Pedobacter riviphilus sp. nov., isolated from stream sediment

Abstract

A Gram-stain-negative, aerobic, motile by gliding, rod-shaped and pink-coloured bacterium, designated strain SW-16T, was isolated from the sediment of small stream in the Republic of Korea. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain SW-16T formed a lineage within the genus Pedobacter of the family Sphingobacteriaceae . Phylogenetic analysis also showed that strain SW-16T was most closely related to Pedobacter soli 15-51T (98.0% 16S rRNA gene sequence similarity), Pedobacter humicola R135T (97.5%), Pedobacter suwonensis 15-52T (97.4%), Pedobacter sandarakinus DS-27T (97.0%) and Pedobacter kyungheensis THG-T17T (97.0%). Growth was observed at 10–37 °C (optimum at 30 °C), pH 6–8 (optimum at pH 7) and with 0–2.0 % NaCl (optimum at 0%). The major fatty acids of the bacterial strain were iso-C15 : 0, iso-C17 : 0 3-OH and summed feature 3 (iso-C15 : 0 2-OH and/or C16 : 1 ω7c). The predominant respiratory quinone was menaquinone-7 and the major polar lipids were phosphatidylethanolamine, two unidentified amino lipids, one unidentified phospholipid and three unidentified lipids. The genome size of strain SW-16T was 5.8 Mbp and the G+C content was 38.5 mol%. Based on the results of phenotypic, genomic and phylogenetic analyses, strain SW-16T represents a novel species of the genus Pedobacter , for which the name Pedobacter riviphilus sp. nov. is proposed. The type strain is SW-16T (=KEMB 1602–396T=KCTC 82079T=JCM 34181T).

Pedobacter faecalis sp. nov., isolated from the faeces of eland, Taurotragus oryx

“…The genus Pedobacter is a Gram-stain-negative bacteria classified under the family Sphingobacteriaceae within the phylum Bacteroidota. Members of the genus Pedobacter exhibit aerobic characteristics, positive catalase and oxidase production, and display diverse colony colours such as white, yellow, orange, and pink [2][3][4][5][6]. At the time of writing, the genus Pedobacter consists of 110 species with validly published names, as documented in the List of Prokaryotic names with Standing in Nomenclature (LPSN) taxonomy browser database (https://lpsn.dsmz.de/genus/pedobacter).…”

“…The complete genomes of Pedobacter deposited in the NCBI databases exhibit various genome sizes from 3.9 Mb (e.g., P. aquae CJ43 T ) to 6.3 Mb (e.g., P. roseus KACC 11594 T ) among the type strains. The habitats of the genus Pedobacter are widely distributed in various environments such as pine grove, forest soil, arctic soil, leaves, fragmentary rock, waterfalls, wood falls, and stream sediment [4–11]. In this study, we described a novel bacterial species, designated as strain ELA7 T from the faeces of eland ( Taurotragus oryx ) at Seoul Grand Park, a zoo in the Republic of Korea.…”