Acetogenesis in Deep Subseafloor Sediments of The Juan de Fuca Ridge Flank: A Synthesis of Geochemical, Thermodynamic, and Gene-based Evidence

Geomicrobiology Journal

Volumn 27, Issue 2, 2010, Pages 183-211

  Lever, Mark A ^a   Alperin, Marc J ^a   Teske, Andreas ^a   Heuer, Verena B ^b   Schmidt, Frauke ^b   Hinrichs, Kai Uwe ^b   Morono, Yuki ^c   Masui, Noriaki ^c   Inagaki, Fumio ^c  

^a University of North Carolina at Chapel Hill   (United States)

^b UNIVERSITY OF BREMEN   (Germany)

^c JAPAN AGENCY FOR MARINE EARTH SCIENCE AND TECHNOLOGY   (Japan)

Author keywords

Aquatic sediments; Biogeochemical cycling; Community structure; Deep biosphere; Subsurface microbiology

Indexed keywords

ACETATE; BIOGEOCHEMICAL CYCLE; BIOGEOCHEMISTRY; COMMUNITY STRUCTURE; FERMENTATION; MARINE SEDIMENT; ORGANIC MATTER; POREWATER; REDUCTION; SULFATE; THERMODYNAMICS;

JUAN DE FUCA RIDGE; PACIFIC OCEAN;

EID: 77949555357     PISSN: 01490451     EISSN: 15210529     Source Type: Journal    
DOI: 10.1080/01490450903456681     Document Type: Article

References (150)

1. Abrini J, Naveau H, Nyns E-J. 1994. Clostridium autoethanogenum, sp. nov., an anaerobic bacterium that produces ethanol from carbon monoxide. Arch Microbiol 161:345-351.
2. Adamse AD, Velzeboer CTM. 1982. Features of a Clostridium, strain CV-AA1, an obligatory anaerobic bacterium producing acetic acid from methanol. Ant v Leeuwenhoek 48:305-313.
3. Amend JP, Shock EL. 2001. Energetics of overall metabolic reactions of thermophilic and hyperthermophilic archaea and bacteria. FEMS Microbiol Rev 25:175-243.
4. Andreesen JR, Gottschalk G, Schlegel HG. 1970. Clostridium formicoaceticum nov. spec. isolation, description and distinction from C. aceticum and C. thermoaceticum. Arch Microbiol 72:154-174.
5. Bainotti AE, Nishio N. 2000. Growth kinetics of Acetobacterium sp. on methanol-formate in continuous culture. J Appl Microbiol 88:191-201.
6. Bak F, Finster K, Rothfuß F. 1992. Formation of dimethylsulfide and methanethiol from methoxylated aromatic compounds and inorganic sulfide by newly isolated anaerobic bacteria. Arch Microbiol 157:529-534.
7. Balch WE, Schoberth S, Tanner RS, Wolfe RS. 1977. Acetobacterium, a new genus of hydrogen-oxidizing, carbon dioxide-reducing, anaerobic bacteria. Int J Syst Bacteriol 27:355-361.
8. Baliga NS, Bonneau R, Facciotti MT, Pan M, Glusman G, Deutsch EW, Shannon P, Chiu Y, Weng RS, Gan RR, Hung P, Date SV, Marcotte E, Hood L, Ng WV. 2004. Genome sequence of Haloarcula marismortui: a halophilic archaeon from the Dead Sea. Genome Res 14:2221-2234.
9. Balk M, Weijma J, Friedrich MW, Stams AJM. 2003. Methanol utilization by a novel thermophilic homoacetogenic bacterium, Moorella mulderi sp. nov., isolated from a bioreactor. Arch Microbiol 179:315-320.
10. Barik S, Prieto S, Harrison SB, Clausen EC, Gaddy JL. 1988. Biological production of alcohols from coal through indirect liquefaction. Appl Biochem Biotechnol 18:363-378.
11. PAD, O'Hara CM. 1995. Replacement of NCTC 4175, the current type strain of Proteus vulgaris, with ATCC 19905. Request for an opinion. Int J Syst Bacteriol 45:870-871.
12. 2-utilizing acetogen isolated from termites. Arch Microbiol 150:282-288.
13. Campbell LL, Postgate JR. 1965. Classification of the spore-forming sulfatereducing bacteria. Bacteriol Rev 29:359-363.
14. Cerdeno-Tarraga AM, Efstratiou A, Dover LG, Holden MT, Pallen M, Bentley SD, Besra GS, Churcher C, James KD, De Zoysa A, Chillingworth T, Cronin A, Dowd L, Feltwell T, Hamlin N, Holroyd S, Jagels K, Moule S, Quail MA, Rabbinowitsch E, Rutherford KM, Thomson NR, Unwin L, Whitehead S, Barrell BG, Parkhill J. 2003. The complete genome sequence and analysis of Corynebacterium diphtheriae NCTC13129. Nucl Acids Res 31:6516-6523.
