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Archives of Microbiology

, Volume 201, Issue 1, pp 99–105 | Cite as

Rhizobium panacihumi sp. nov., an isolate from ginseng-cultivated soil, as a potential plant growth promoting bacterium

  • Jong-Pyo Kang
  • Yue Huo
  • Yeon-Ju Kim
  • Jong-Chan Ahn
  • Joon Hurh
  • Dong-Uk Yang
  • Deok-Chun Yang
Original Paper
  • 70 Downloads

Abstract

A novel bacterial strain designated DCY116T was isolated from ginseng-cultivated soil in Gochang-gun, Republic of Korea. Strain DCY116T, belongs to the genus Rhizobium, and is closely related to Rhizobium yantingense H66T (98.3%), Neorhizobium huautlense S02T (98.2%), Rhizobium soli DS-42T (98.1%), Rhizobium smilacinae PTYR-5T (97.9%), and Neorhizobium alkalisoli CCBAU 01393T (97.9%) based on 16S rRNA gene sequence analysis. Analysis of the housekeeping genes atpD, recA, and glnII showed low levels of sequence similarity (96.8%) between strain DCY116T and other closely related species. Strain DCY116T was Gram-stain negative, motile by peritrichous flagella, rod-shaped, strictly aerobic, catalase- and oxidase-positive. Q-10 was the predominant ubiquinone. The major cellular fatty acids were identified as C16:0 and summed feature 8 (C18:1 ω7c and/or C18:1 ω6c). The major polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, and an unknown lipid (L1-3). Genomic DNA G + C content of strain DCY116T was determined to be 57.2 mol%. DNA–DNA homology values between strain DCY116T and closely related species of the genus Rhizobium were lower than 40%. Strain DCY116T produced indole-3-acetic acid, siderophores, and was able to solubilize phosphate as a potential plant growth promoting bacterium. In conclusion, the results of this study support strain DCY116T as a novel species of the genus Rhizobium, for which the name Rhizobium panacihumi is proposed. The type strain is DCY116T (= KCTC 62017T = JCM 32251T).

Keywords

Rhizobium panacihumi Ginseng-cultivated soil Plant growth promoting bacterium 

Notes

Acknowledgements

This study was supported by a grant from the Korea Institute of Planning & Evaluation for Technology in Food, Agriculture, Forestry & Fisheries (KIPET NO: 317007-3), Republic of Korea.

Compliance with ethical standards

Conflict of interest

The authors declare that they have no conflict of interest.

Supplementary material

203_2018_1578_MOESM1_ESM.pdf (501 kb)
Fig. S1. Maximum-likelihood phylogenetic tree based on 16S rRNA gene sequences (1417 bp), showing the taxonomic position of strain DCY116T in the genus Rhizobium. Bootstrap values > 50% based on 1000 replications are shown at branching points. Novosphingobium panipatense SM16T (EF424402) was used as an outgroup. Bar, 0.01 substitutions per nucleotide position. Fig. S2. Neighbor-joining phylogenetic tree based on atpD (a), recA (b) and glnII (c) genes sequences (440, 452 and 608 bp), showing the taxonomic position of strain DCY116T in the genus Rhizobium. Bootstrap values >50% based on 1000 replications are shown at branching points. Bars, 0.1 substitutions per nucleotide position. Fig. S3. Two-dimensional TLC of the total lipids of strain DCY116T (a) and Rhizobium yantingense LMG 28229T (b) stained with 5% ethanolic molybdophosphoric acid. DPG, diphosphatidylglycerol; PE, phosphatidylethanolamine; AL1-2, unidentified aminolipids; L1-7, unidentified polar lipids. Table S1. Sequence similarities (%) for 16S rRNA, atpD, recA, and glnII genes among strains of the novel and reference strains. Table S2. Negative characteristics of strain DCY116T in API ZYM, API 20NE, and API ID 32GN tests (PDF 500 KB)
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Copyright information

© Springer-Verlag GmbH Germany, part of Springer Nature 2018

Authors and Affiliations

  1. 1.Department of Oriental Medicinal BiotechnologyKyung Hee UniversityYonginRepublic of Korea
  2. 2.Graduate School of Biotechnology, College of Life SciencesKyung Hee UniversityYonginRepublic of Korea

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