermotoga maritima sp. nov. represents a new genus of unique extremely thermophilic eubacteria growing up to 90°C , 1986, Archives of Microbiology.
[102] M. Adams,et al. Purification and characterization of two reversible and ADP-dependent acetyl coenzyme A synthetases from the hyperthermophilic archaeon Pyrococcus furiosus , 1996, Journal of bacteriology.
[103] A. Pierik,et al. Biological activition of hydrogen , 1997, Nature.
[104] G. Rákhely,et al. Formate hydrogenlyase in the hyperthermophilic archaeon, Thermococcus litoralis , 2008, BMC Microbiology.
[105] E. Stackebrandt,et al. The first evidence of anaerobic CO oxidation coupled with H2 production by a hyperthermophilic archaeon isolated from a deep-sea hydrothermal vent , 2004, Extremophiles.
[106] J. Blamey,et al. A variable-temperature direct electrochemical study of metalloproteins from hyperthermophilic microorganisms involved in hydrogen production from pyruvate. , 1995, Biochemistry.
[107] J. Chun,et al. The Complete Genome Sequence of Thermococcus onnurineus NA1 Reveals a Mixed Heterotrophic and Carboxydotrophic Metabolism , 2008, Journal of bacteriology.
[108] M. Adams,et al. Potentiometric and electron nuclear double resonance properties of the two spin forms of the [4Fe-4S]+ cluster in the novel ferredoxin from the hyperthermophilic archaebacterium Pyrococcus furiosus. , 1991, The Journal of biological chemistry.
[109] Seigo Shima,et al. A third type of hydrogenase catalyzing H2 activation. , 2007, Chemical record.
[110] W. Hagen,et al. Hyperthermophilic redox chemistry: a re‐evaluation , 1998, FEBS letters.
[111] K. Ma,et al. Characterization of a Thioredoxin-Thioredoxin Reductase System from the Hyperthermophilic Bacterium Thermotoga maritima , 2010, Journal of bacteriology.
[112] U. Brandt,et al. The three families of respiratory NADH dehydrogenases. , 2008, Results and problems in cell differentiation.
[113] R. Sawers,et al. Maturation of [NiFe]-hydrogenases in Escherichia coli , 2007, BioMetals.
[114] P. Oger,et al. Complete Genome Sequence of the Obligate Piezophilic Hyperthermophilic Archaeon Pyrococcus yayanosii CH1 , 2011, Journal of bacteriology.
[115] J. W. Peters,et al. In vitro activation of [FeFe] hydrogenase: new insights into hydrogenase maturation , 2007, JBIC Journal of Biological Inorganic Chemistry.
[116] John P. Huelsenbeck,et al. MRBAYES: Bayesian inference of phylogenetic trees , 2001, Bioinform..
[117] Konstantin G. Skryabin,et al. The Genome Sequence of the Crenarchaeon Acidilobus saccharovorans Supports a New Order, Acidilobales, and Suggests an Important Ecological Role in Terrestrial Acidic Hot Springs , 2010, Applied and Environmental Microbiology.
[118] Luke E. Ulrich,et al. Genome Sequence of Thermofilum pendens Reveals an Exceptional Loss of Biosynthetic Pathways without Genome Reduction , 2008, Journal of bacteriology.
[119] Shigeki Mitaku,et al. SOSUI: classification and secondary structure prediction system for membrane proteins , 1998, Bioinform..
[120] T. Fukui,et al. Phosphoenolpyruvate synthase plays an essential role for glycolysis in the modified Embden‐Meyerhof pathway in Thermococcus kodakarensis , 2006, Molecular microbiology.
[121] M. Adams,et al. The hyperthermophilic bacterium, Thermotoga maritima, contains an unusually complex iron-hydrogenase: amino acid sequence analyses versus biochemical characterization. , 1999, Biochimica et biophysica acta.
[122] P. Schönheit,et al. Glucose fermentation to acetate, CO2 and H2 in the anaerobic hyperthermophilic eubacterium Thermotoga maritima: involvement of the Embden-Meyerhof pathway , 1994, Archives of Microbiology.
[123] A. Reysenbach,et al. Electron microscopy encounters with unusual thermophiles helps direct genomic analysis of Aciduliprofundum boonei , 2008, Geobiology.
[124] Anne-Kristin Kaster,et al. Hydrogenases from methanogenic archaea, nickel, a novel cofactor, and H2 storage. , 2010, Annual review of biochemistry.
[125] David Posada,et al. ProtTest: selection of best-fit models of protein evolution , 2005, Bioinform..