On the antiquity of metalloenzymes and their substrates in bioenergetics

Biochimica et Biophysica Acta - Bioenergetics

Volumn 1827, Issue 8-9, 2013, Pages 871-881

  Nitschke, Wolfgang ^a   McGlynn, Shawn E ^b   Milner White, E James ^c   Russell, Michael J ^d  

^a CNRS   (France)

^b CALIFORNIA INSTITUTE OF TECHNOLOGY   (United States)

^c UNIVERSITY OF GLASGOW   (United Kingdom)

^d CALIFORNIA INSTITUTE OF TECHNOLOGY   (United States)

Author keywords

ACS; CODH; Metal sulfide; Methane monooxygenase; Ni Fe hydrogenase

Indexed keywords

ACETYL COENZYME A SYNTHETASE; CARBON MONOXIDE DEHYDROGENASE; ENZYME; METALLOENZYME; METHANE MONOOXYGENASE; METHANETHIOL; NICKEL IRON HYDROGENASE; TRANSITION ELEMENT; UNCLASSIFIED DRUG; METAL;

ANTIQUITY; ARTICLE; ATMOSPHERIC PRESSURE; BIOENERGY; CATALYST; ELECTRON TRANSPORT; ENERGY CONVERSION; ENERGY METABOLISM; HIGH TEMPERATURE; HYDROGEN BOND; HYDROGENATION; HYDROTHERMAL VENT; LAST COMMON ANCESTOR; MOLECULAR PHYLOGENY; OXIDATION REDUCTION POTENTIAL; OXIDATION REDUCTION REACTION; PRIORITY JOURNAL; RESPIRATORY CHAIN; THERMODYNAMICS; ACS; BIOCATALYSIS; CHEMISTRY; CODH; ENZYME SPECIFICITY; METABOLISM; METAL SULFIDE; NI-FE HYDROGENASE;

ACS; CODH; METAL SULFIDE; METHANE MONOOXYGENASE; NI-FE HYDROGENASE;

BIOCATALYSIS; ENERGY METABOLISM; ENZYMES; METALS; SUBSTRATE SPECIFICITY;

EID: 84884320609     PISSN: 00052728     EISSN: 18792650     Source Type: Journal    
DOI: 10.1016/j.bbabio.2013.02.008     Document Type: Article

References (159)

