Sphingomonas pokkalii sp. nov., a novel plant associated rhizobacterium isolated from a saline tolerant pokkali rice and its draft genome analysis

Three strains L3B27T, 3CNBAF, L1A4 isolated from a brackish cultivated pokkali rice rhizosphere were characterised using a polyphasic taxonomic approach. Phylogenetic analysis based on 16S rRNA and recA gene sequences revealed that these strains were highly similar among each other and formed a sepa...

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Bibliographic Details
Published in:Systematic and applied microbiology 2019-05, Vol.42 (3), p.334-342
Main Authors: Menon, Rahul R., Kumari, Sunitha, Kumar, Pravin, Verma, Ashish, Krishnamurthi, Srinivasan, Rameshkumar, N.
Format: Article
Language:English
Subjects:
Brackish rice
DNA, Bacterial - genetics
Fatty Acids - analysis
Genes, Bacterial - genetics
Genome, Bacterial - genetics
Lipids - analysis
Nucleic Acid Hybridization
Oryza - microbiology
Oryza - physiology
PGPR
Phylogeny
Pokkali
Polyamines - analysis
Quinones - analysis
Rhizobacteria
Rhizosphere
RNA, Ribosomal, 16S - genetics
Salt Tolerance
Sequence Analysis, DNA
Soil Microbiology
Sphingomonas
Sphingomonas - chemistry
Sphingomonas - classification
Sphingomonas - genetics
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Summary:Three strains L3B27T, 3CNBAF, L1A4 isolated from a brackish cultivated pokkali rice rhizosphere were characterised using a polyphasic taxonomic approach. Phylogenetic analysis based on 16S rRNA and recA gene sequences revealed that these strains were highly similar among each other and formed a separate monophyletic cluster within the genus Sphingomonas with Sphingomonas pituitosa DSM 13101T, Sphingomonas azotifigens DSM 18530T and Sphingomonas trueperi DSM 7225T as their closest relatives sharing 97.9–98.3% 16S rRNA similarity and 91.3–94.0% recA similarity values, respectively. The average nucleotide identity (ANI), average amino acid identity (AAI) and digital DNA–DNA hybridisation (dDDH) values between L3B27T (representative of the novel strains) and its phylogenetically closest Sphingomonas species were well below the established cut-off
ISSN:0723-2020
1618-0984
DOI:10.1016/j.syapm.2019.02.003