Analysis of Rumen Methanogen Diversity in Water Buffaloes (Bubalus bubalis) Under Three Different Diets

Microbial Ecology

Volumn 64, Issue 1, 2012, Pages 131-139

  Franzolin, Raul ^a,b   St Pierre, Benoit ^a,d   Northwood, Korinne ^a,c   Wright, André Denis G ^a,d  

^a CSIRO   (Australia)

^b UNIVERSITY OF SÃO PAULO   (Brazil)

^c IMPERIAL COLLEGE LONDON   (United Kingdom)

^d UNIVERSITY OF VERMONT   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

METHANE;

ANIMAL; ANIMAL FOOD; ARTICLE; BACTERIUM; BIODIVERSITY; BUFFALO; CLASSIFICATION; DIET; GENETICS; ISOLATION AND PURIFICATION; METABOLISM; METAGENOME; MICROBIOLOGY; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; PHYLOGENY; RUMINANT STOMACH;

ANIMAL FEED; ANIMALS; BACTERIA; BIODIVERSITY; BUFFALOES; DIET; METAGENOME; METHANE; MOLECULAR SEQUENCE DATA; PHYLOGENY; RUMEN;

BUBALUS; BUBALUS BUBALIS; METHANOBREVIBACTER; METHANOMICROBIUM MOBILE; OTUS; SACCHARUM; ZEA MAYS;

EID: 84862500946     PISSN: 00953628     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00248-012-0007-0     Document Type: Article

References (38)