1. J.J.R. Fraústo da Silva, R.J.P. Williams, The Biological Chemistry of the Elements, Oxford University Press, New York, 2001.
2. R.J.P. Williams, J.J.R. Frausto Da Silva, Evolution was chemically constrained, J. Theor. Biol. 220 (2003) 323-343. (Pubitemid 36181534)
3. A.L. Zerkle, C.H. House, S.L. Brantley, Biogeochemical signatures through time as inferred from whole microbial genomes, Am. J. Sci. 305 (2005) 467-502. (Pubitemid 43240151)
4. A. Cvetkovic, A.L. Menon, M.P. Thorgersen, J.W. Scott, F.L. Poole, F.E. Jenney, W.A. Lancaster, J.L. Praissman, S. Shanmukh, B.J. Vaccaro, S.A. Trauger, E. Kalisiak, J.V. Apon, G. Siuzdak, S.M. Yannone, J.A. Tainer, M.W.W. Adams, Microbial metalloproteomes are largely uncharacterized, Nature 466 (2010) 779-782.
5. R.H. Crabtree, The Organometallic Chemistry of the Transition Metals, 5th edition JohnWiley and Sons Ltd, 2009.
6. E. Branscomb, M.J. Russell, Turnstiles and bifurcators: the disequilibrium converting engines that put metabolism on the road, Biochim. Biophys. Acta Bioenerg. 1827 (2013) 62-78.
7. W. Nitschke, M.J. Russell, Beating the acetyl coenzyme-A to the origin of life, Phil. Trans. R. Soc. B Biol. Sci. (in press).
8. M.J. Russell, W. Nitschke, E. Branscomb, The inevitable journey to being, Phil. Trans. R. Soc. Lond. B. Biol. Sci. (in press).
9. F. Baymann, E. Lebrun, M. Brugna, B. Schoepp-Cothenet, M.T. Giudici-Orticoni, W. Nitschke, The redox protein construction kit: pre-last universal common ancestor evolution of energy-conserving enzymes, Philos. Trans. R. Soc. Lond. B Biol. Sci. 358 (2003) 267-274. (Pubitemid 36178235)
10. M.J. Russell, R.M. Daniel, A.J. Hall, J. Sherringham, A hydrothermally precipitated catalytic iron sulphide membrane as a first step toward life, J. Mol. Evol. 39 (1994) 231-243. (Pubitemid 24283339)
11. P.M. Vignais, B. Billoud, J. Meyer, Classification and phylogeny of hydrogenases, FEMS Microbiol. Rev. 25 (2001) 455-501. (Pubitemid 32778469)
12. H.-F. Ji, L. Chen, Y.-Y. Jiang, H.-Y. Zhang, Evolutionary formation of new protein folds is linked to metallic cofactor recruitment, Bioessays 31 (2009) 975-980.
13. M. Brugna-Guiral, P. Tron, W. Nitschke, K.O. Stetter, B. Burlat, B. Guigliarelli, M. Bruschi, M.T. Giudici-Orticoni, NiFe hydrogenases from the hyperthermophilic bacterium Aquifex aeolicus; properties, function and phylogenetics, Extremophiles 7 (2003) 145-157. (Pubitemid 40924484)
14. M.J. Russell, W. Martin, The rocky roots of the acetyl coenzyme-A pathway, Trends Biochem. Sci. 24 (2004) 358-363. (Pubitemid 38968752)
15. A.L. Ducluzeau, R. van Lis, S. Duval, B. Schoepp-Cothenet, M.J. Russell,W. Nitschke, Was nitric oxide the first deep electron sink? Trends Biochem. Sci. 34 (2009) 9-15.
16. S.E. McGlynn, D.W. Mulder, E.M. Shepard, J.B. Broderick, J.W. Peters, Hydrogenase cluster biosynthesis: organometallic chemistry nature's way, Dalton Trans. 2009 (2009) 4274-4285.
17. R. van Lis, A.-L. Ducluzeau, W. Nitschke, B. Schoepp-Cothenet, The nitrogen cycle in the Archaean; an intricate interplay of enzymatic and abiotic reactions, in: J.W.B. Moir (Ed.), Nitrogen Cycling in Bacteria: Molecular Analysis, Caister Academic Press, ISBN: 978-1-904455-86-8, 2011, pp. 1-21, (Chapter I).
18. W. Nitschke, M.J. Russell, Hydrothermal focusing of chemical and chemiosmotic energy, supported by delivery of catalytic Fe, Ni, Mo/W, Co, S and Se, forced life to emerge, J. Mol. Evol. 69 (2009) 481-496.
19. W. Nitschke, M.J. Russell, Redox bifurcations: mechanisms and importance to life now, and at its origin, Bioessays 34 (2012) 106-109.
20. B. Schoepp-Cothenet, R. van Lis, P. Philippot, A. Magalon, M.J. Russell, W. Nitschke, The ineluctable requirement for the trans-iron elements molybdenum and/or tungsten in the origin of life, Sci. Rep. 2 (2012) 263.
21. B. Schoepp-Cothenet, R. van Lis, A. Atteia, F. Baymann, L. Capowiez, A.-L. Ducluzeau, S. Duval, F. ten Brink, M.J. Russell, W. Nitschke, On the universal core of bioenergetics, Biochim. Biophys. Acta Bioenerg. 1827 (2013) 79-93.
22. S. Duval, A.-L. Ducluzeau, W. Nitschke, B. Schoepp-Cothenet, Enzyme phylogenies as markers for the oxidation state of the environment: the case of respiratory arsenate reductase and related enzymes, BMC Evol. Biol. 8 (2008) 206-219.
23. M.E. Pandelia, W. Lubitz, W. Nitschke, Evolution and diversification of Group 1 NiFe hydrogenases. Is there a phylogenetic marker for O2-tolerance? Biochim. Biophys. Acta Bioenerg. 1817 (2012) 1565-1575.