15. Chamkha M, Labat M, Patel BKC, Garcia J-L. 2001. Isolation of a cinnamic- acid-metabolizing Clostridium glycolicum strain from oil mill wastewaters and emendation of the species description. Int J Syst Evol Microbiol 51:2049-2054.
16. Chan EC, Siboo R, Keng T, Psarra N, Hurley R, Cheng SL, Iugovaz I. 1993. Treponema denticola (ex Brumpt 1925) sp. nov., nom. rev., and identification of new spirochete isolates from periodontal pockets. Int J Syst Bacteriol 43:196-203.
17. Chang IS, Kim DH, Kim BH, Shin PK, Sung HC, Lovitt RW. 1998. CO fermentation of Eubacterium limosum KIST612. J Microbiol Biotech 8:134- 140.
18. 2 utilization by a ruminal acetogenic bacterium cultivated alone or in association with an Archaea methanogen is stimulated by a probiotic strain of Saccharomyces cerevisiae. Appl Environ Microbiol 61:3466-3467.
19. Choudhary M, Zanhua X, Fu YX, Kaplan S. 2007. Genome analyses of three strains of Rhodobacter sphaeroides: evidence of rapid evolution of chromosome II. J Bacteriol 189:1914-1921.
20. Conrad R, Bak F, Seitz HJ, Thebrath B, Mayer HP, Schütz H. 1989. Hydrogen turnover by psychrotrophic homoacetogenic and mesophilic methanogenic bacteria in anoxic paddy soil and lake sediment. FEMS Microbiol Ecol 62:285-294.
21. Davydova-Charakhch'yan IA, Mileeva AN, Mityushina LL, Belyaev SS. 1992. Acetogenic bacteria from oil fields Tataria and western Siberia. Microbiology 61:306-315.
22. Dehning I, Stieb M, Schink B. 1989. Sporomusa malonica sp. nov., a homoacetogenic bacterium growing by decarboxylation of alonate or succinate. Arch Microbiol 151:421-426.
23. Dörner C, Schink B.1991.Fermentationofmandelatetobenzoateandacetate by a homoacetogenic bacterium. Arch Microbiol 156:302-306.
24. Drake HL, Daniel SL. 2004. Physiology of the thermophilic acetogen Moorella thermoacetica. Res Microbiology 155:422-436.
25. Eichler B, Schink B. 1984. Oxidation of primary aliphatic alcohols by Acetobacterium carbinolicum sp. nov., a homoacetogenic anaerobe. Arch Microbiol 140:147-152.
26. Emde R, Schink B. 1987. Fermentation of triacetin and glycerol by Acetobacterium sp.: no energy is conserved by acetate excretion. Arch Microbiol 157:1-19.
27. Fontaine FE, Peterson WH, McCoy E, Johnson MJ, Ritter GJ. 1942. A new type of glucose fermentation by Clostridium thermoaceticum n. sp. J Bacteriol 43:701-705.
28. Frazer AC, Young LY. 1985. A Gram-negative anaerobic bacterium that utilizes O-methyl substituents of aromatic acids. Appl Environ Microbiol 49:1345-1347.
29. Frings J, Schink B. 1994. Fermentation of phenoxyethyanol to phenol and acetate by a homoacetogenic bacterium. Arch Microbiol 162:199-204.
30. Frings J, Wondrak C, Schink.1994.Fermentativedegradationoftriethanolamine by a homoacetogenic bacterium. Arch Microbiol 162:103-107.
31. Geerligs G, Aldrich HC, Harder W, Diekert G. 1987. Isolation and characterization of a carbon monoxide utilizing strain of the acetogen Peptostreptococcus productus. Arch Microbiol 148:305-313.
32. Giovannoni SJ, Tripp HJ, Givan S, Podar M, Vergin KL, Baptista D, Bibbs L, Eads J, Richardson TH, Noordewier M, Rappé MS, Short JM, Carrington JC, Mathur EJ. 2005. Genome streamlining in a cosmopolitan oceanic bacterium. Science 309:1242-1245.
33. GößnerA,DanielSL,DrakeHL.1994.Acetogenesiscoupledtotheoxidation of aromatic aldehyde groups. Arch Microbiol 161:126-131.
34. Gonzalez JM, Kiene RP, Moran MA. 1999. Transformation of sulfur compounds by an abundant lineage of marine bacteria in the alpha-subclass of the class Proteobacteria. Appl Environ Microbiol 65:3810-3819.
