Taxonomic description and draft genome of Pseudomonas sediminis sp. nov., isolated from the rhizospheric sediment of Phragmites karka.

The taxonomic position of a Gram-stain-negative, rod-shaped bacterial strain, designated PI11, isolated from the rhizospheric sediment of Phragmites karka was characterized using a polyphasic approach. Strain PI11 could grow optimally at 1.0% NaCl concentration with pH 7.0 at 30°C and was positive for oxidase and catalase but negative for hydrolysis of starch, casein, and esculin ferric citrate. Phylogenetic analysis of 16S rRNA gene sequences indicated that the strain PI11 belonged to the genus Pseudomonas sharing the highest sequence similarities with Pseudomonas indoloxydans JCM 14246 (99.72%), followed by, Pseudomonas oleovorans subsp. oleovorans DSM 1045 (99.29%), Pseudomonas toyotomiensis JCM 15604 (99.15%), Pseudomonas chengduensis DSM 26382 (99.08%), Pseudomonas oleovorans subsp. lubricantis DSM 21016 (99.08%), and Pseudomonas alcaliphila JCM 10630 (99.01%). Experimental DNA-DNA relatedness between strain PI11 and P. indoloxydans JCM 14246 was 49.4%. The draft genome of strain PI11 consisted of 4,884,839 bp. Average nucleotide identity between the genome of strain PI11 and other closely related type strains ranged between 77.25-90.74%. The polar lipid pattern comprised of phosphatidylglycerol, diphosphatidylglycerol, and phosphatidylcholine. The major (> 10%) cellular fatty acids were Cω6c/ω7c, Cω6c/ω7c, and C. The DNA G + C content of strain PI11 was 62.4 mol%. Based on the results of polyphasic analysis, strain PI11 was delineated from other closely related type strains. It is proposed that strain PI11 represents represents a novel species of the genus Pseudomonas, for which the name Pseudomonas sediminis sp. nov. is proposed. The type strain is PI11 (= KCTC 42576 = DSMZ 100245).