24. F. Baymann, B. Schoepp-Cothenet, E. Lebrun, R. van Lis, W. Nitschke, Phylogeny of Rieske/cytb complexes with a special focus on the haloarchaeal enzymes, Genome Biol. Evol. 4 (2012) 720-729.
25. W. Nitschke, M.J. Russell, Just like the Universe the emergence of life had high enthalpy and low entropy beginnings, J. Cosmol. 10 (2010) 3200-3216.
26. W. Martin, J. Baross, D. Kelley, M.J. Russell, Hydrothermal vents and the origin of life, Nat. Rev. Microbiol. 6 (2008) 806-814.
27. R.V. Eck, M.O. Dayhoff, Evolution of the structure of ferredoxin based on living relics of primitive amino acid sequences, Science 152 (1966) 363-366.
28. D.O. Hall, R. Cammack, K.K. Rao, Role of ferredoxins in the origin of life and biological evolution, Nature 233 (1971) 136-138.
29. M.J. Russell, A.J. Hall, A. Mellersh, On the dissipation of thermal and chemical energies on the early Earth: the onsets of hydrothermal convection, chemiosmosis, genetically regulated metabolism and oxygenic photosynthesis, in: R. Ikan (Ed.), Natural and Laboratory-Simulated Thermal Geochemical Processes, Kluwer Academic Publishers, Dordrecht, 2003, pp. 325-388.
30. T.I. Doukov, T.M. Iverson, J. Seravalli, S.W. Ragsdale, C.L. Drennan, A Ni-Fe-Cu center in a bifunctional carbon monoxide dehydrogenase/acetyl-CoA synthase, Science 298 (2002) 567-572. (Pubitemid 35215305)
31. A. Volbeda, J.C. Fontecilla-Camps, The active site and catalytic mechanism of NiFe hydrogenases, Dalton Trans. 2003 (2003) 4030-4038.
32. A. Volbeda, J.C. Fontecilla-Camps, Catalytic nickel-iron-sulfur clusters: from minerals to enzymes, in: G. Simmonneaux (Ed.), Topics in Organometallic Chemistry, vol. 17, Springer, Berlin, Germany, 2006, pp. 57-82. (Pubitemid 44889516)
33. V. Svetlitchnyi, H. Dobbeck, W. Meyer-Klaucke, T. Meins, B. Thiele, P. Römer, R. Huber, O. Meyer, A functional Ni-Ni- 4Fe4S cluster in the monomeric acetyl-CoA synthase from Carboxydothermus hydrogenoformans, Proc. Natl. Acad. Sci. U. S. A. 101 (2004) 446-451. (Pubitemid 38084656)
34. C. Darnault, A. Volbeda, E.J. Kim, P. Legrand, X. Vernède, P.A. Lindahl, J.C. Fontecilla-Camps, Ni-Zn- Fe4-S4 and Ni-Ni- Fe4-S4 clusters in closed and open a-subunits of acetyl-CoA synthase/carbon monoxide dehydrogenase, Nat. Struct. Biol. 10 (2003) 271-279. (Pubitemid 36418751)
35. M.-H. Baik, M. Newcomb, R.A. Friesner, S.J. Lippard, Mechanistic studies on the hydroxylation of methane by methane monooxygenase, Chem. Rev. 103 (2003) 2385-2419.
36. M.W.W. Adams, The evolutionary significance of the metabolism of tungsten by microorganisms growing at 100 °C, in: J. Wiegel, M.W. Adams (Eds.), Thermophiles: the Keys to Molecular Evolution and the Origin of Life? Taylor and Francis, London and Philadelphia, 1998, pp. 325-338.
37. W. Martin, M.J. Russell, On the origin of biochemistry at an alkaline hydrothermal vent, Philos. Trans. R. Soc. B 362 (2007) 1887-1925. (Pubitemid 47547194)
38. J.D. Watson, E.J. Milner-White, A novel main-chain anion-binding site in proteins: The Nest. A particular combination of phi, psi values in successive residues gives rise to anion-binding sites that occur commonly and are found often at functionally important regions, J. Mol. Biol. 315 (2002) 171-182. (Pubitemid 34722120)
39. E.J. Milner-White, M.J. Russell, Sites for phosphates and iron-sulfur thiolates in the first membranes: 3 to 6 residue anion-binding motifs (nests), Orig. Life Evol. Biosph. 35 (2005) 19-27. (Pubitemid 40660308)
40. E.J. Milner-White, M.J. Russell, Predicting peptide and protein conformations in early evolution, Biol. Direct 3 (2008) 3, http://dx.doi.org/10. 1186/1745-6150-3-3.
41. N. Lane, Why are cells powered by proton gradients? Nat. Educ. 3 (2010) 18.
42. N. Lane, J.F. Allen, W. Martin, How did LUCA make a living? Chemiosmosis in the origin of life, Bioessays 32 (2010) 271-280.
43. B. Siebers, P. Schönheit, Unusual pathways and enzymes of central carbohydrate metabolism in Archaea, Curr. Opin. Microbiol. 8 (2005) 695-705. (Pubitemid 41643038)
44. R.F. Say, G. Fuchs, Fructose 1,6-bisphosphate aldolase/phosphatase may be an ancestral gluconeogenic enzyme, Nature 464 (2010) 1077-1081.
45. G. Fuchs, Alternative pathways of carbon dioxide fixation: insights into the early evolution of life, Annu. Rev. Microbiol. 65 (2011) 631-658.
46. R.S. Oremland, J.S. Blum, C.W. Culbertson, P.T. Visscher, L.G. Miller, P. Dowdle, F.E. Strohmaier, Isolation, growth, and metabolism of an obligately anaerobic, selenaterespiring bacterium, strain SES-3, Appl. Environ. Microbiol. 60 (1994) 3011-3019. (Pubitemid 24242303)