35. Gonzalez JM, Covert JS, Whitman WB, Henriksen JR, Mayer F, Scharf B, Schmitt R, Buchan A, Fuhrman JA, Kiene RP, Moran MA. 2003. Silicibacter pomeroyi sp. nov. and Roseovarius nubinhibens sp. nov., dimethylsulfoniopropionate-demethylating bacteria from marine environments. Int J Syst Evol Microbiol 53:1261-1269.
36. Graber JR, Leadbetter JR, Breznak JA. 2004. Description of Treponema azotonutricium sp. nov. and Treponema primitia sp. nov., the first spirochetes isolated from termite guts. Appl Environ Microbiol 70:1315-1320.
37. Greenberg DE, Porcella SF, Stock F, Wong A, Conville PS, Murray PR, Holland SM, Zelazny AM. 2006. Granulibacter bethesdensis gen. nov., sp. nov., a distinctive pathogenic acetic acid bacterium in the family Acetobacteraceae. Int J Syst Evol Microbiol 56:2609-2616.
38. Greening RC, Leedle JAZ. 1989. Enrichment and isolation of Acetitomaculum ruminis, gen. nov., sp. Nov.: acetogenic bacteria from the bovine rumen. Arch Microbiol 151:399-406.
39. Gupta P, Chaturvedi P, Pradhan S, Delille D, Shivaji S. 2006. Marinomonas polaris sp. nov., a psychrohalotolerant strain isolated from coastal sea water off the subantarctic Kerguelen islands. Int J Syst Evol Microbiol 56:361-364.
40. Hanselmann KW, Kaiser JP, Wenk M, Schön R, Bachofen R. 1995. Growth on methanol and conversion of methoxylated aromatic substrates by Desulfotomaculum orientis in the presence and absence of sulfate. Microbiol Res 150:387-401.
41. Hanson JR, Ackerman CE, Scow KM.1999.Biodegradationofmethyl-tert-butyl ether by a bacterial pure culture. Appl Environ Microbiol 65:4788-4792.
42. Hattori S, Kamagata Y, Hanada S, Shoun H. 2000. Thermoacetogenium phaeum gen. nov., sp. nov., a strictly anaerobic, thermophilic, syntrophic acetate-oxidizing bacterium. Int J Syst Evol Microbiol 50:1601-1609.
43. Hayward HR, Stadtman TC. 1959. Anaerobic degradation of choline. I. Fermentation of choline by an anaerobic, cytochrome-producing bacterium, Vibrio cholinicus n. sp. J Bacteriol 78:557-561.
44. Henstra AM, Dijkema C, Stams AJM. 2007. Archaeoglobus fulgidus couples CO oxidation to sulfate reduction and acetogenesis with transient formate accumulation. Environ Microbiol 9:1836-1841.
45. Hermann M, Popoff M-R, Sebald M. 1987. Sporomusa paucivorans sp. nov., a methylotrophic bacterium that forms acetic acid from hydrogen and carbon dioxide. Int J Syst Bacteriol 37:93-101.
46. Holmes B, Owen RJ, Evans A, Malnick H, Willcox WR. 1977. Pseudomonas paucimobilis, a new species isolated from human clinical specimens, the hospital environment, and other sources. Int J Syst Bacteriol 27:133-146.
47. Hori T, Haruta S, Ueno Y, Ishii M, Igarashi Y. Expression profiling of bacterial FTHFS genes reveals physiological peculiarity of acetogenic bacteria in a thermophilic methanogenic bioreactor, unpubl.
48. Imhoff JF, Truper HG, Pfennig N. 1984. Rearrangement of the species and genera of the phototrophic'purple nonsulfur bacteria'. Int J Syst Bacteriol 34:340-343.
49. Inoue K, Kageyama S, Miki K, Morinaga T, Kamagata Y, Nakamura K, Mikami E. 1992. Vitamin B12 production by Acetobacterium sp. and its tetrachloromethane-resistant mutants. J Ferment Bioengin 73:76-78.
50. Ivanova EP, Onyshchenko OM, Christen R, Lysenko AM, Zhukova NV, Shevchenko LS, Kiprianova EA. 2005. Marinomonas pontica sp.nov., isolated from the Black Sea. Int J Syst Evol Microbiol 55:275-279.
51. Jackman PJH, Pitcher DG, Pelczynska S, Borman S. 1987. Classification of corynebacteria associated with endocarditis (group JK. as Corynebacterium jeikeium sp. nov. Syst Appl Microbiol 9:83-90.
