Syntrophic acetate oxidation under thermophilic methanogenic condition in Chinese paddy field soil

FEMS Microbiology Ecology

Volumn 77, Issue 2, 2011, Pages 264-273

  Rui, Junpeng ^a   Qiu, Qiongfen ^a   Lu, Yahai ^a  

^a CHINA AGRICULTURAL UNIVERSITY   (China)

Author keywords

Methanogenesis; Rice soil; Stable isotope probing; Syntrophic acetate oxidation

Indexed keywords

ACETIC ACID DERIVATIVE; ARCHAEAL DNA; BACTERIAL DNA; CARBON; METHANE; RNA 16S;

ACETATE; ANOXIC CONDITIONS; BIODEGRADATION; CARBON DIOXIDE; CARBON ISOTOPE; COMPARATIVE STUDY; DOMINANCE; ISOTOPIC ANALYSIS; METHANOGENESIS; METHANOGENIC BACTERIUM; MICROBIAL ACTIVITY; MICROBIAL COMMUNITY; OXIDATION; PADDY FIELD; SOIL MICROORGANISM; STABLE ISOTOPE;

ARTICLE; BACTERIUM; CHEMISTRY; COMPARATIVE STUDY; DNA FINGERPRINTING; EURYARCHAEOTA; GENETICS; METABOLISM; MICROBIOLOGY; OXIDATION REDUCTION REACTION; PHYLOGENY; RESTRICTION FRAGMENT LENGTH POLYMORPHISM; RICE; SOIL; TEMPERATURE;

ACETATES; BACTERIA; CARBON ISOTOPES; DNA FINGERPRINTING; DNA, ARCHAEAL; DNA, BACTERIAL; EURYARCHAEOTA; METHANE; ORYZA SATIVA; OXIDATION-REDUCTION; PHYLOGENY; POLYMORPHISM, RESTRICTION FRAGMENT LENGTH; RNA, RIBOSOMAL, 16S; SOIL; SOIL MICROBIOLOGY; TEMPERATURE;

CHINA;

ARCHAEA; METHANOSARCINACEAE; THERMACETOGENIUM;

EID: 79960167085     PISSN: 01686496     EISSN: 15746941     Source Type: Journal    
DOI: 10.1111/j.1574-6941.2011.01104.x     Document Type: Article

References (41)