47. E. Lebrun, M. Brugna, F. Baymann, D. Muller, D. Lièvremont, M.-C. Lett, W. Nitschke, Arsenite oxidase, an ancient bioenergetic enzyme, Mol. Biol. Evol. 20 (2003) 686-693. (Pubitemid 36539004)
48. E. Afkar, J. Lisak, C. Saltikov, P. Basu, R.S. Oremland, J.F. Stolz, The respiratory arsenate reductase from Bacillus selenitireducens strain MLS10, FEMS Microbiol. Lett. 226 (2003) 107-112. (Pubitemid 38444904)
49. K.R. Hoke, N. Cobb, F.A. Armstrong, R. Hille, Electrochemical studies of arsenite oxidase: an unusual example of a highly cooperative two-electron molybdenum center, Biochemistry 43 (2004) 1667-1674. (Pubitemid 38200573)
50. S.E. Hoeft, J. Switzer Blum, J.F. Stolz, F.R. Tabita, B. Witte, G.M. King, J.M. Santini, R.S. Oremland, Alkalilimnicola ehrlichii sp. nov., a novel, arsenite-oxidizing haloalkaliphilic gamma proteobacterium capable of chemoautotrophic or heterotrophic growth with nitrate or oxygen as the electron acceptor, Int. J. Syst. Evol. Microbiol. 57 (2007) 504-512. (Pubitemid 46437862)
51. B. Schink, M. Friedrich, Phosphite oxidation by sulphate reduction, Nature 406 (2000) 37.
52. M. Xu, X. Chen, M. Qiu, X. Zeng, J. Xu, et al., Bar-coded pyrosequencing reveals the responses of PBDE-degrading microbial communities to electron donor amendments, PLoS One 7 (1) (2012) e30439, http://dx.doi.org/10.1371/journal. pone.0030439.
53. T. Nilsson, M. Rova, A.S. Bäcklund, Microbial metabolism of oxochlorates: a bioenergetic perspective, Biochim. Biophys. Acta Bioenerg. 1827 (2013) 189-197, http://dx.doi.org/10.1016/j.bbabio.2012.06.010.
54. S.M. Techtmann, A.V. Lebedinsky, A.S. Colman, T.G. Sokolova, T. Woyke, L. Goodwin, F.T. Robb, Evidence for horizontal gene transfer of anaerobic carbon monoxide dehydrogenases, Front. Microbiol. 3 (2012) 132.
55. M. Klein, M. Friedrich, A.J. Roger, P. Hugenholtz, S. Fishbain, H. Abicht, L.L. Blackall, D.A. Stahl, M. Wagner, Multiple lateral transfers of dissimilatory sulfite reductase genes between major lineages of sulfate-reducing prokaryotes, J. Bacteriol. 183 (2001) 6028-6035. (Pubitemid 32917422)
56. U. Theissen, M. Hoffmeister, M. Grieshaber, W. Martin, Single eubacterial origin of eukaryotic sulfide:quinone oxidoreductase, a mitochondrial enzyme conserved from the early evolution of eukaryotes during anoxic and sulfidic times, Mol. Biol. Evol. 20 (2003) 1564-1574. (Pubitemid 37082591)
57. R.A. Rothery, G.J. Workun, J.H. Weiner, The prokaryotic complex iron-sulfur molybdoenzyme family, Biochim. Biophys. Acta 1778 (2008) 1897-1929.
58. C.A. McDevitt, P. Hugenholtz, G.R. Hanson, A.G. McEwan, Molecular analysis of dimethyl sulphide dehydrogenase from Rhodovulum sulfidophilum: its place in the dimethyl sulphoxide reductase family of microbial molybdopterincontaining enzymes, Mol. Microbiol. 44 (2002) 1575-1587. (Pubitemid 34639434)
59. T. Friedrich, D. Scheide, The respiratory complex I of bacteria, archaea and eukarya and its module common with membrane-bound multisubunit hydrogenases, FEBS Lett. 479 (2000) 1-5. (Pubitemid 30625247)
60. R.S. Lemos, A.S. Fernandes, M.M. Pereira, C.M. Gomes, M. Teixeira, Quinol:fumarate oxidoreductases and succinate:quinone oxidoreductases: phylogenetic relationships, metal centres and membrane attachment, Biochim. Biophys. Acta Bioenerg. 1553 (2002) 158-170. (Pubitemid 34137067)
61. B.C.Marreiros, A.P. Batista, A.M.S. Duarte,M.M. Pereira, Amissing link between complex I and group 4 membrane-bound NiFe hydrogenases, Biochim. Biophys. Acta Bioenerg. 1827 (2013) 198-209, http://dx.doi.org/10.1016/j.bbabio. 2012.09.012.
62. L. Philippot, Denitrifying genes in bacterial and archaeal genomes, Biochim. Biophys. Acta Gene Struct. Expr. 1577 (2002) 355-376.
63. R.S. Martin, T.A. Mather, D.M. Pyle, Volcanic emissions and the early Earth atmosphere, Geochim. Cosmochim. Acta 71 (2007) 3673-3685. (Pubitemid 47065183)
64. R.L. Mancinelli, C.P. McKay, The evolution of nitrogen cycling, Orig. Life Evol. Biosph. 18 (1988) 311-325.
65. L.R. Kump, W.E. Seyfried, Hydrothermal Fe fluxes during the Precambrian: effect of low oceanic sulfate concentrations and low hydrostatic pressure on the composition of black smokers, Earth Planet. Sci. Lett. 235 (2005) 654-662. (Pubitemid 40912055)
66. F. Klein, W. Bach, N. Jöns, T. McCollom, B. Moskowitz, T. Berquó, Iron partitioning and hydrogen generation during serpentinization of abyssal peridotites from 15°N on theMid-Atlantic Ridge, Geochim. Cosmochim. Acta 73 (2009) 6868-6893.
67. K. Schmidt, D. Garbe-Schönberg, A. Koschinsky, H. Strauss, C.L. Jost, V. Klevenz, P. Königer, Fluid elemental and stable isotope composition of the Nibelungen hydrothermal field (8°18'S, Mid-Atlantic Ridge): constraints on fluid-rock interaction in heterogeneous lithosphere, Chem. Geol. 280 (2011) 1-18.