52. Jansen K, Thauer RK, Widdel F, Fuchs G. 1984. Carbon assimilation pathways in sulfate reducing bacteria. Formate, carbon dioxide, carbon monoxide, and acetate assimilation by Desulfovibrio baarsii. Arch Microbiol 138:257-262.
53. Jarvis BDW, Pankhurst CE, Patel JJ. 1982. Rhizobium loti, a new species of legume root nodule bacteria. Int J Syst Bacteriol 32:378-380.
54. Kaiser J-P, Hanselmann KW. 1982. Fermentative metabolism of substituted monoaromatic compounds by a bacterial community from anaerobic sediments. Arch Microbiol 133:185-194.
55. Kamlage B, Gruhl B, Blaut M. 1997. Isolation and characterization of two new homoacetogenic hydrogen-utilizing bacteria from the human intestinal tract that are closely related to Clostridium coccoides. Appl Environ Microbiol 63:1732-1738.
56. 2 acetogenic bacterium from the termite, Pterotermes occidentis. Arch Microbiol 156:91-98.
57. 2 acetogenic bacterium from the gut of the African soil-feeding termite, Cubitermes speciosus. Arch Microbiol 156:99-104.
58. Kane SR, Chakicherla AY, Chain PS, Schmidt R, Shin MW, Legler TC, Scow KM, Larimer FW, Lucas SM, Richardson PM, Hristova KR. 2007. Whole-genome analysis of methyl tert-butyl ether. MTBE)-degrading Beta-Proteobacterium Methylibium petroleiphilum PM1. J Bacteriol 189:1931-1945.
59. Kaneko T, Nakamura Y, Sato S, Asamizu E, Kato T, Sasamoto S, Watanabe A, Idesawa K, Ishikawa A, Kawashima K, Kimura T, Kishida Y, Kiyokawa C, Kohara M, Matsumoto M, Matsuno A, Mochizuki Y, Nakayama S, Nakazaki N, Shimpo S, Sugimoto M, Takeuchi C, Yamada M, Tabata S. 2000. Complete genome structure of the nitrogen-fixing symbiotic bacterium Mesorhizobium loti. DNA Res 7:331-338.
60. Kaneuchi C, Benno Y, Mitsuoka T. 1976. Clostridium coccoides, a new specides from the feces of mice. Int J Syst Bacteriol 26:482-486.
61. 2 or CO as energy source. Curr Microbiol 8:27-30.
62. Klemps R, Cypionka H, Widdel F, Pfennig N. 1985. Growth with hydrogen, and further physiological characteristics of Desulfotomaculum sp. Arch Microbiol 143:203-208.
63. Kotsyurbenko OR, Simankova MV, Nozhevnikova AN, Zhilina TN, Bolotina NP, Lysenko AM, Osipov GA. 1995. New species of psychrophilic acetogens: Acetobacterium bakii sp. Nov., A. paludosum sp. Nov., A. fimetarium sp. nov. Arch Microbiol 163:29-34.
64. Kotsyurbenko OR, Nozhevnikova AN, Soloviova TI, Zavarin GA. 1996. Methanogenesis at low temperatures by microflora of tundra wetland soil. Ant v Leeuwenhoek 69:75-86.
65. Kreft JU, Schink B. 1993. Demethylation and degradation of phenylmethylesthers by the sulfide-methylating homoacetogenic bacterium strain TMBS-4. Arch Microbiol 159:308-315.
66. Krumholz LR, Bryant MP. 1985. Clostridium pfennigii sp. nov. uses methoxyl groups of monobenzenoids and produces butyrate. Int J Syst Bacteriol 35:454-456.
67. 2-utilizing bacteria, Desulfomicrobium hypogeium sp. nov. and Acetobacterium psammolithicum sp. nov., and their ecological roles. Appl Environ Microbiol 65:2300-2306.
68. Kuever J, Kulmer J, Jannsen S, Fischer U, Blotevogel K-H. 1993. Isolation and characterization of a new spore-forming sulfate-reducing bacterium growing by complete oxidation of catechol. Arch Microbiol 259:282-288.
69. Kuever J, Rainey FA, Hippe H.1999.DescriptionofDesulfotomaculumsp.Groll as Desulfotomaculum gibsoniae sp. nov. Int J Syst Bacteriol 49:1801-1818.
70. Kuhner CH, Frank C, Grießhammer A, Schmittroth M, Acker G, Gößner AS, Drake HL. 2000. Sporomusa silvacetica sp. nov., an acetogenic bacterium isolated from aggregated forest soil. Int J Syst Bacteriol 47:352-358.
71. Küsel K, Dorsch T, Acker G, Stackebrandt E, Drake HL. 2000. Clostridium scatologenes strain SL1 isolated as an acetogenic bacterium from acidic sediments. Int J Syst Evol Microbiol 50:537-546.
