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Phylogenetic study of methanol oxidizers from chilika-lake sediments using genomic and metagenomic approaches.

ABSTRACT: Group-wise diversity of sediment methylotrophs of Chilika lake (Lat. 19°28'-19°54'N; Long. 85°06'-85°35'E) Odisha, India at various identified sites was studied. Both the culturable and unculturable (metagenome) methylotrophs were investigated in the lake sediments employing both mxaF and 16S rRNA genes as markers. ARDRA profiling, 16S rRNA gene sequencing, PAGE profiling of HaeIII, EcoRI restricted mxaF gene and the mxaF gene sequences using culture-dependent approach revealed the relatedness of ?-proteobacteria and Methylobacterium, Hyphomicrobium and Ancyclobacter sp. The total viable counts of the culturable aerobic methylotrophs were relatively higher in sediments near the sea mouth (S3; Panaspada), also demonstrated relatively high salinity (0.1 M NaCl) tolerance. Metagenomic DNA from the sediments, amplified using GC clamp mxaF primers and resolved through DGGE, revealed the diversity within the unculturable methylotrophic bacterium Methylobacterium organophilum, Ancyclobacter aquaticus, Burkholderiales and Hyphomicrobium sp. Culture-independent analyses revealed that up to 90 % of the methylotrophs were unculturable. The study enhances the general understandings of the metagenomic methylotrophs from such a special ecological niche.

SUBMITTER: Meena KK

PROVIDER: S-EPMC4363253 | biostudies-literature | 2015 Jun

REPOSITORIES: biostudies-literature

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Phylogenetic study of methanol oxidizers from chilika-lake sediments using genomic and metagenomic approaches.

Meena Kamlesh K KK Kumar Manish M Mishra Snehasish S Ojha Sanjay Kumar SK Wakchaure Goraksha C GC Sarkar Biplab B

Indian journal of microbiology 20150115 2

Group-wise diversity of sediment methylotrophs of Chilika lake (Lat. 19°28'-19°54'N; Long. 85°06'-85°35'E) Odisha, India at various identified sites was studied. Both the culturable and unculturable (metagenome) methylotrophs were investigated in the lake sediments employing both mxaF and 16S rRNA genes as markers. ARDRA profiling, 16S rRNA gene sequencing, PAGE profiling of HaeIII, EcoRI restricted mxaF gene and the mxaF gene sequences using culture-dependent approach revealed the relatedness o ...[more]

PMID: 25805901

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Dataset Information

Phylogenetic study of methanol oxidizers from chilika-lake sediments using genomic and metagenomic approaches.

Publications

Phylogenetic study of methanol oxidizers from chilika-lake sediments using genomic and metagenomic approaches.

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