68. G. Wächtershäuser, Before enzymes and templates: theory of surface metabolism, Microbiol. Rev. 52 (1988) 452-484.
69. M.J. Russell, A.J. Hall, D. Turner, In vitro growth of iron sulphide chimneys: possible culture chambers for origin-of-life experiments, Terra Nova 1 (1989) 238-241.
70. R.E. Mielke, K.J. Robinson, L.M. White, S.E. McGlynn, K. McEachern, R. Bhartia, I. Kanik, M.J. Russell, Iron-sulfide-bearing chimneys as potential catalytic energy traps at life's emergence, Astrobiology 11 (2011) 933-950.
71. S. Groysman, R.H. Holm, Biomimetic chemistry of iron, nickel, molybdenum, and tungsten in sulfur-ligated protein sites, Biochemistry 48 (2009) 2310-2320.
72. G.R. Helz, E. Bura-Nakić, N. Mikac, I. Ciglenećki, New model for molybdenum behavior in euxinic waters, Chem. Geol. 284 (2011) 323-332.
73. T.P. Vorlicek, M.D. Kahn, Y. Kasuya, G.R. Helz, Capture of molybdenum in pyrite-forming sediments; role of ligand-induced reduction by polysulfides, Geochim. Cosmochim. Acta 68 (2004) 547-556. (Pubitemid 38162485)
74. K.A. Ludwig, C.C. Shen, D.S. Kelley, H. Cheng, R.L. Edwards, U-Th systematics and 230Th ages of carbonate chimneys at the Lost City hydrothermal field, Geochim. Cosmochim. Acta 75 (2011) 1869-1888.
75. G. Proskurowski, M.D. Lilley, J.S. Seewald, G.L. Früh-Green, E.J. Olson, J.E. Lupton, S.P. Sylva, D.S. Kelley, Abiogenic hydrocarbon production at Lost City hydrothermal field, Science 319 (2008) 604-607. (Pubitemid 351197059)
76. G. Etiope,M. Schoell,H.Hosgormez,Abioticmethane flux fromthe Chimaera seep and Tekirova ophiolites (Turkey): understanding gas exhalation from low temperature serpentinization and implications for Mars, Earth Planet. Sci. Lett. 310 (2011) 96-104.
77. D.S. Kelley, J.A. Karson, D.K. Blackman, G.L. Früh-Green, D.A. Butterfield, M.D. Lilley, E.J. Olson, M.O. Schrenk, K.K. Roe, G.T. Lebon, P. Rivizzigno, the AT3-60 Shipboard Party, An off-axis hydrothermal vent field near the Mid-Atlantic ridge at 30°N, Nature 412 (2001) 145-149. (Pubitemid 32674703)
78. R.E. Mielke, M.J. Russell, P.R. Wilson, S. McGlynn, M. Coleman, R. Kidd, I. Kanik, Design, fabrication and test of a hydrothermal reactor for origin of life experiments, Astrobiology 10 (2010) 799-810.
79. M.J. Russell, A.J. Hall, The onset and early evolution of life, in: S.E. Kesler, H. Ohmoto (Eds.), Evolution of early Earth's atmosphere, hydrosphere, and biosphere - constraints from ore deposits, Geological Society of America, Memoir, 198, 2006, pp. 1-32.
80. A. Smirnov, D. Hausner, R. Laffers, D.R. Strongin, M.A.A. Schoonen, Abiotic ammonium formation in the presence of Ni-Fe metals and alloys and its implications for the Hadean nitrogen cycle, Geochem. Trans. 9 (2008) 5, http://dx.doi.org/10.1186/ 1467-4866-9-5.
81. A.G. Cairns-Smith, A.J. Hall, M.J. Russell, Mineral theories of the origin of life and an iron sulphide example, Orig. Life Evol. Biosph. 22 (1992) 161-180.
82. L.P. Knauth, D.R. Lowe, High Archean climatic temperature inferred from oxygen isotope geochemistry of cherts in the 3.5 Ga Swaziland Supergroup, South Africa, Geol. Soc. Am. Bull. 115 (2003) 566-580. (Pubitemid 36650380)
83. K. Zahnle, N. Arndt, C. Cockell, A. Halliday, E. Nisbet, F. Selsis, N.H. Sleep, Emergence of a habitable planet, Space Sci. Rev. 129 (2007) 35-78. (Pubitemid 47289559)
84. K. Kuma, B. Gedulin, W. Paplawsky, G. Arrhenius, Mixed-valence hydroxides as bioorganic host minerals, Orig. Life Evol. Biosph. 19 (1983) 139-152.
85. G.O. Arrhenius, Crystals and life, Helv. Chim. Acta 86 (2003) 1569-1586. (Pubitemid 36735720)
86. N.H. de Leeuw, T.G. Cooper, Surface simulation studies of the hydration of white rust Fe(OH)2, goethite a-FeO(OH) and hematite a-Fe2O3, Geochim. Cosmochim. Acta 71 (2007) 1655-1673. (Pubitemid 46395092)
87. A.M. Mloszewska, E. Pecoits, N.L. Cates, S.J. Mojzsis, J. O'Neil, L.J. Robbins, K.O. Konhauser, The composition of Earth's oldest iron formations: the Nuvvuagittuq Supracrustal Belt (Québec, Canada), Earth Planet. Sci. Lett. 317 (2012) 331-342.
88. S.Q. Lang, D.A. Butterfield, M. Schulte, D.S. Kelley, M.D. Lilley, Elevated concentrations of formate, acetate and dissolved organic carbon found at the Lost City hydrothermal field, Geochim. Cosmochim. Acta 74 (2010) 941-952.
