Draft genome sequence of strain HIMB100, a cultured representative of the SAR116 clade of marine Alphaproteobacteria.
Bottom Line: Here we describe preliminary features of the organism, together with the draft genome sequence and annotation.This is the second genome sequence of a member of the SAR116 clade.The 2,458,945 bp genome contains 2,334 protein-coding and 42 RNA genes.
Strain HIMB100 is a planktonic marine bacterium in the class Alphaproteobacteria. This strain is of interest because it is one of the first known isolates from a globally ubiquitous clade of marine bacteria known as SAR116 within the family Rhodospirillaceae. Here we describe preliminary features of the organism, together with the draft genome sequence and annotation. This is the second genome sequence of a member of the SAR116 clade. The 2,458,945 bp genome contains 2,334 protein-coding and 42 RNA genes.
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Mentions: Phylogenetic analyses based on 16S rRNA gene sequence comparisons revealed strain HIMB100 to be closely related to a large number of environmental gene clones obtained almost exclusively from seawater. For example, alignment of HIMB100 against the Silva release 104 reference database (512,037 high quality bacterial 16S rRNA sequences >1200 base pairs in length, released October 2010) revealed 554 entries that belong to the same phylogenetic lineage within the Alphaproteobacteria. Of these, only one originated from a cultivated isolate (Candidatus P. marinum IMCC1322), and all 554 entries derived from either seawater or the marine environment. The 16S rRNA gene sequence from Oregon coast strain HTCC8037 was 98.0% similar to that of strain HIMB100, but it does not appear in the Silva reference database because it is a partial sequence of 884 nucleotides in length . In phylogenetic analyses with taxonomically described members of the Alphaproteobacteria, strain HIMB100 and Candidatus P. marinum IMCC1322 (94.1% similar) formed a monophyletic lineage within the family Rhodospirillaceae (Figure 1). The 16S rRNA gene of strain HIMB100 was most similar to the type strains of Nisaea denitrificans (90.3%), N. nitritireducens (89.9%), and Thalassobaculum salexigens (89.3%), which were all isolated from surface seawater of the northwestern Mediterranean Sea [25,26], T. litoreum (89.5%), isolated from coastal seawater off of Korea , and Oceanibaculum indicum (89.4%), isolated from a polycyclic aromatic hydrocarbon-degrading consortium that was enriched from a deep-seawater sample collected from the Indian Ocean .
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