Bacterial diversity in the rumen of Indian Surti buffalo (Bubalus bubalis), assessed by 16S rDNA analysis |
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Authors: | P R Pandya K M Singh S Parnerkar A K Tripathi H H Mehta D N Rank R K Kothari C G Joshi |
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Institution: | (1) Faculty of Animal Science and Technology, Yunnan Agricultural University, 650201 Kunming, China;(2) The Bio-Resource Institute of Diqing District Science and Technology Bureau, 677400 Shangeli-ra, China; |
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Abstract: | Bacterial communities in buffalo rumen were characterized using a culture-independent approach for a pooled sample of rumen
fluid from 3 adult Surti buffaloes. Buffalo rumen is likely to include species of various bacterial phyla, so 16S rDNA sequences
were amplified and cloned from the sample. A total of 191 clones were sequenced and similarities to known 16S rDNA sequences
were examined. About 62.82% sequences (120 clones) had >90% similarity to the 16S rDNA database sequences. Furthermore, about
34.03% of the sequences (65 clones) were 85–89% similar to 16S rDNA database sequences. For the remaining 3.14%, the similarity
was lower than 85%. Phylogenetic analyses were also used to infer the makeup of bacterial communities in the rumen of Surti
buffalo. As a result, we distinguished 42 operational taxonomic units (OTUs) based on unique 16S r DNA sequences: 19 OTUs
affiliated to an unidentified group (45.23% of total OTUs), 11 OTUs of the phylum Firmicutes, also known as the low G+C group
(26.19%), 7 OTUs of theCytophaga-Flexibacter-Bacteroides phylum (16.66%), 4 OTUs of Spirochaetes (9.52%), and 1 OTU of Actinobacteria (2.38%). These include 10 single-clone OTUs,
so Good’s coverage (94.76%) of 16S rRNA libraries indicated that sequences identified in the libraries represent the majority
of bacterial diversity present in rumen. |
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