1. Balk M, Weijma J & Stams AJM (2002) Thermotoga lettingae sp. nov., a novel thermophilic, methanol-degrading bacterium isolated from a thermophilic anaerobic reactor. Int J Syst Evol Micr 52: 1361-1368.
2. Barker HA (1936) On the biochemistry of methane fermentation. Arch Microbiol 7: 404-419.
3. Chin KJ, Lueders T, Friedrich MW, Klose M & Conrad R (2004) Archaeal community structure and pathway of methane formation on rice roots. Microb Ecol 47: 59-67.
4. Conrad R (1999) Contribution of hydrogen to methane production and control of hydrogen concentrations in methanogenic soils and sediments. FEMS Microbiol Ecol 28: 193-202.
5. Conrad R & Klose M (1999) Anaerobic conversion of carbon dioxide to methane, acetate and propionate on washed rice roots. FEMS Microbiol Ecol 30: 147-155.
6. Conrad R, Klose M & Claus P (2000) Phosphate inhibits acetotrophic methanogenesis on rice roots. Appl Environ Microb 66: 828-831.
7. 13C-stable isotope fractionation. Chemosphere 47: 797-806.
8. Fey A & Conrad R (2000) Effect of temperature on carbon and electron flow and on the archaeal community in methanogenic rice field soil. Appl Environ Microb 66: 4790-4797.
9. Glissmann K & Conrad R (2000) Fermentation pattern of methanogenic degradation of rice straw in anoxic paddy soil. FEMS Microbiol Ecol 31: 117-126.
10. Hattori S, Kamagata Y, Hanada S & Shoun H (2000) Thermacetogenium phaeum gen. nov., sp. nov., a strictly anaerobic, thermophilic, syntrophic acetate-oxidizing bacterium. Int J Syst Evol Micr 50: 1601-1609.
11. Hattori S, Galushko AS, Kamagata Y & Schink B (2005) Operation of the CO dehydrogenase/acetyl coenzyme A pathway in both acetate oxidation and acetate formation by the syntrophically acetate-oxidizing bacterium Thermacetogenium phaeum. J Bacteriol 187: 3471-3476.
12. Karakashev D, Batstone DJ, Trably E & Angelidaki I (2006) Acetate oxidation is the dominant methanogenic pathway from acetate in the absence of Methanosaetaceae. Appl Environ Microb 72: 5138-5141.
13. Lee MJ & Zinder SH (1988a) Carbon monoxide pathway enzyme activities in a thermophilic anaerobic bacterium grown acetogenically and in a syntrophic acetate-oxidizing coculture. Arch Microbiol 150: 513-518.
14. 2. Appl Environ Microb 54: 124-129.
15. 2-dependent methanogenesis on washed rice roots. Environ Microbiol 1: 159-166.
16. Leps J & Smilauer P (2003) Multivariate Analysis of Ecological Data Using CANOCO. Cambridge University Press, Cambridge.
17. Liu F & Conrad R (2010) Thermoanaerobacteriaceae oxidize acetate in methanogenic rice field soil at 50°C. Environ Microbiol 12: 2341-2354.
18. Lu Y, Lueders T, Michael W, Friedrich MW & Conrad R (2005) Detecting active methanogenic populations on rice roots sing stable isotope probing. Environ Microbiol 7: 326-336.
19. Lu Y, Rosencrantz D, Liesack W & Conrad R (2006) Structure and activity of bacterial community inhabiting rice roots and the rhizosphere. Environ Microbiol 8: 1351-1360.
20. Ludwig W, Strunk O, Westram R et al. (2004) ARB: a software environment for sequence data. Nucleic Acids Res 32: 1363-1371.
21. Lueders T & Friedrich MW (2000) Archaeal population dynamics during sequential reduction processes in rice field soil. Appl Environ Microb 66: 2732-2742.
22. Lueders T, Manefield M & Friedrich MW (2004) Enhanced sensitivity of DNA- and rRNA-based stable isotope probing by fractionation and quantitative analysis of isopycnic centrifugation gradients. Environ Microbiol 6: 73-78.
23. Noll M, Klose M & Conrad R (2010) Effect of temperature change on the composition of the bacterial and archaeal community potentially involved in the turnover of acetate and propionate in methanogenic rice field soil. FEMS Microbiol Ecol 73: 215-225.
24. Nüsslein B, Chin KJ, Eckert W & Conrad R (2001) Evidence for anaerobic syntrophic acetate oxidation during methane production in the profundal sediment of subtropical Lake Kinneret (Israel). Environ Microbiol 3: 460-470.
25. Peng J, Lü Z, Rui J & Lu Y (2008) Dynamics of the methanogenic archaeal community during plant residue decomposition in an anoxic rice field soil. Appl Environ Microb 74: 2894-2901.
26. Qiu Q, Conrad R & Lu Y (2009) Cross-feeding of methane carbon among bacteria on rice roots revealed by DNA-stable isotope probing. Environ Microbiol Rep 1: 355-361.
27. Rui J, Peng J & Lu Y (2009) Succession of bacterial populations during plant residue decomposition in rice field soil. Appl Environ Microb 75: 4879-4886.
28. Sakai S, Imachi H, Hanada S, Ohashi A, Harada H & Kamagata Y (2008) Methanocella paludicola gen. nov., sp. nov., a methane-producing archaeon, the first isolate of the lineage 'rice cluster I', and proposal of the new archaeal order Methanocellales ord. nov. Int J Syst Evol Micr 58: 929-936.
29. Sakai S, Conrad R, Liesack W & Imachi H (2010) Methanocella arvoryzae sp. nov., a hydrogenotrophic methanogen, isolated from Italian rice field soil. Int J Syst Evol Micr 60: 2918-2923.
30. Schnürer A, Houwen FP & Svensson BH (1994) Mesophilic syntrophic acetate oxidation during methane formation by a triculture at high ammonium concentration. Arch Microbiol 162: 70-74.
31. Schnürer A, Schink B & Svensson BH (1996) Clostridium ultunense sp. nov., a mesophilic bacterium oxidizing acetate in syntrophic association with a hydrogenotrophic methanogenic bacterium. Int J Syst Bacteriol 46: 1145-1152.
32. Schnürer A, Zellner G & Svensson BH (1999) Mesophilic syntrophic acetate oxidation during methane formation in biogas reactors. FEMS Microbiol Ecol 29: 249-261.
33. Schwarz JI, Lueders T, Eckert W & Conrad R (2007) Identification of acetate-utilizing bacteria and archaea in methanogenic profundal sediments of Lake Kinneret (Israel) by stable isotope probing of rRNA. Environ Microbiol 9: 223-237.
34. Shen J (1998) Separation and determination of low-molecular-weight organic acids and phenolic acids in root exudates. PhD Thesis, China Agricultural University, Beijing.
35. Ter Braak CJF & Smilauer P (1998) Canoco Reference Manual and User's Guide to Canoco for Windows: Software for Canonical Community Ordination (Version 4). Microcomputer Power, Ithaca, NY.
36. Westerholm M, Roos S & Schnürer A (2010) Syntrophaceticus schinkii gen. nov., sp. nov., an anaerobic, syntrophic acetate-oxidizing bacterium isolated from a mesophilic anaerobic filter. FEMS Microbiol Lett 309: 100-104.
37. Wu XL, Friedrich MW & Conrad R (2006) Diversity and ubiquity of thermophilic methanogenic archaea in temperate anoxic soils. Environ Microbiol 8: 394-404.
38. Wu L, Ma K & Lu Y (2009) Prevalence of betaproteobacterial sequences in nifH gene pools associated with roots of modern rice cultivars. Microb Ecol 57: 58-68.
39. Yuan Q & Lu Y (2009) Response of methanogenic archaeal community to nitrate addition in rice field soil. Environ Microbiol Rep 1: 362-369.
40. Yuan Y, Conrad R & Lu Y (2009) Responses of methanogenic archaeal community to oxygen exposure in rice field soil. Environ Microbiol Rep 1: 347-354.
41. Zinder SH & Koch M (1984) Non-aceticlastic methanogenesis from acetate: acetate oxidation by a thermophilic syntrophic coculture. Arch Microbiol 138: 263-272.