72. Küsel K, Karnholz A, Trinkwalter T, Devereux R, Acker G, Drake HL.2001. Physiological ecology of Clostridium glycolicum RD-1, an aerotolerant acetogen isolated from sea grass roots. Appl Environ Micriobiol 67:4734-4741.
73. Labrenz M, Tindall BJ, Lawson PA, Collins MD, Schumann P, Hirsch P. 2000. Staleya guttiformis gen. nov., sp. nov. and Sulfitobacter brevis sp. nov., alpha3-Proteobacteria from hypersaline, heliothermal and meromictic Antarctic Ekho Lake. Int J Syst Evol Microbiol 50:303-313.
74. 2 metabolism in acetogenic bacteria isolated from the human colon. Anaerobe 3:307- 315.
75. Leclerc M, Bernalier A, Lelait M, Grivet J-P. 1997b. 13C-NMR study of glucose and pyruvate catabolism in four acetogenic species isolated from the human colon. FEMS Microbiol Lett 146:199-204.
76. 2.Appl Environ Microbiol 54:124-129.
77. Leigh JA, Mayer F, Wolfe RS. 1981. Acetogenium kivui, a new thermophilic hydrogen-oxidizing, acetogenic bacterium. Arch Microbiol 129:275-280.
78. Liesack W, Bak F, Kreft J-U, Stackebrandt E. 1994. Holophaga foetida gen. nov., sp. nov., a new, homoacetogenic bacterium degrading methoxylated aromatic compounds. Arch Microbiol 162:85-90.
79. 2-dependent anaerobic O-demethylation activity in sub surface sediments and by anisolated bacterium.Appl Environ Microbiol 59:1325-1331.
80. Lorowitz WH, Bryant MP. 1984. Peptostreptococcus productus strain that grows rapidly with CO as the energy source. Appl Environ Microbiol 47:961-964.
81. Loubinoux J, Valente FMA, Pereira IAC, Costa A, Grimont PAD, Le Faou AE. 2002. Reclassification of the only species of the genus Desulfomonas, Desul-fomonas pigra, as Desulfovibrio piger comb. nov. Int J Syst Evol Microbiol 52:1305-1308.
82. Lux MF, Drake HL. 1992. Re-examination of the metabolic potentials of the acetogens Clostridium aceticum and Clostridium formicoaceticum: chemolithoautotrophic and aromatic-dependent growth. FEMS Microbiol Lett 95:49-56.
83. Lux MF, Keith E, Hsu T, Drake HL. 1990. Biotransformations of aromatic aldehydes by acetogenic bacteria. FEMS Microbiol Lett 67:73-78.
84. Macian MC, Arahal DR, Garay E, Pujalte MJ. 2005. Marinomonas aquamarina sp. nov., isolated from oysters and seawater. Syst Appl Microbiol 28:145-150.
85. Mechichi T, Labat M, Woo THS, Thomas P, Garcia J-L, Patel BKC. 1998. Eubacterium aggregans sp. nov., a new homoacetogenic bacterium from olive mill wastewater treatment digestor. Anaerobe 4:283-291.
86. Mechichi T, Labat M, Woo THS, Thomas P, Garcia J-L, Patel BKC. 1999. Clostridium methoxybenzovorans sp. nov., a new aromatic O-demethylating homoacetogen from an olive mill wastewater treatment digester. Int J Syst Bacteriol 49:1201-1209.
87. Mechichi T, Patel BKC, Sayadi S. 2005. Anaerobic degradation of methoxylated aromatic compounds by Clostridium methoxybenzovorans and a nitrate- reducingbacteriumThauerasp.strainCin3,4. IntBiodeterBiodegrad 56:224-230.
88. Miller TL, Wolin MJ. 1995. Bioconversion of cellulose to acetate with pure culturesofRuminococcusalbusandahydrogen-usingacetogen. ApplEnviron Microbiol 61:3832-3835.
89. 2 and aromatic acrylate groups as competing electron acceptors. Microbiol 142:1983-1988.
90. Möller B, Ossmer R, Howard BH, Gottschalk G, Hippe H. 1984. Sporomusa, a new genus of Gram-negative anaerobic bacteria including Sporomusa sphaeroides spec. nov. and Sporomusa ovata spec. nov. Arch Microbiol 139:388-396.
91. Moore WEC, Johnson JL, Holdeman LV. 1976. Emendation of Bacteroidaceae and Butyrivibrio and descriptions of Desulfomonas gen. nov. and ten new species in the genera Desulfomonas, Butyrivibrio, Eubacterium, Clostridium, and Ruminococcus. Int J Syst Bacteriol 26: 238-252.
