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Chryseobacterium panacis sp. nov., isolated from ginseng soil

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Abstract

A novel strain, DCY107T, was isolated from soil collected from a ginseng field in Gochang, Republic of Korea. Strain DCY107T is Gram-negative, yellow pigmented, non-motile, non-flagellate, rod-shaped and aerobic. The strain was found to grow optimally at 25–30 °C and pH 6.5–7. Phylogenetically, strain DCY107T is closely related to Chryseobacterium polytrichastri DSM 26899T (98.49 % 16S rRNA gene sequence similarity), Chryseobacterium yeoncheonense JCM 18516T (97.78 %), Chryseobacterium aahli LMG 27338T (97.74 %), Chryseobacterium limigenitum LMG28734T (97.74 %), Chryseobacterium ginsenosidimutans JCM 16719T (97.47 %) and Chryseobacterium gregarium LMG 24052T (97.31 %). The DNA–DNA relatedness values between strain DCY107T and reference strains were found to be clearly below 70 %. The DNA G+C content of strain DCY107T was determined to be 34.2 mol%. The predominant quinone was identified menaquinone 6 (MK-6). The major polar lipids were identified as phosphatidylethanolamine and unidentified lipids: aminolipids AL1, AL2 and lipid L2. C16:00, iso-C15:00, iso-C15:02OH, iso-C17:03OH and summed feature 9 (iso-C17:1 ω9c and/or C16:0 10-methyl) were identified as the major fatty acids present in strain DCY107T. The results of physiological and biochemical tests allowed strain DCY107T to be differentiated phenotypically from other recognised species belonging to the genus Chryseobacterium. Therefore, it is suggested that the newly isolated organism represents a novel species, for which the name Chryseobacterium panacis sp. nov. is proposed, with the type strain designated as DCY107T (=CCTCC AB 2015195T = KCTC 42750T).

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Acknowledgments

This research was supported by the Korea Institute of Planning & Evaluation for Technology in Food, Agriculture, Forestry and Fisheries (IPET NO: 313038-03-2-SB010) and also supported by a grant from the Next-Generation BioGreen 21 Program, Systems & Synthetic Agrobiotech Center (SSAC # PJ01116602), Rural Development Administration, Republic of Korea.

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Authors and Affiliations

  1. Department of Oriental Medicine Biotechnology, Ginseng Bank, College of Life Science, Kyung Hee University, Seocheon-dong, Giheung-gu, Yongin-si, Gyeonggi-do, 446-701, Republic of Korea

    Priyanka Singh, Yeon-Ju Kim, Wang Dan Dan & Deok-Chun Yang

  2. Graduate School of Biotechnology, College of life science, Kyung Hee University, Yongin-si, Gyeonggi-do, 446-701, Republic of Korea

    Mohamed El-Agamy Farh

  3. Division of Applied Life Science and PMBBRC, Gyeongsang National University, 501 Jinju-daero, Jinju, 660-701, Republic of Korea

    Chang Ho Kang

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  1. Priyanka Singh
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Correspondence to Yeon-Ju Kim or Deok-Chun Yang.

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Supplementary Fig. S1. Transmission electron micrograph of DCY107T. Supplementary material 1 (TIFF 660 kb)

10482_2015_620_MOESM2_ESM.tif

Supplementary Fig. S2. Antagonistic activity of DCY107T and Chryseobacterium yeoncheonense JCM 18516T against Fusarium solani KACC 44891T. a Control, b C. yeoncheonense JCM 18516T, and c C. panacis KCTC 42750T. Supplementary material 2 (TIFF 590 kb)

10482_2015_620_MOESM3_ESM.tif

Supplementary Fig. S3. Maximum likelihood phylogenetic tree based on 16S rRNA gene sequences showing the position of strain DCY107T among species of the Chryseobacterium genus. Bootstrap values >50 % based on 1000 replications are shown at branching points. Scale bar, 0.01 substitutions per nucleotide position. Supplementary material 3 (TIFF 1720 kb)

10482_2015_620_MOESM4_ESM.tif

Supplementary Fig. S4. Two-dimensional TLC of total polar lipids. Strain DCY107T and Chryseobacterium yeoncheonense JCM 18516T were stained for total polar lipids with 5 % ethanolic molybdophosphoric acid. Abbreviations:PE phosphatidylethanolamine. a C. panacis KCTC 42750T; b Chryseobacterium yeoncheonense JCM 18516T. Supplementary material 4 (TIFF 736 kb)

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Singh, P., Kim, YJ., Farh, M.EA. et al. Chryseobacterium panacis sp. nov., isolated from ginseng soil. Antonie van Leeuwenhoek 109, 187–196 (2016). https://doi.org/10.1007/s10482-015-0620-2

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