title: Methanogen diversity in the rumen of Indian Surti buffalo (Bubalus bubalis), assessed by 16S rDNA analysis.
abstract: The methanogenic communities in buffalo rumen were characterized using a culture-independent approach of a pooled sample of rumen fluid from three adult Surti buffaloes. Buffalo rumen is likely to include species of various methanogens, so 16S rDNA sequences were amplified and cloned from the sample. A total of 171 clones were sequenced to examine 16S rDNA sequence similarity. About 52.63% sequences (90 clones) had ≥ 90% similarity, whereas, 46.78% of the sequences (81 clones) were 75-89% similar to 16S rDNA database sequences, respectively. Phylogenetic analyses were also used to infer the makeup of methanogenic communities in the rumen of Surti buffalo. As a result, we distinguished 23 operational taxonomic units (OTUs) based on unique 16S rDNA sequences: 12 OTUs (52.17%) affiliated to Methanomicrobiales order, 10 OTUs (43.47%) of the order Methanobacteriales and one OTU (4.34%) of Methanosarcina barkeri like clone, respectively. In addition, the population of Methanomicrobiales and Methabacteriales orders were also observed, accounting 4% and 2.17% of total archea. This study has revealed the largest assortment of hydrogenotrophic methanogens phylotypes ever identified from rumen of Surti buffaloes.
authors.affiliation: Department of Animal Biotechnology, College of Veterinary Science and A.H., Anand Agricultural University, Anand 388 001, Gujarat, India. kmsingh18@gmail.com
authors.forename: K M
authors.initials: KM
authors.lastname: Singh
authors.forename: A K
authors.initials: AK
authors.lastname: Tripathi
authors.forename: P R
authors.initials: PR
authors.lastname: Pandya
authors.forename: S
authors.initials: S
authors.lastname: Parnerkar
authors.forename: D N
authors.initials: DN
authors.lastname: Rank
authors.forename: R K
authors.initials: RK
authors.lastname: Kothari
authors.forename: C G
authors.initials: CG
authors.lastname: Joshi
mesh_terms: D000818:Animals; D001105:Archaea / Q000235:genetics / Q000378:metabolism; D002020:Buffaloes; D003001:Cloning, Molecular; D015964:Gene Expression Regulation, Bacterial / Q000502:physiology; D008697:Methane / Q000378:metabolism*; D017012:Methanobacteriales / Q000145:classification / Q000235:genetics* / Q000378:metabolism; D017020:Methanosarcina / Q000235:genetics* / Q000378:metabolism; D010802:Phylogeny; D012336:RNA, Ribosomal, 16S / Q000235:genetics*; D060888:Real-Time Polymerase Chain Reaction; D012417:Rumen / Q000382:microbiology / Q000469:parasitology*
chemical_list: D012336:RNA, Ribosomal, 16S; D008697:Methane