Pseudomonas phragmitis sp. nov., isolated from petroleum polluted river sediment

A Gram-stain-negative, rod-shaped bacterium, motile by means of a single polar flagellum, designated S-6-2^T, was isolated from petroleum polluted river sediment in Huangdao, Shandong Province, PR China. The 16S rRNA gene sequence analysis revealed that S-6-2^T represented a member of the genus Pseudomonas, sharing the highest sequence similarities with Pseudomonas parafulva (97.5 %) and Pseudomonas fulva (97.5 %). Phylogenetic analysis based on 16S rRNA gene, concatenated 16S rRNA, gyrB, rpoB and rpoD genes and genome core-genes indicated that S-6-2^T was affiliated with the members of the Pseudomonas pertucinogena group. The average nucleotide identity (ANI) and genome-to-genome distance between the whole genome sequences of S-6-2^T and closely related species of the genus Pseudomonas within the P. pertucinogena group were less than 77.94 % and 20.5 %, respectively. Differences in phenotypic characteristics were also found between S-6-2^T and the closely related species. The major cellular fatty acids (>10 %) were summed feature 8 (C_18 : 1ω7c/ C_{18  : 1}ω6c), C_16 : 0, C_17 : 0cyclo and C_12 : 0. The predominant respiratory quinone was ubiquinone 9. The major polar lipids were diphosphatidylglycerol (DPG), phosphatidylglycerol (PG), phosphatidylethanolamine (PE), one unidentified lipid (L1), two unidentified phospholipids (PL1 and PL2) and an aminophospholipid (APL). The DNA G+C content of the genome of S-6-2^T was 60.1 mol%. On the basis of the evidence from the polyphasic taxonomic study, strain S-6-2^T can be classified as representative of a novel species of the genus Pseudomonas, for which the name Pseudomonas phragmitis sp. nov. is proposed. The type strain is S-6-2^T (=CGMCC 1.15798^T=KCTC 52539^T).