1. Altschul SF, Madden TL, Schäffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 25: 3389-3402.
2. An D, Dong X, Dong Z (2005) Prokaryote diversity in the rumen of yak (Bos grunniens) and Jinnan cattle (Bos taurus) estimated by 16S rDNA homology analyses. Anaerobe 11: 207-215.
3. Chaudhary PP, Sirohi SK (2009) Dominance of Methanomicrobium phylotype in methanogen population present in Murrah buffaloes (Bubalus bubalis). Lett Appl Microbiol 49: 274-277.
4. Evans PN, Hinds LA, Sly LI, McSweeney CS, Morrison M, Wright A-DG (2009) Community composition and density of methanogens in the foregut of the Tammar wallaby (Macropus eugenii). Appl Environ Microbiol 75: 2598-2602.
5. FAO (2000) Water buffalo: an asset undervalued. FAO Regional Office for Asia and Pacific, Bangkok, pp 1-6.
6. Felsenstein J (2006) PHYLIP (Phylogeny Inference Package) documentation files, version 3. 66. Department of Genome Sciences, University of Washington, Seattle.
7. Giordano G, Guarini P, Ferrari P, Biondi-Zoccai G, Schiavone B, Giordano A (2010) Beneficial impact on cardiovascular risk profile of water buffalo meat consumption. Eur J Clin Nutr 64: 1000-1006.
8. Good IJ (1953) The population frequency of species and the estimation of population parameters. Biometrika 40: 237-262.
9. Hook SE, Wright A-DG, McBride BW (2010) Methanogens: methane producers of the rumen and mitigation strategies. Archaea 2010: 1-11.
10. Hook SE, Steele MA, Northwood KS, Wright A-DG, McBride BW (2011) Impact of high-concentrate feeding and low ruminal pH on methanogens and protozoa in the rumen of dairy cows. Microb Ecol 62: 94-105.
11. Iqbal A, Khan BB, Riaz M (2009) Water buffalo: some socio-economic and welfare aspects-a review. Pakistan J Zool Suppl Ser 9: 503-509.
12. Kim M, Morrison M, Yu Z (2011) Status of the phylogenetic diversity census of ruminal microbiomes. FEMS Microbiol Ecol 76: 49-63.
13. Kimura M (1980) A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 16: 111-120.
14. Michelizzi VN, Dodson MV, Pan Z, Amaral MEJ, Michal JJ, McLean DJ, Womack JE, Jiang Z (2010) Water buffalo genome science comes of age. Int J Biol Sci 6: 333-349.
15. Nanda AS, Nakao T (2003) Role of buffalo in the socioeconomic development of rural Asia: current status and future prospects. Anim Sci J 74: 443-455.
16. NRC (1981) The water buffalo: new prospects for an underutilized animal. National Academy Press, Washington, DC.
17. Pradhan K, Bhatia SK, Sangwan DC (1991) Relative rumen ecosystem and nutrient digestibility in cattle and buffalo fed high fibrous diets. Haryana Agricultural University, Hisar.
18. Saitou N, Nei M (1987) The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4: 406-425.
19. Schloss PD, Westcott SL, Ryabin T, Hall JR, Hartmann M, Hollister EB, Lesniewski RA, Oakley BB, Parks DH, Robinson CJ et al (2009) Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol 75: 7537-7541.
20. Singh KM, Tripathi AK, Pandya PR, Parnerkar S, Rank DN, Kothari RK, Joshi CG (2011) Methanogen diversity in the rumen of Indian Surti buffalo (Bubalus bubalis), assessed by 16S rDNA analysis. Res Vet Sci. doi: 10. 1016/j. rvsc. 2011. 1003. 1022.
21. St-Pierre B, Wright A-DG (2012) Molecular analysis of methanogenic archaea in the forestomach of the alpaca (Vicugna pacos). BMC Microbiol 12: 1.
22. Sundset MA, Edwards JE, Cheng YF, Senosiain RS, Fraile MN, Northwood KS, Præsteng KE, Glad T, Mathiesen SD, Wright A-DG (2009) Rumen microbial diversity in Svalbard reindeer, with particular emphasis on methanogenic archaea. FEMS Microbiol Ecol 70: 553-562.
23. Sundset MA, Edwards JE, Cheng YF, Senosiain RS, Fraile MN, Northwood KS, Præsteng KE, Glad T, Mathiesen SD, Wright A-DG (2009) Molecular diversity of the rumen microbiome of Norwegian reindeer on natural summer pasture. Microb Ecol 57: 335-348.
24. Thauer RK, Kaster AK, Seedorf H, Buckel W, Hedderich R (2008) Methanogenic archaea: ecologically relevant differences in energy conservation. Nat Rev Microbiol 6: 579-591.
25. Thorpe A (2008) Enteric fermentation and ruminant eructation: the role (and control?) of methane in the climate change debate. Clim Chang 93: 407-431.
26. Wanapat M, Pilajun R, Kongmun P (2009) Ruminal ecology of swamp buffalo is influenced by dietary sources. Ani Feed Sci Tech 151: 205-214.
27. Wanapat M, Sommart K, Wachirapakorn C, Uriyapongson S, Wattanachant C (1994) Recent advances in swamp buffalo nutrition and feeding. In: Wanapat M, Sommart K (eds) Proc. the 1st Asian Buffalo Association Congress. Khon Kaen University, Khon Kaen.
28. Whitford MF, Teather RM, Forster RJ (2001) Phylogenetic analysis of methanogens from the bovine rumen. BMC Microbiol 1: 1-5.
29. Wolin MJ (1979) The rumen fermentation: a model for microbial interactions in anaerobic ecosystems. In: Alexander M (ed) Advances in microbial ecology, vol. 3. Planum Press, New York, pp 49-77.
30. Wolin MJ (1982) Hydrogen transfer in microbial communities. In: Bull AT, Slater JH (eds) Microbial interactions and communities, vol. 1. Academic, London, pp 323-356.
31. Wright A-DG, Pimm C (2003) Improved strategy for presumptive identification of methanogens using 16S riboprinting. J Microbiol Methods 55: 337-349.
32. Wright A-DG, Dehority BA, Lynn DH (1997) Phylogeny of the rumen ciliates Entodinium, Epidininum and Polyplastron (Litostomatea: Entodiniomorphida) inferred from small subunit ribosomal RNA sequences. J Euk Microbiol 44: 61-67.
33. Wright A-DG, Toovey AF, Pimm CL (2006) Molecular identification of methanogenic archaea from sheep in Queensland, Australia reveal more uncultured novel archaea. Anaerobe 12: 134-139.
34. Wright A-DG, Auckland CH, Lynn DH (2007) Molecular diversity of methanogens in feedlot cattle from Ontario and Prince Edward Island, Canada. Appl Environ Microbiol 73: 4206-4210.
35. Wright A-DG, Ma X, Obispo NE (2008) Methanobrevibacter phylotypes are the dominant methanogens in sheep from Venezuela. Microb Ecol 56: 390-394.
36. Wright A-DG, Northwood KS, Obispo NE (2009) Rumen-like methanogens identified from the crop of the folivorous South American bird, the hoatzin (Opisthocomus hoazin). ISME 3: 1120-1126.
37. Wright A-DG, Williams AJ, Winder B, Christophersen CT, Rodgers SL, Smith KD (2004) Molecular diversity of rumen methanogens from sheep in Western Australia. Appl Environ Microbiol 70: 1263-1270.
38. Zhou M, Hernandez-Sanabria E, Guan LL (2010) Characterization of variation in rumen methanogenic communities under different dietary and host feed efficiency conditions, as determined by PCR-denaturing gradient gel electrophoresis analysis. Appl Environ Microbiol 76: 3776-3786.