89. J.L. Charlou, J.P. Donval, C. Konn, H. Ondreas, Y. Fouquet, P. Jean-Baptiste, E. Fourré, High production and fluxes of H2 and CH4 and evidence of abiotic hydrocarbon synthesis by serpentinization in ultramafic-hosted hydrothermal systems on theMid-Atlantic Ridge, in: P. Rona, C. Devey, J. Dyment, B. Murton (Eds.), Diversity of Hydrothermal Systems on Slow Spreading Ocean Ridges, AGU Geophysical Monograph 188American Geophysical Union,Washington DC, 2010.
90. K.L. Von Damm, M.D. Lilley, Diffuse flow hydrothermal fluids from 9° 50' N East Pacific Rise: Origin, evolution and biogeochemical controls, in: W.S. Wilcock, et al., (Eds.), The subseafloor biosphere at mid-ocean ridges, Geophys. Monogr. Ser., vol. 144, AGU, Washington, D. C, 2004, pp. 245-268, http://dx.doi.org/10.1029/ 144GM16.
91. A. Koschinsky, D. Garbe-Schonberg, S. Sander, K. Schmidt, H. Gennerich, H. Strauss, Hydrothermal venting at pressure-temperature conditions above the critical point of seawater, 58S on the mid-Atlantic ridge, Geology 36 (2008) 615-618.
92. B.E. Erickson, G.R. Helz, Molybdenum (VI) speciation in sulfidic waters: stability and lability of thiomolybdates, Geochim. Cosmochim. Acta 64 (2000) 1149-1158. (Pubitemid 30239468)
93. G.R. Helz, T.P. Vorlicek, M.D. Kahn, Molybdenum scavenging by iron monosulfide, Environ. Sci. Technol. 38 (2004) 4263-4268. (Pubitemid 39095219)
94. G.R. Helz, C.V. Miller, J.M. Charnock, J.F.W. Mosselmans, R.A.D. Pattrick, C.D. Garner, D.J. Vaughan, Mechanism of molybdenum removal from the sea and its concentration in black shales. EXAFS evidence, Geochim. Cosmochim. Acta 60 (1996) 3631-3642.
95. M.J. Russell, D.E. Daia, A.J. Hall, The emergence of life from FeS bubbles at alkaline hot springs in an acid ocean, in: J.Wiegel, M.W. Adams (Eds.), Thermophiles: The Keys to Molecular Evolution and the Origin of Life? Taylor and Francis, London and Philadelphia, 1998, pp. 77-126.
96. D. Rickard, G.W. Luther, Chemistry of iron sulfides, Chem. Rev. 107 (2007) 514-562. (Pubitemid 46381032)
97. M. Wolthers, S.J. Van der Gaast, D. Rickard, The structure of disordered mackinawite, Am. Mineralog. 88 (2003) 2007-2015. (Pubitemid 38092833)
98. K.D. Kwon, K. Refson, S. Bone, R. Qiao, W-l. Yang, Z. Liu, G. Sposito, Magnetic ordering in tetragonal FeS: evidence for strong itinerant spin fluctuations, Phys. Rev. B 83 (2011) 064402.
99. C. Wittekindt, D. Marx, Water confined between sheets of mackinawite FeS minerals, J. Chem. Phys. 137 (2012) 054710.
100. D.J. Vaughan, Nickelian mackinawite from Vlakfontein, Transvaal, Am. Mineral. 54 (1969) 1190-1193.
101. D.J. Vaughan, J.R. Craig, The crystal chemistry of iron-nickel thiospinels, Am. Mineral. 70 (1985) 1036-1043.
102. A.H. Clark, Nickelian mackinawite from Vlakfontein, Transvaal: a discussion, Am. Mineral. 55 (1970) 1802-1807.
103. B.J. Skinner, R.C. Erd, F.S. Grimaldi, Greigite, the thio-spinel of iron; a new mineral, Am. Mineral. 49 (1964) 543-555.
104. J.W. Morse, T. Arakaki, Adsorption and coprecipitation of divalent metals with mackinawite (FeS), Geochim. Cosmochim. Acta 57 (1993) 3635-3640. (Pubitemid 24418327)
105. S. Haider, R. Grau-Crespo, A.J. Devey, N.H. de Leeuw, Cation distribution and mixing thermodynamics in Fe/Ni thiospinels, Geochim. Cosmochim. Acta 88 (2012) 275-282.
106. C. Huber, G. Wächtershäuser, Activated acetic acid by carbon fixation on (Fe, Ni) S under primordial conditions, Science 276 (1997) 245-247.
107. C. Huber, G.Wächtershäuser, Primordial reductive amination revisited, Tetrahedron Lett. 44 (2003) 1695-1697. (Pubitemid 36170115)
108. C. Huber, G. Wächtershäuser, Peptides by activation of amino acids on (Fe, Ni)S surfaces: implications for the origin of life, Science 281 (1998) 670-672.
109. C. Huber, W. Eisenreich, S. Hecht, G. Wächtershäuser, A possible primordial peptide cycle, Science 301 (2003) 938-940. (Pubitemid 36994799)
110. S.E. McGlynn, I. Kanik, M.J. Russell, Peptide and RNA contributions to iron-sulphur chemical gardens as life's first inorganic compartments, catalysts, capacitors and condensers, Philos. Trans. R. Soc. Lond. A Phys. Sci. 370 (2012) 1-16.
111. M.A. Schoonen, A. Smirnov, C. Cohn, A perspective on the role of minerals in prebiotic synthesis, Ambio 33 (2004) 539-551. (Pubitemid 40033402)
112. S.D. Wankel, M.M. Adams, D.T. Johnston, C.M. Hansel, S.B. Joye, P.R. Girguis, Anaerobic methane oxidation in metalliferous hydrothermal sediments: influence on carbon flux and decoupling from sulfate reduction, Environ. Microbiol. 14 (2012) 2726-2740.
113. E.J. O'Loughlin, P. Larese-Casanova, M. Scherer, R. Cook, Green rust formation from the bioreduction of γ-FeOOH (lepidocrocite): comparison of several Shewanella species, Geomicrobiol. J. 24 (2007) 211-230. (Pubitemid 47180055)