92. Nishikawa S, Sonoki T, Kasahara T, Obi T, Kubota S, Kawai, S, Morohoshi N, Katayama Y. 1998. Cloning and sequencing of the Sphingomonas (Pseudomonas) paucimobilis gene essential for the O demethylation of vanillate and syringate. Appl Environ Microbiol 64:836-842.
93. Nozhevnikova AN, Kotsyurbenko OR, Simankova MV. 1994. Acetogenesis at low temperature. In: HL Drake. Ed. Acetogenesis. Chapman and Hall. New York. P416-431.
94. Ohwaki K, Hungate RE. 1977. Hydrogen utilization by clostridia in sewage sludge. Appl Environ Microbiol 33:1270-1274.
95. Ollivier B, Cord-Ruwisch R, Lombardo A, Garcia J-L. 1985. Isolation and characterization of Sporomusa acidovorans sp. nov., a methylotrophic homoacetogenic bacterium. Arch Microbiol 142:307-310.
96. Oren A, Ginzburg M, Ginzburg BZ, Hochstein LI, Volcani BE.1990.Haloarcula marismortui. Volcani. sp. nov., nom. rev., an extremely halophilic bacterium from the Dead Sea. Int J Syst Bacteriol 40:209-210.
97. Paarup M, Friedrich MW, Tindall BJ, Finster K. 2006. Characterization of the psychrotolerant acetogen strain SyrA5 and the emended description of the species Acetobacterium carbinolicum. Ant v Leeuwenhoek 89:55-69.
98. Pinhassi J, Pujalte MJ, Macian MC, Lekunberri I, Gonzalez JM, Pedros-Alio C, Arahal DR. 2007. Reinekea blandensis sp nov., a marine, genome-sequenced gammaproteobacterium. Int J Syst Evol Microbiol 57:2370-2375.
99. Prabagaran SR, Suresh K, Manorama R, Delille D, Shivaji S. 2005. Marinomonas ushuaiensis sp. nov., isolated from coastal sea water in Ushuaia, Argentina, sub-Antarctica. Int J Syst Evol Microbiol 55:309-313.
100. Pukall R, Buntefuss D, Fruhling A, Rohde M, Kroppenstedt RM, Burghardt J, Lebaron P, Bernard L, Stackebrandt E. 1999. Sulfitobacter mediterraneus sp. nov., a new sulfite-oxidizing member of the alpha-Proteobacteria. Int J Syst Bacteriol 49:513-519.
101. Rieu-Lesme F, Donry F, Doré J. 1995. Isolation and characterization of a new hydrogen-utilizing bacterium from the rumen. FEMS Microbiol Lett 125:77- 82.
102. Rieu-Lesme F, Dauga C, Morvan B, Bouvet OMM, Grimont PAD, Doré J. 1996a. Acetogenic coccoid spore-forming bacteria isolated from the rumen. Res Microbiol 147:753-764.
103. 2-using acetogenic bacterium from the rumen: description of Ruminococcus schinkii sp. nov. FEMS Microbiol Lett 140:281-286.
104. Rieu-Lesme F, Dauga C, Fonty G, Doré J. 1998. Isolation from the rumen of a new acetogenic bacterium phylogenetically closely related to Clostridium difficile. Anaerobe 4:89-94.
105. Romanenko LA, Uchino M, Mikhailov VV, Zhukova NV, Uchimura T. 2003. Marinomonas primoryensis sp. nov., a novel psychrophile isolated from coastal sea-ice in the Sea of Japan. Int J Syst Evol Microbiol 53:829-832.
106. Romanenko LA, Schumann P, Rohde M, Mikhailov VV, Stackebrandt E. 2004. Reinekea marinisedimentorum gen. nov., sp. nov., a novel gammaproteobacterium from marine coastal sediments. Int J Syst Evol Microbiol 54:669-673.
107. Rosencrantz D, Rainey FA, Janssen PH. 1999. Culturable populations of Sporomusa spp. and Desulfovibrio spp. in the anoxic bulk soil of flooded rice microcosms. Appl Environ Microbiol 65:3526-3533.
108. Rother M, Metcalf WW. 2004. Anaerobic growth of Methanosarcina acetivorans C2A on carbon monoxide: an unusual way of life for a methanogenic archaeon. Proc Natl Acad Sci USA 101:16929-16934.
109. Ruepp A, Graml W, Santos-Martinez ML, Koretke KK, Volker C, Mewes HW, Frishman D, Stocker S, Lupas AN, Baumeister W. 2000. The genome sequence of the thermoacidophilic scavenger Thermoplasma acidophilum. Nature 407:508-513.
