Pedobacter seoulensis sp nov., isolated from soil of a bamboo field

A Gram-stain negative, strictly aerobic, motile by gliding, rod-shaped and yellow pigmented strain THG-G12(T) was isolated from soil of a bamboo field in Seoul, Republic of Korea. Strain THG-G12(T) was observed to grow well at 20-28 A degrees C and pH 7.0-7.5 in the absence of NaCl on nutrient agar. Based on 16S rRNA gene sequence comparisons, strain THG-G12(T) was found to be most closely related to Pedobacter ginsengisoli Gsoil 104(T) (97.5 % sequence similarity), Pedobacter steynii WB2.3-45(T) (97.4 %), Pedobacter metabolipauper WB2.3-71(T) (97.2 %), Pedobacter nyackensis NWG-II14(T) (97.2 %), Pedobacter caeni LMG 22862(T) (97.1 %) and Pedobacter duraquae WB2.1-25(T) (97.0 %), but DNA relatedness between strain THG-G12(T) and its phylogenetically closest neighbours was below 9.5 %. The G+C content of the genomic DNA was determined to be 39.9 mol%. The only isoprenoid quinone detected in strain THG-G12(T) was menaquinone-7 (MK-7). The major component in the polyamine pattern was sym-homospermidine. The major polar lipids were found to be phosphatidylethanolamine, unidentified phosphoglycolipids, unidentified aminophosphoglycolipids, unidentified aminolipids and unidentified lipids. Strain THG-G12(T) showed the presence of two ceramide phosphorylethanolamines (CerPE-2' and CerPE-2aEuro(3)), dihydrosphingosines and an unidentified ceramide as the major ceramide. The major fatty acids were identified as summed feature 3 (as defined by the MIDI system; C-16:1 omega 7c and/or C-16:1 omega 6c) and iso-C-15:0. These data support the affiliation of strain THG-G12(T) to the genus Pedobacter. The results of physiological and biochemical tests enabled strain THG-G12(T) to be differentiated genotypically and phenotypically from the recognized species of the genus Pedobacter. Therefore, the novel isolate represents a novel species, for which the name Pedobacter seoulensis sp. nov. is proposed, with THG-G12(T) as the type strain (=KACC 17529(T) =JCM 19363(T)).