114. E.J. Beal, C.H. House, V.J. Orphan, Manganese- and iron-dependent marine methane oxidation, Science 325 (2009) 184-187.
115. K.F. Ettwig, M.K. Butler, D. Le Paslier, E. Pelletier, S. Mangenot, M.M.M. Kuypers, F. Schreiber, B.E. Dutilh, J. Zedelius, D. de Beer, et al., Nitrite-driven anaerobic methane oxidation by oxygenic bacteria, Nature 464 (2010) 543-548.
116. P. Refait, J.M.R. Génin, The oxidation of ferrous hydroxide in chloride-containing aqueous media and Pourbaix diagrams of green rust one, Corros. Sci. 34 (1993) 797-819.
117. F. Feder, F. Trolard, G. Klingelhöfer, G. Bourrié, In situ Mössbauer spectroscopy: evidence for green rust (fougerite) in a gleysol and its mineralogical transformations with time and depth, Geochim. Cosmochim. Acta 69 (2005) 4463-4483. (Pubitemid 41430782)
118. J.-M.R. Génin, R. Aïssa, A. Géhin, M. Abdelmoula, O. Benali, V. Ernstsen, G. Ona-Nguema, C. Upadhyay, C. Ruby, Fougerite and FeII-III hydroxycarbonate green rust: ordering, deprotonation and/or cation substitution; structure of hydrotalcite-like compounds and mythic hydroxide Fe(OH)(2+x), Solid State Sci. 7 (2005) 545-572. (Pubitemid 40612336)
119. J.-M.R. Génin, M. Abdelmoula, R. Aissa, C. Ruby, Ordering in FeII-III hydroxysalt green rusts from XRD and Mössbauer analysis (chloride, carbonate, sulphate, oxalate⋯); about the structure of hydrotalcite-like compounds, Hyperfine Interact. 166 (2006) 391-396.
120. J.-M.R. Génin, M. Abdelmoula, C. Ruby, C. Upadhyay, Speciation of iron; characterisation and structure of green rusts and FeII-III oxyhydroxycarbonate fougerite, C.R. Geosci. 338 (2006) 402-419. (Pubitemid 43947835)
121. J.-M.R. Génin, C. Ruby, A. Géhin, Ph. Refait, Synthesis of green rust by oxidation of Fe(OH)2, their products of oxidation and reduction of ferric oxyhydroxides; Eh-pH Pourbaix diagrams, C.R. Geosci. 338 (2006) 433-446. (Pubitemid 43947834)
122. H. Antony, L. Legrand, A. Chaussé, Carbonate and sulphate green rusts - mechanisms of oxidation and reduction, Electrochim. Acta 53 (2008) 7146-7156.
123. C. Ruby, M. Abdelmoula, S. Naille, A. Renard, V. Khare, G. Ona-Nguema, G. Morin, J.-M.R. Génin, Oxidation modes and thermodynamics of FeII-III oxyhydroxycarbonate green rust: dissolution-precipitation versus in situ deprotonation, Geochim. Cosmochim. Acta 74 (2010) 953-966.
124. G. Proskurowski, M.D. Lilley, D.S. Kelley, E.J. Olson, Low temperature volatile production at the Lost City hydrothermal field, evidence from a hydrogen stable isotope geothermometer, Chem. Geol. 229 (2006) 331-343.
125. F. Egami, Comment to concept on role of nitrate fermentation and nitrate respiration in an evolutionary pathway of energy metabolism, Z. Allg. Mikrobiol. 13 (1973) 177-181.
126. H.C.B. Hansen, O.K. Borggaard, J. Sørensen, Evaluation of the free energy of formation of Fe(II)-Fe(III) hydroxide-sulphate (green rust) and its reduction of nitrite, Geochim. Cosmochim. Acta 58 (1994) 2599-2608. (Pubitemid 24428437)
127. H.C.B. Hansen, S. Guldberg, M. Erbs, C. Bender Koch, Kinetics of nitrate reduction by green rusts - effects of interlayer anion and Fe(II):Fe(III) ratio, Appl. Clay Sci. 18 (2001) 81-91.
128. H.C.B. Hansen, C.B. Koch, H. Nancke-Krogh, O.K. Borggaard, J. Sørensen, Abiotic nitrate reduction to ammonium: key role of green rust, Environ. Sci. Technol. 30 (1996) 2053-2056. (Pubitemid 26158594)
129. F. Picardal, Abiotic and microbial interactions during anaerobic transformations of Fe(II) and NO- x, Front. Microbiol. 3 (2012), http://dx.doi.org/10.3389/fmicb. 2012.00112.
130. M.L. Wu, T.A. Alen, E.G. Donselaar, M. Strous, M.S. Jetten, L. Niftrik, Co-localization of particulate methane monooxygenase and cd1 nitrite reductase in the denitrifying methanotroph 'Candidatus Methylomirabilis oxyfera', FEMS Microbiol. Lett. 334 (2012) 49-56.
131. K. Yoshizawa, A. Suzuki, Y. Shiota, T. Yamabe, Conversion of methane to methanol on di-iron and dicopper enzyme models of methane monooxygenase: a theoretical study on a concerted reaction pathway, Bull. Chem. Soc. Jpn. 73 (2000) 815-827. (Pubitemid 30235607)
132. L. Noodleman, W.-G. Han, Structure, redox, pKa, spin. A golden tetrad for understanding metalloenzyme energetics and reaction pathways, J. Biol. Inorg. Chem. 11 (2006) 674-694. (Pubitemid 44100463)
133. W.-G. Han, L. Noodleman, Structural model studies for the high-valent intermediate Q of methane monooxygenase from broken-symmetry density functional calculations, Inorg. Chim. Acta 361 (2008) 973-986.