110. Rustigian R, Stuart CA. 1943. Taxonomic relationships in the genus Proteus. Proc Soc Exp Biol Med 53:241-243.
111. Sass H, Overmann J, Rutters H, Babenzien HD, Cypionka H. 2004. Desulfosporomusa polytropa gen. nov., a novel sulfate-reducing bacterium from sediments of an oligotrophic lake. Arch Microbiol 182:204-211.
112. Sattley WM, Madigan MT. 2007. Cold-active acetogenic bacteria from surficial sediments of perennially ice-covered Lake Fryxell, Antarctica. FEMS Microbiol Lett 272:48-54.
113. Schink B, Thiemann V, Laue H, Friedrich MW. 2002. Desulfotignum phosphitoxidans sp. nov., a new marine sulfate reducer that oxidizes phosphite to phosphate. Arch Microbiol 177:381-391.
114. Schnürer A, Schink B, Svensson BH. 1996. Clostridum ultunense sp. nov., a mesophilic bacterium oxidizing acetate in syntrophic association with a hydrogenotrophic methanogenic bacterium. Int J Syst Bacteriol 46:1145-1152.
115. Schramm E, Schink B. 1991. Ether-cleaving enzyme and diol dehydratase involved in anaerobic polyethylene glycol degradation by a new Acetobacterium sp. Biodegradation 2:71-79.
116. Schuppert B, Schink B. 1990. Fermentation of methoxyacetate to glycolate and acetate by newly isolated strains of Acetobacterium sp. Arch Microbiol 153:200-204.
117. Sembiring T, Winter J. 1989. Anaerobic degradation of O-phenylphenol by mixed and pure cultures. Appl Microbiol Biotechnology 31:89-92.
118. Sembiring T, Winter J. 1990. Demethylation of aromatic compounds by strain B10 and complete degradation of 3-methoxybenzoate in co-culture with Desulfosarcina strains. Appl Microbiol Biotechnol 33:233-238.
119. Seshadri R, Myers GS, Tettelin H, Eisen JA, Heidelberg JF, Dodson RJ, David-Sen TM, DeBoy RT, Fouts DE, Haft DH, Selengut J, Ren Q, Brinkac LM, Madupu R, Kolonay J, Durkin SA, Daugherty SC, Shetty J, Shvartsbeyn A, Gebregeorgis E, Geer K, Tsegaye G, Malek J, Ayodeji B, Shatsman S, McLeod MP, Smajs D, Howell JK, Pal S, Amin A, Vashisth P, McNeill TZ, Xiang Q, Sodergren E, Baca E, Weinstock GM, Norris SJ, Fraser CM, Paulsen IT. 2004. Comparison of the genome of the oral pathogen Treponema denticola with other spirochete genomes. Proc Natl Acad Sci USA 101:5646-5651.
120. 2- utilizing species. Appl Environ Microbiol 42:12-19.
121. Shock EL, Helgeson HC. 1990. Calculation of the thermodynamic and transport properties of aqueous species at high pressures and temperatures: standard partial molal properties of organic species. Geochim Cosmochim Acta 54:915-945.
122. Shock EL. 1995. Organic acids in hydrothermal solutions: standard molal thermodynamic properties of carboxylic acids, and estimates of dissociation constants at high termperatures and pressures. Am J Sci 295:496-580.
123. Shock EL, Sassani DC, Willis M, Sverjensky DA. 1997. Inorganic species in geologic fluids: correlations among standard molal thermodynamic properties of aqueous ions and hydroxide complexes. Geochim Cosmochim Acta 61:907-950.
124. Simankova MV, Kotsyurbenko OR, Stackebrandt E, Kostrikina NA, Lysenko AM, Osipov GA and Nozhevnikova AN. 2000. Acetobacterium tundrae sp. nov., a new psychrophilic acetogenic bacterium from tundra soil. Arch Microbiol 174:440-447.
125. 2. Int J Sys Bacteriol 35:10-15.
126. Slobodkin A, Reysenbach AL, Mayer F, Wiegel J. 1997. Isolation and characterization of the homoacetogenic thermophilic bacterium Moorella glycerini sp. nov. Int J Syst Bacteriol 47:969-974.
127. Solano F, Sanchez-Amat A. 1999. Studies on the phylogenetic relationships of melanogenic marine bacteria: proposal of Marinomonas mediterranea sp. nov. Int J Syst Bacteriol 49:1241-1246.
128. Sorokin DY. 1995. Sulfitobacter pontiacus gen. nov., sp. nov. - a new het- erotrophic bacterium from the Black Sea, specialized on sulfite oxidation. Mikrobiologiya 64:354-365.
