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Lysobacter pocheonensis sp. nov., isolated from soil of a ginseng field

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Abstract

A Gram-staining-negative, non-spore-forming, non-flagellated, rod-shaped, catalase- and oxidase-negative bacterium, designated as Gsoil 193T, was isolated from the soil of ginseng field in Pocheon province, South Korea. 16S rRNA gene sequence analysis showed that strain Gsoil 193T belonged to family Xanthomonadaceae and was most closely related to Lysobacter daecheongensis KCTC 12,600T (96.4 %), Lysobacter panaciterrae KCTC 12601T (96.3 %), Lysobacter dokdonensis DSM 17958T (96.3 %) and Lysobacter oligotrophicus JCM 18257T (95.6 %). Strain Gsoil 193T grew at temperatures between 20 and 30 °C with an optimum of 30 °C. The pH range for growth was 5–9 pH (optimum 6–7 pH). The predominant respiratory quinone was ubiquinone Q-8 and a fatty acid profile with iso-C15:0, iso-C16:0 and summed feature 9 (iso-C17:1 ω9c/C16:0 10-methyl) as the major fatty acids supported the affiliation of strain Gsoil 193T to the genus Lysobacter. The genomic DNA G+C content was 64.8 mol %. On the basis of the genotypic analysis, physiological and chemotaxonomic results indicate that strain Gsoil 193T represents a novel species of the genus Lysobacter, for which the name Lysobacter pocheonensis sp. nov. is proposed. The type strain is Gsoil 193T (= DSM 18338T = KCTC 12624T).

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Acknowledgments

This work was supported by the project on survey and excavation of Korean indigenous species of the National Institute of Biological Resources (NIBR) under the Ministry of Environment.

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Authors and Affiliations

  1. Department of Biotechnology, Hankyong National University, 327 Chungang-no, Anseong-si, Kyonggi-do, 456-749, Republic of Korea

    Muhammad Zubair Siddiqi & Wan-Taek Im

  2. Center for Genetic Information, Graduate School of Bio and Information Technology, Hankyoung National University, 327 Chungang-no, Anseong-si, Kyonggi-do, 456-749, Republic of Korea

    Muhammad Zubair Siddiqi & Wan-Taek Im

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  1. Muhammad Zubair Siddiqi
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Corresponding author

Correspondence to Wan-Taek Im.

Additional information

Communicated by Erko Stackebrandt.

The NCBI GenBank accession number for 16S rRNA gene sequence of strain Gsoil 193T is EU273938.

Electronic supplementary material

Below is the link to the electronic supplementary material.

Scanning electron micrograph of Lysobacter pocheonensis Gsoil 193T. Bar 5 μm. (PPTX 372 kb)

203_2016_1214_MOESM2_ESM.pptx

Maximum-likelihood tree based on 16S rRNA gene sequences showing the relationships between strain Gsoil 193T and other related type species. Numbers at nodes (over 60 % are shown) represent percentages of bootstrap support based on a maximum–likelihood analysis of 1000 resampled datasets. Nevskia ramosa Soe1T (AJ001010) was used as outgroup. (PPTX 105 kb)

203_2016_1214_MOESM3_ESM.pptx

All negative traits of Gsoil 193T for the utilization of following substrates in API kits (API 20NE, 32GN and ZYM) system. (PPTX 33 kb)

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Siddiqi, M.Z., Im, WT. Lysobacter pocheonensis sp. nov., isolated from soil of a ginseng field. Arch Microbiol 198, 551–557 (2016). https://doi.org/10.1007/s00203-016-1214-8

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  • DOI: https://doi.org/10.1007/s00203-016-1214-8

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