134. N. Haydon, S.E. McGlynn, O. Robus, Speculation on quantum mechanics and the operation of life giving catalysts, Orig. Life Evol. Biosph. 41 (2011) 35-50.
135. P. Mitchell, Possible molecular mechanisms of the protonmotive function of cytochrome systems, J. Theor. Biol. 62 (1976) 327-367.
136. M.K. Wikström, J.A. Berden, Oxidoreduction of cytochrome b in the presence of antimycin, Biochim. Biophys. Acta 283 (1972) 403-420.
137. W. Buckel, R.K. Thauer, Energy conservation via electron bifurcating ferredoxin reduction and proton/Na+ translocating ferredoxin oxidation, Biochim. Biophys. Acta Bioenerg. 1827 (2012) 94-113.
138. S. Grimaldi, B. Schoepp-Cothenet, P. Cécaldi, B. Guigliarelli, A. Magalon, The prokaryotic Mo/W-bisPGD enzymes family: a catalytic workhorse in bioenergetic, Biochim. Biophys. Acta 1827 (2013) 1048-1085.
139. J. Rabinowitz, A. Hampaï, Quantitative polyphosphate-induced "prebiotic" peptide formation in H2O by addition of certain azoles and ions, J. Mol. Evol. 21 (1985) 199-201.
140. J. Rabinowitz, R. Flores, R. Krebsback, G. Rogers, Peptide formation in the presence of linear or cyclic polyphosphates, Nature 224 (1969) 795-796.
141. L. Leman, L. Orgel, M.R. Ghadiri, Carbonyl sulfide-mediated prebiotic formation of peptides, Science 306 (2004) 283-286. (Pubitemid 39336874)
142. C. Harford, B. Sarkar, Amino terminal Cu(II) and Ni(II) binding ATCUN motif of proteins and peptides, Acc. Chem. Res. 30 (1999) 123-130.
143. N.W.H. Ma, D.A. White, R.B. Martin, Metal ion exchange of square-planar nickel(II) tetraglycine with polydentate amines, Inorg. Chem. 6 (1967) 1632-1636.
144. M.V. Alipázaga, D. Lowinsohn, M. Bertotti, N. Coichev, Sulfite induced autoxidation of Ni(II) and Co(II) tetraglycine complexes. Spectrophotometric and rotating ring-disc voltammetric studies, Dalton Trans. 2004 (2004) 267-272.
145. R.B. Martin, M. Chamberlin, J.T. Edsal, The association of nickel(II) ion with peptides, J. Am. Chem. Soc. 82 (1960) 495-498.
146. A.-K. Duhme, Z. Dauter, R.C. Hider, S. Pohl, Complexation of molybdenum by siderophores: synthesis and structure of the double-helical cisdioxomolybdenum( VI) complex of a bis(catecholamide) siderophore analogue, Inorg. Chem. 35 (1996) 3059-3061. (Pubitemid 126451851)
147. J.R. Telford, K.N. Raymond, Coordination chemistry of the amonabactins, bis(catecholate) siderophores from Aeromonas hydrophila, Inorg. Chem. 37 (1998) 4578-4583. (Pubitemid 128483093)
148. J.S. Martinez, J.N. Carter-Franklin, E.L. Mann, J.D. Martin, M.G. Haygood, A. Butler, Structure and membrane affinity of a suite of amphiphilic siderophores produced by a marine bacterium, Proc. Natl. Acad. Sci. 100 (2003) 3754-3759. (Pubitemid 36418103)
149. T. Wichard, J.-P. Bellenger, F.M.M. Morel, A.M.L. Kraepiel, Role of the siderophore azotobactin in the bacterial acquisition of nitrogenase metal cofactors, Environ. Sci. Technol. 43 (2009) 7218-7224.
150. S.E. Mulholland, B.R. Gibney, F. Rabanal, P. Leslie Dutton, Determination of nonligand amino acids critical to 4Fe-4S2+/+ assembly in ferredoxin maquettes, Biochemistry 38 (1999) 10442-10448.
151. J. Meyer, Iron-sulfur protein folds, iron-sulfur chemistry and evolution, J. Biol. Inorg. Chem. 13 (2008) 157-170.
152. K. Hagen, A. Watson, R. Holm, Synthetic routes to iron-sulphur clusters from the common precursor Fe(SC2H5)42+, J. Am. Chem. Soc. 105 (1983) 3905-3913.
153. P.J. Stephens, D.R. Jollie, A. Warshel, Protein control of redox potentials of iron- sulfur proteins, Chem. Rev. 96 (1996) 2491-2513. (Pubitemid 126641110)
154. A. Dey, F.E. Jenney, M.W.W. Adams, E. Babini, Y. Takahashi, K. Fukuyama, K.O. Hodgson, B. Hedman, E.I. Solomon, Solvent tuning of electrochemical potentials in the active sites of HiPIP versus ferredoxin, Science 318 (2007) 1464-1468. (Pubitemid 350208960)
155. T. Fujii, Y. Hata, T. Wakagi, N. Tanaka, T. Oshima, Novel zinc-binding center in thermoacidophilic archeal ferredoxins, Nat. Struct. Biol. 3 (1996) 834.
156. R.P. Hong Enriquez, T.N. Do, Interactions of iron-sulfur clusters with small peptides: insights into early evolution, Comput. Biol. Chem. 41 (2012) 58-61.
157. M.S. Koay, M.L. Antonkine, W. Gartner, W. Lubitz, Modelling low-potential Fe4S4 clusters in proteins, Chem. Biodivers. 5 (2008) 1571-1587.
158. J.D. Kim, A. Rodriguez-Granillo, D.A. Case, V. Nanda, P.G. Falkowski, Energetic selection of topology in ferredoxins, PLoS Comput. Biol. 8 (4) (2012) e1002463, http://dx.doi.org/10.1371/journal.pcbi.1002463.
159. H. Beinert, R.H.Holm, E.Münck, Iron-sulfur clusters:Nature's modular, multipurpose structures, Science 277 (1997) 653-659. (Pubitemid 27373905)