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Nocardioides flava sp. nov., isolated from rhizosphere of poppy plant, Republic of Korea

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Abstract

Phylogenetic and taxonomic characterization was performed for bacterium, designated strain THG-DN5.4T, isolated from the rhizosphere of poppy plant collected from Gyeryongsan, Republic of Korea. Strain THG-DN5.4T consists of Gram-stain-positive, aerobic, non-motile rods. The bacteria grow optimally at 18–30 °C, at pH 7.0 and in the presence of 0.5–1.0 % NaCl. Based on 16S rRNA gene sequence analysis, strain THG-DN5.4T was found to be most closely related to Nocardioides nitrophenolicus KCTC 047BPT, followed by Nocardioides ginsengisoli KCTC 19135T, Nocardioides kongjuensis KCTC 19054T, Nocardioides simplex KACC 20620T, Nocardioides aromaticivorans KACC 20613T, Nocardioides daeguensis KCTC 19799T and Nocardioides caeni KCTC 19600T. The DNA–DNA relatedness between strain THG-DN5.4T and closely related phylogenetic neighbors was below 45.0 %, and the DNA G+C content of strain THG-DN5.4T was 70.8 mol%. An isoprenoid quinone was identified as MK-8(H4). Strain THG-DN5.4T was characterized chemotaxonomically as having ll-diaminopimelic acid in the cell-wall peptidoglycan. The polar lipids were identified as diphosphatidylglycerol, phosphatidylglycerol, some unidentified aminolipids and some unidentified polar lipids. iso-C16:0 and C18:1 ω9c were identified as the major fatty acids present in THG-DN5.4T. On the basis of a polyphasic taxonomic study, strain THG-DN5.4T is considered to represent a novel species of the genus Nocardioides, for which the name Nocardioides flava sp. nov. is proposed. The type strain is THG-DN5.4T (=KCTC 39606T=CCTCC AB 2015298T).

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Acknowledgments

This work was conducted under the industrial infrastructure program (No. N0000888) for fundamental technologies which is funded by the Ministry of Trade, Industry and Energy (MOTIE, Korea).

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Authors and Affiliations

  1. Department of Oriental Medicine Biotechnology, College of Life Science, Kyung Hee University Global Campus, 1732 Deokyoungdaero, Giheung-gu, Yongin-si, Gyeonggi-do, 446-701, Republic of Korea

    Hina Singh

  2. Acupuncture Meridian Science Research Center, College of Korean Medicine, Kyung Hee University Seoul Campus, #1 Hoegi-dong, Dongdaemun-gu, Seoul, 130-701, Republic of Korea

    Chang Shik Yin

Authors
  1. Hina Singh
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  2. Chang Shik Yin
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Correspondence to Chang Shik Yin.

Additional information

Communicated by Erko Stackebrandt.

The NCBI GenBank accession number for the 16S rRNA gene sequence of strain THG-DN5.4T is KM035951.

Electronic supplementary material

Below is the link to the electronic supplementary material.

203_2015_1178_MOESM1_ESM.pdf

Supplementary Fig. S1. Transmission electron micrographs of Nocardioides flava THG-DN5.4T. Bar indicated 200 nm (PDF 210 kb)

203_2015_1178_MOESM2_ESM.pdf

Supplementary Fig. S2. Maximum-likelihood phylogenetic tree based on 16S rRNA gene sequences showing the position of strain THG-DN5.4T with other member of Nocardioides species. Bootstrap values > 50 % based on 1000 replications are shown at branching points, 0.1 substitutions per nucleotide position (PDF 18 kb)

203_2015_1178_MOESM3_ESM.pdf

Supplementary Fig. S3. Two-dimensional TLC of the total polar lipids of strain THG-DN5.4T stained for total polar lipids with 5 % ethanolic molybdophosphoric acid. Abbreviations: DPG, diphosphatidylglycerol; PG, phosphatidylglycerol; AL1, AL2 and AL3, unidentified aminolipids; and L1 and L2, unidentified lipids (PDF 12 kb)

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Singh, H., Yin, C.S. Nocardioides flava sp. nov., isolated from rhizosphere of poppy plant, Republic of Korea. Arch Microbiol 198, 279–285 (2016). https://doi.org/10.1007/s00203-015-1178-0

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