Pedobacter suwonensis sp. nov., isolated from the rhizosphere of Chinese cabbage (Brassica campestris)

Abstract

A mesophilic bacterium, strain 15-52 T , was isolated from the rhizosphere of Chinese cabbage (Brassica campestris). On the basis of phenotypic and genotypic characteristics, the bacterium was identified as representing a novel species belonging to the genus Pedobacter. The strain is non-flagellated, non-spore-forming and grows at temperatures in the range 1-37 6C. Physiological tests of the strain showed the presence of oxidase, catalase, protease (gelatin and casein hydrolysis), b-glucosidase and b-galactosidase activities. The highest levels of 16S rRNA gene sequence similarity were found with respect to Pedobacter roseus CL-GP80 T (97.3 %) and Pedobacter sandarakinus DS-27 T (97.2 %). A phylogenetic analysis based on 16S rRNA gene sequence data indicated that strain 15-52 T is a member of the genus Pedobacter. DNA-DNA hybridization analysis revealed low levels of relatedness (<42.3 %) between the isolate and two phylogenetically related type strains, P. roseus KCCM 42272 T and P. sandarakinus KCTC 12559 T . The DNA G+C content is 44.2 mol% and the predominant fatty acids are iso-C 15 : 0 (35.4 %), iso-C 15 : 0 2-OH and/or C 16 : 1 v7c (27.8 %) and iso-C 17 : 0 3-OH (15.8 %). On the basis of these data, strain 15-52 T represents a novel species of the genus Pedobacter, for which the name Pedobacter suwonensis sp. nov. is proposed. The type strain is 15-52 T (=KACC 11317 T =DSM 18130 T ).

Pedobacter terrae sp. nov., isolated from soil

“…The fatty acids constituting .0.5 % of the total fatty acid content for strain DS-57 T were as follows: branched fatty acids iso-C 15 : 0 (28.3 %), iso-C 17 : 1 v9c (6.1 %) and anteiso-C 15 : 0 (0.8 %); summed feature 3 (comprising C 16 : 1 v7c and/or iso-C 15 : 0 2-OH; 27.7 %) and summed feature 4 (comprising iso-C 17 : 1 and/or anteiso-C 17 : 1 ; 1.2 %); hydroxyl fatty acids iso-C 17 : 0 3-OH (20.4 %), iso-C 15 : 0 3-OH (3.5 %), C 16 : 0 3-OH (1.6 %) and iso-C 16 : 0 3-OH (0.6 %); straight-chain fatty acid C 16 : 0 (1.9 %); unsaturated fatty acids C 16 : 1 v5c (1.7 %) and C 18 : 1 v5c (0.9 %); and an unknown fatty acid (equivalent chain length, 16.582) (1.2 %). This fatty acid profile was similar to those of Pedobacter species, although there were differences in the proportions of some fatty acids, perhaps because of differences in cultivation conditions (Shivaji et al, 2005;Vanparys et al, 2005;Yoon et al, 2006;Hwang et al, 2006;Kwon et al, 2007) (see Supplementary Table S1, available with the online version of this paper). The DNA G+C content of strain DS-57 T was 39.7 mol%.…”

Pedobacter lentus sp. nov. and Pedobacter terricola sp. nov., isolated from soil

“…Since then, the number of Pedobacter species has increased considerably with the description of many novel members of the genus. Interestingly, most of these recently described novel Pedobacter species have been isolated from a variety of soils from Korea (Yoon et al, 2006(Yoon et al, , 2007Hwang et al, 2006;Ten et al, 2006;Kwon et al, 2007). In this study, we describe two bacterial strains, DS-40 T and DS-45 T , which were isolated from soil from the island of Dokdo, Korea.…”

Pedobacter nyackensis sp. nov., Pedobacter alluvionis sp. nov. and Pedobacter borealis sp. nov., isolated from Montana flood-plain sediment and forest soil

“…Unless otherwise indicated, data were compiled from Steyn et al (1998) Kwon et al (2007) and the present study. +, Positive; (+), weak reaction; 2, negative; V, variable; NA, data not available.…”

“…The genus Pedobacter was initially described by Steyn et al (1998) and, at the time of writing, included 23 species: Pedobacter heparinus, P. piscium, P. africanus and P. saltans (Steyn et al, 1998), P. cryoconitis (Margesin et al, 2003), P. himalayensis (Shivaji et al, 2005), P. caeni (Vanparys et al, 2005), P. sandarakinus (Yoon et al, 2006), P. roseus (Hwang et al, 2006), P. aquatilis (Gallego et al, 2006), P. ginsengisoli (Ten et al, 2006), P. panaciterrae (Yoon et al, 2007a), P. suwonensis (Kwon et al, 2007), P. insulae (Yoon et al, 2007b), P. lentus and P. terricola (Yoon et al, 2007c), P. koreensis (Baik et al, 2007), P. duraquae, P. westerhofensis, P. metabolipauper, P. hartonius and P. steynii (Muurholm et al, 2007) and P. terrae (Yoon et al, 2007d). All of these species are aerophilic or microaerophilic, Gram-negative rods with MK-7 as the predominant isoprenoid quinone and a DNA G+C content of 36-45 mol% (T m ).…”