Pedobacter paludis sp. nov., isolated from wetland soil View Full Text


Ontology type: schema:ScholarlyArticle     


Article Info

DATE

2019-04

AUTHORS

Yuxiao Zhang, Jingxin Li, Jinling Wang, Gejiao Wang

ABSTRACT

A Gram-stain-negative, aerobic, non-motile, rod-shaped and non-spore-forming bacterium, designated YXT, was isolated from wetland soil. Compared to strain YXT, Pedobacter yonginense HMD1002T had the highest 16S rRNA gene sequence identity (97.8%), and the remaining strains had the identities below 97%. Phylogenetic analysis of the 16S rRNA gene sequences showed that strain YXT grouped with P. yonginense HMD1002T. The values of DNA-DNA hybridization and genomic orthologous average nucleotide identity (orthoANI) between strain YXT and Pedobacter yonginense KCTC 22721T were 58.5% and 82.0%, respectively. The genome size of strain YXT was 5.0 Mb, comprising 4369 predicted genes with a DNA G+C content of 37.3 mol %. Strain YXT had menaquinone-7 as the only respiratory quinone and polar lipids of phosphatidylethanolamine, sphingolipid, aminolipid and three unidentified lipids. The predominant cellular fatty acids (> 10%) of strain YXT were summed feature 3 (iso-C15:0 2-OH and/or C16:1ω7c), iso-C15:0 and iso-C17:0 3-OH. Strain YXT could be distinguished from the other Pedobacter members based on the data of phylogenetic distance, DNA-DNA hybridization, genomic orthoANI, RecA MLSA, core-protein comparison, and hydrolyses of L-arginine, utilization of D/L-lactate, L-alanine, 5-ketonic gluconate and glycogen. Therefore, strain YXT represents a novel species of the genus Pedobacter, for which the name Pedobacter paludis sp. nov. is proposed. The type strain is YXT (= KCTC 62520T = CCTCC AB 2018029T). More... »

PAGES

349-355

References to SciGraph publications

Journal

TITLE

Archives of Microbiology

ISSUE

3

VOLUME

201

Author Affiliations

Identifiers

URI

http://scigraph.springernature.com/pub.10.1007/s00203-018-1605-0

DOI

http://dx.doi.org/10.1007/s00203-018-1605-0

DIMENSIONS

https://app.dimensions.ai/details/publication/pub.1111368620

PUBMED

https://www.ncbi.nlm.nih.gov/pubmed/30635670


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44 schema:description A Gram-stain-negative, aerobic, non-motile, rod-shaped and non-spore-forming bacterium, designated YX<sup>T</sup>, was isolated from wetland soil. Compared to strain YX<sup>T</sup>, Pedobacter yonginense HMD1002<sup>T</sup> had the highest 16S rRNA gene sequence identity (97.8%), and the remaining strains had the identities below 97%. Phylogenetic analysis of the 16S rRNA gene sequences showed that strain YX<sup>T</sup> grouped with P. yonginense HMD1002<sup>T</sup>. The values of DNA-DNA hybridization and genomic orthologous average nucleotide identity (orthoANI) between strain YX<sup>T</sup> and Pedobacter yonginense KCTC 22721<sup>T</sup> were 58.5% and 82.0%, respectively. The genome size of strain YX<sup>T</sup> was 5.0 Mb, comprising 4369 predicted genes with a DNA G+C content of 37.3 mol %. Strain YX<sup>T</sup> had menaquinone-7 as the only respiratory quinone and polar lipids of phosphatidylethanolamine, sphingolipid, aminolipid and three unidentified lipids. The predominant cellular fatty acids (&gt; 10%) of strain YX<sup>T</sup> were summed feature 3 (iso-C<sub>15:0</sub> 2-OH and/or C<sub>16:1</sub>ω7c), iso-C<sub>15:0</sub> and iso-C<sub>17:0</sub> 3-OH. Strain YX<sup>T</sup> could be distinguished from the other Pedobacter members based on the data of phylogenetic distance, DNA-DNA hybridization, genomic orthoANI, RecA MLSA, core-protein comparison, and hydrolyses of L-arginine, utilization of D/L-lactate, L-alanine, 5-ketonic gluconate and glycogen. Therefore, strain YX<sup>T</sup> represents a novel species of the genus Pedobacter, for which the name Pedobacter paludis sp. nov. is proposed. The type strain is YX<sup>T</sup> (= KCTC 62520<sup>T</sup> = CCTCC AB 2018029<sup>T</sup>).
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