129. Stackebrandt E, Sproer C, Rainey FA, Burghardt J, Pauker O, Hippe H. 1997. Phylogenetic analysis of the genus Desulfotomaculum: evidence for the mis- classification of Desulfotomaculum guttoideum and description of Desulfotomaculum orientis as Desulfosporosinus orientis gen., comb. nov. Int J Syst Bacteriol 47:1134-1139.
130. Tanaka K, Pfennig N. 1988. Fermentation of 2-methoxyethanol by Acetobacterium malicum sp. nov. and Pelobacter venetianus. Arch Microbiol 149:181- 187.
131. Tanner RS, Miller LM, Yang D. 1993. Clostridium ljungdahlii sp. nov., and acetogenic species in clostridial rRNA homology group I. Int J Syst Bacteriol 43:232-236.
132. Tasaki M, Kamagata Y, Nakamura K, Mikami E. 1992. Utilization of methoxylated benzoates and formation of intermediates by Desulfotomaculum thermobenzoicum in the presence or absence of sulfate. Arch Microbiol 157:209-212.
133. Tebo BM, Obraztsova A. 1998. Sulfate-reducing bacterium grows with Cr(VI), U(VI), Mn(IV), and Fe(III. as electron acceptors. FEMS Microbiol Lett 162:193-198.
134. Toffin L, Webster G, Weightman AJ, Fry JC, Prieur D. 2004. Molecular monitoring of culturable bacteria from deep-sea sediment of the Nankai Trough, Leg 190 Ocean Drilling Program. FEMS Microbiol Ecol 48:357-367.
135. Traunecker J, Preußand A, Diekert G. 1991. Isolation and characterization of a methyl chloride utilizing, strictly anaerobic bacterium. Arch Microbiol 156:416-421.
136. Tschech A, Pfennig N. 1984. Growth yield increase linked to caffeate reduction in Acetobacterium woodii. Arch Microbiol 137:163-167.
137. Vorholt JA, Marx CJ, Lidstrom ME, Thauer RK. 2000. Novel formaldehydeactivating enzyme in Methylobacterium extorquens AM1 required for growth on methanol. J Bacteriol 182:6645-6650.
138. Wagener S, Schink B. 1988. Fermentative degradation of nonionic surfactants and polyethylene glycol by enrichment cultures and by pure cultures of homoacetogenic and propionate-forming bacteria. Appl Environ Microbiol 54:561-565.
139. Wagman DD, Evans WH, Parker VB, Schumm RH, Halow I, Bailey SM, Churney KL, Nuttall RL. 1968. The NBS Tables of Chemical Thermodynamic Properties-Selected Values for Inorganic and C1 and C2 Organic Substances in SI Units. J Phys Chem Ref Data 11, supplement no. 2.
140. Weinberg M, Ginsbourg B. 1927. Données recentes sur les microbes anaerobies et leur role en pathologie. Masson, Paris).
141. Wiegel J, Braun M, Gottschalk G. 1981. Clostridium thermoautotrophicum species novum, a thermophile producing acetate from molecular hydrogen and carbon dioxide. Curr Micriobiol 5:255-260.
142. Wieringa KT. 1936. Over het verdwijnen van waterstof en koolzuur onder anaerobe voorwaarden. Ant v. Leeuwenhoek 3:263-273.
143. Wieringa KT. 1940. The formation of acetic acid from carbon dioxide and hydrogen by anaerobic spore-forming bacteria. Ant v Leeuwenhoek 6:251-262.
144. 2 to acetic acid. Appl Environ Microbiol 59:3551-3556.
145. 2 in the Human Colonic Ecosystem in Acetogenesis, Drake HL ed. Chapman and Hall, New York. P365-385.
146. Yoon J-H, Kang S-J, Oh T-K. 2005. Marinomonas dokdonensis sp. nov., isolated from sea water. Int J Syst Evol Microbiol 55:2303-2307.
147. Zeikus JG, Lynd LH, Thompson TE, Krzycki JA, Weimer PJ, Hegge PW. 1980. Isolation and characterization of a new, methylotrophic, acidogenic anaerobe, the Marburg strain. Curr Microbiol 3:381-386.
148. Zhao Y, Boone DR, Mah RA, Boone JE, Xun L. 1989. Isolation and characterization of Methanocorpusculum labreanum sp. nov. from the LaBrea Tar Pits. Int J Syst Bacteriol 39:10-13.
149. Zhilina TN, Zavarzin GA. 1990. Extremely halophilic, methylotrophic, anaerobic bacteria. FEMS Microbiol Rev 87:315-322.
150. Zinder SH, Koch M. 1984. Non-aceticlastic methanogenesis from acetate: acetate oxidation by a thermophilic syntrophic coculture. Arch Microbiol 138:263-272.