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Paraburkholderia panacisoli sp. nov., a potentially antagonistic bacterium against the root rot fungal pathogen Cylindrocarpon destructans, isolated from ginseng cultivation soil

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Abstract

A new bacterium, designated DCY113T, was isolated from ginseng cultivation soil in Gochang-gun, South Korea, and its taxonomic position identified by the polyphasic approach. 16S rRNA gene sequence analysis determined that this isolate belongs to the genus Paraburkholderia, and was closest to P. dipogonis DL7T (98.6%), P. phytofirmans PsJNT (98.5%), P. kirstenboschensis Kb15T (98.4%) and P. aromaticivorans BNT (98.1%). Strain DCY113T is Gram-reaction negative, strictly aerobic, rod-shaped, non-motile, and catalase and oxidase positive. The predominant isoprenoid quinone of DCY113T was ubiquinone Q-8. The major cellular fatty acids were C16:0, cyclo-C17:0 and the Summed feature 8 (C18:1ω7c and/or C18:1ω6c). The major polar lipids were diphosphatidylglycerol (DPG), phosphatidylglycerol (PG), phosphatidylethanolamine (PE), and an unknown amino lipid (AL1). The G+C content of the genomic DNA was 62.2 mol%. Average nucleotide identity (ANI) between strain DCY113T and the related Paraburkholderia type strains were below the threshold value for species delineation. This low DNA relatedness in combination with phylogenetic and phenotypic tests indicates that strain DCY113T cannot be assigned to any recognized species. Strain DCY113T was also found to have antifungal activity against the pathogenic fungi Cylindrocarpon destructans. In conclusion, this study found DCY113T to be a novel species within the genus Paraburkholderia, for which the name P. panacisoli is proposed. The type strain is DCY113T (= KCTC 52951T = JCM 32098T).

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Acknowledgements

This work was supported by the (2011) Grant from the Korean Society of Ginseng.

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  1. Yue Huo and Mohan Chokkalingam contributed equally to this work.

Authors and Affiliations

  1. Department of Oriental Medicinal Biotechnology, Kyung Hee University, Seocheon-dong, Giheung-gu, Yongin-si, Gyeonggi-do, 17104, Republic of Korea

    Yue Huo & Deok-Chun Yang

  2. Graduate School of Biotechnology, College of Life Sciences, Kyung Hee University, Seocheon-dong, Giheung-gu, Yongin-si, Gyeonggi-do, 17104, Republic of Korea

    Mohan Chokkalingam, Jong-Pyo Kang, Jong-Chan Ahn & Deok-Chun Yang

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  1. Yue Huo
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  2. Mohan Chokkalingam
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  3. Jong-Pyo Kang
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  4. Jong-Chan Ahn
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  5. Deok-Chun Yang
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Correspondence to Jong-Pyo Kang or Deok-Chun Yang.

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Communicated by Erko Stackebrandt.

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The NCBI GenBank accession numbers for the 16S rRNA gene sequence and the draft genome of strain DCY113T are KY694398 and VTUZ00000000, respectively.

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Huo, Y., Chokkalingam, M., Kang, JP. et al. Paraburkholderia panacisoli sp. nov., a potentially antagonistic bacterium against the root rot fungal pathogen Cylindrocarpon destructans, isolated from ginseng cultivation soil. Arch Microbiol 202, 1341–1347 (2020). https://doi.org/10.1007/s00203-020-01840-z

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