Pedobacter endophyticus sp. nov., an endophytic bacterium isolated from Carex pumila

An aerobic, Gram-stain-negative, weak-motile, short-rod-shaped bacterial strain, designated JBR3-12(T), was isolated from halophyte Carex pumila plants, and its taxonomic position was investigated by using a polyphasic taxonomic approach. The strain produced a pink pigment on tryptic soy agar and grew optimally at 25 degrees C, pH 8 and in the presence of 3% (w/v) NaCl. Results of phylogenetic analysis based on 16S rRNA gene sequences showed that strain JBR3-12(T) formed a lineage within the genus Pedobacter and was most closely related to Pedobacter sandarakinus DS-27(T) (98.0%) and Pedobacter agri PB92(T) (97.6%). The DNA G+C content of the genome was 41.3 mol%; the whole genome length was 5426070 bp. The major fatty acids of JBR3-12(T) were iso-C-15(:0), summed feature 3 (comprising C-16:1 omega 6c and/or C-16:1 omega 7c) and iso-C-17:0 3-OH. The predominant polar lipid was phosphatidylethanolamine. The predominant quinone was menaquinone-7. Based on its phenotypic, phylogenetic and genotypic features, strain JBR3-12(T) is proposed to represent a novel species of the genus Pedobacter, for which the name is Pedobacter endophyticus sp. nov. The type strain is JBR3-12(T) (=KCTC 82363(T)=NBRC 114901(T)).