Pedobacter daechungensis sp. nov., from freshwater lake sediment in South Korea

Abstract

A novel bacterial strain, designated Dae 13 T , was isolated from sediment from a freshwater lake in Daejeon, South Korea, and was characterized taxonomically by using a polyphasic approach. The isolate was Gram-negative, aerobic, non-motile, non-spore-forming and rod-shaped. Phylogenetic analysis based on 16S rRNA gene sequences indicated that the isolate belonged to the genus Pedobacter in the family Sphingobacteriaceae but was clearly separate from established species of this genus. The 16S rRNA gene sequence similarities between strain Dae 13 T and type strains of Pedobacter species with validly published names ranged from 91.6 to 97.5 %. The G+C content of the genomic DNA was 33.8 mol%. Chemotaxonomic data, i.e. the presence of MK-7 as the major menaquinone and iso-C 15 : 0 , C 16 : 0 and summed feature 3 (iso-C 15 : 0 2-OH and/or C 16 : 1 v7c) as the major fatty acids, supported the affiliation of strain Dae 13 T to the genus Pedobacter. However, the results of physiological and biochemical tests allowed phenotypic differentiation of the isolate with respect to Pedobacter species with validly published names. Therefore, strain Dae 13 T represents a novel species within the genus Pedobacter, for which the name Pedobacter daechungensis sp. nov. is proposed. The type strain is Dae 13 T

Pedobacter bauzanensis sp. nov., isolated from soil

“…The predominant cellular fatty acids of strain BZ42 T (.1 % of the total fatty acids) were iso-C 15 : 0 (46.2 %), C 16 : 1 v7c and/or iso-C 15 : 0 2-OH (23.2 %), iso-C 17 : 0 3-OH (9.1 %), C 17 : 0 cyclo (3.8 %), iso-C 15 : 0 3-OH (3.8 %), iso-C 17 : 1 v9c (2.3 %), C 16 : 0 (1.7 %), C 16 : 1 v5c (1.6 %) and anteiso-C 15 : 0 (1.2 %). This fatty acid profile was similar to those of other Pedobacter species (Steyn et al, 1998;Yoon et al, 2006Yoon et al, , 2007An et al, 2009), although there were differences in the proportions of some fatty acids, perhaps due to different cultivation and extraction conditions. The DNA G+C content of strain BZ42 T was 36.5 mol%.…”

Pedobacter glucosidilyticus sp. nov., isolated from dry riverbed soil

“…Many novel species have been recovered from various environments and, at the time of writing, the genus Pedobacter contained 26 recognized species (Steyn et al., 1998;Margesin et al, 2003;Shivaji et al, 2005;Vanparys et al, 2005;Gallego et al, 2006;Hwang et al, 2006; Ten et al, 2006;Baik et al, 2007; Kwon et al, 2007;Muurholm et al, 2007;Yoon et al, 2006Yoon et al, , 2007aAn et al, 2009;Roh et al, 2008;Lee et al, 2009). The description of the genus Pedobacter has also been emended recently (Vanparys et al, 2005;Gallego et al, 2006;Hwang et al, 2006).…”

Pedobacter xinjiangensis sp. nov., from desert, Xinjiang

“…Both features were in agreement with members of the genus Pedobacter. The isolate displayed a fatty acid profile very similar to type strains of Pedobacter species [1,2,13,17,22,[30][31][32][33], having iso-C 15:0 , iso-C 17:0 3-OH, C 16:0 , summed feature 3 (C 16:1 ω7c and/or C 16:1 ω6c) as the major fatty acids.…”

“…The genus Pedobacter was proposed by Steyn et al [22] to accommodate species characterized by Gram-negative rods that produce heparinase, are obligately aerobic, with or without gliding motility, and are negative for urease, lipase, gelatinase, arginine dihydrolase, indole production, and nitrate reduction. At the time of writing, the genus comprised 29 recognized species [1, 2, 9-14, 16, 17, 19, 22, 25, 26, 29-33], including the recently described species Pedobacter composti [13], P. daechungensis [1], P. nyackensis, P. alluvionis, and P. borealis [10]. In the course of our study on desert microbial diversity, a rod-shaped bacterial strain, designated as 12157 T , was isolated by the standard dilution plating technique at 30 o C on 0.1×tryptic soy (10-fold diluted TSB; BBL) agar plates [5] and was subjected to a polyphasic taxonomic research.…”