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

Abstract

Two Gram-negative, non-motile, pleomorphic bacterial strains, DS-40T and DS-45T, were isolated from a soil sample collected from Dokdo, Korea, and their exact taxonomic positions were investigated by using a polyphasic approach. Strains DS-40T and DS-45T grew optimally at 25 °C and pH 6.5–7.5 in the presence of 0–1.0 % (w/v) NaCl. They contained MK-7 as the predominant menaquinone and possessed iso-C15 : 0, iso-C17 : 0 3-OH and summed feature 3 (C16 : 1 ω7c and/or iso-C15 : 0 2-OH) as the major fatty acids. The DNA G+C contents of strains DS-40T and DS-45T were 36.0 and 36.8 mol%, respectively. Strains DS-40T and DS-45T shared a 16S rRNA gene sequence similarity of 96.7 % and demonstrated a mean DNA–DNA relatedness level of 12 %. Phylogenetic analyses based on 16S rRNA gene sequences revealed that strains DS-40T and DS-45T were most closely phylogenetically affiliated with the genus Pedobacter of the family Sphingobacteriaceae. Strains DS-40T and DS-45T exhibited 16S rRNA gene sequence similarity values of 91.4–93.7 and 89.9–91.6 % with respect to the type strains of Pedobacter and Sphingobacterium species, respectively. Phenotypic and chemotaxonomic properties, together with the phylogenetic data, support the assignment of strains DS-40T and DS-45T as two distinct species within the genus Pedobacter. On the basis of phenotypic, phylogenetic and genetic data, strains DS-40T and DS-45T represent two novel species of the genus Pedobacter, for which the names Pedobacter lentus sp. nov. and Pedobacter terricola sp. nov. are proposed, respectively. The respective type strains are DS-40T (=KCTC 12875T=JCM 14593T) and DS-45T (=KCTC 12876T=JCM 14594T).

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

“…This fatty acid profile, including the major fatty acids [iso-C 15 : 0 , C 16 : 0 and summed feature 3 (iso-C 15 : 0 2-OH and/or C 16 : 1 v7c)], is Yoon et al (2007a). All strains were positive for catalase, oxidase, alkaline phosphatase, esterase (C4), esterase lipase (C8), leucine arylamidase, valine arylamidase, cystine arylamidase, hydrolysis of aesculin and assimilation of L-arabinose, D-glucose, D-mannose, L-rhamnose, maltose and Nacetylglucosamine.…”

“…All were negative for Gram stain, sporulation, urease, lipase (C14), trypsin, b-glucuronidase, a-fucosidase, production of H 2 S and indole, nitrate reduction, growth on MacConkey medium and assimilation of D-arabinose, D-fucose, L-arabitol, adipate, caprate, phenylacetate, ribose, D-sorbitol, salicin, melibiose, citrate and malate. similar to those of Pedobacter species, although there are differences in the proportions of some fatty acids, perhaps because of differences in the extraction and cultivation conditions (Shivaji et al, 2005;Vanparys et al, 2005;Yoon et al, 2006Yoon et al, , 2007aHwang et al, 2006;Ten et al, 2006).…”

“…At the time of writing, the genus comprised 16 recognized species, including the recently described species Pedobacter lentus and Pedobacter terricola (Yoon et al, 2007a). In this study, a Pedobacter-like strain, designated Dae 13 T , was isolated and characterized taxonomically.…”

Pedobacter composti sp. nov., isolated from compost

“…At the time of writing, the genus comprised 16 recognized species, including the recently described species Pedobacter lentus and Pedobacter terricola (Yoon et al, 2007). In this study, taxonomic characterization of a Pedobacter-like bacterial strain, TR6-06 T , is reported.…”

Pedobacter tournemirensis sp. nov., isolated from a fault water sample of a deep Toarcian argillite layer

“…fr). Members of the genus have been isolated from different environments such as soils and compost (Yoon et al, 2006(Yoon et al, , 2007aTen et al, 2006;Jeon et al, 2009), glaciers (Margesin et al, 2003;Shivaji et al, 2005), freshwater Muurholm et al, 2007) and activated sludge (Steyn et al, 1998). All members of the genus Pedobacter are Gram-negative rods with menaquinone 7 (MK-7) as the major respiratory quinone and iso-C 15 : 0 , summed feature 3 (iso-C 15 : 0 2-OH and/or C 16 : 1 v7c) and iso-C 17 : 0 3-OH as the major fatty acids.…”