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Sphingobium soli sp. nov. isolated from rhizosphere soil of a rose

Antonie van Leeuwenhoek volume 108, pages 1091–1097 (2015)Cite this article

Abstract

Strain THG-SQA7T, a Gram-negative, strictly aerobic, non-motile, rod-shaped bacterium was isolated from rhizosphere soil of a rose in PR China. Strain THG-SQA7T is closely related to the members of the genus Sphingobium, showing the highest 16S rRNA gene sequence similarities with Sphingobium lactosutens KACC 18100T (98.2 %) and Sphingobium abikonense KCTC 2864T (98.1 %). The DNA–DNA relatedness between strain THG-SQA7T and S. lactosutens KACC 18100T and S. abikonense KCTC 2864T was 26.2 ± 0.9 and 28.3 ± 1.2 %, respectively. Chemotaxonomic data showed that strain THG-SQA7T possesses ubiquinone Q-10 as the predominant respiratory quinone, and C18:1 ω7c, C16:0, summed feature 3 (C16:1 ω7c and/or C16:1 ω6c) and C14:0 2OH as the major fatty acids. The major polar lipids were found to be phosphatidylethanolamine, phosphatidylmonomethylethanolamine, phosphatidylglycerol, sphingoglycolipid, diphosphatidylglycerol and phosphatidyldimethylethanolamine. Based on these results, together with phenotypic characterization, a novel species, Sphingobium soli sp. nov. is proposed.with the type strain is THG-SQA7T (=CCTCC AB 2015125T = KCTC 42607T).

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Authors and Affiliations

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

    Juan Du, Hina Singh & Tae-Hoo Yi

  2. Graduate School of Biotechnology, Kyung Hee University, Yongin-si, Gyeonggi-do, Republic of Korea

    Jung-Eun Yang & Tae-Hoo Yi

  3. Department of Acupuncture Meridian Science Research Center, College of Korean Medicine, Kyung Hee University Global Campus, Yongin-si, Republic of Korea

    Chang Shik Yin

  4. Department of Marine Biotechnology, Anyang University, Incheon, 417-833, Republic of Korea

    MooChang Kook

  5. College of Bio and Food Technology, Dalian Polytechnic University, Qinggong-yuan No. 1, Ganjingzi-qu, Dalian, 116034, People’s Republic of China

    Hongshan Yu

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  1. Juan Du
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  2. Hina Singh
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  3. Jung-Eun Yang
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Correspondence to Tae-Hoo Yi.

Additional information

The NCBI GenBank accession number for the 16S rRNA gene sequence of strain THG-SQA7T is KM598233.

Electronic supplementary material

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10482_2015_562_MOESM1_ESM.pdf

Supplementary material 1 (PDF 96 kb). Supplementary Fig. S1. Maximum-likelihood tree based on 16S rRNA gene sequence analysis showing phylogenetic relationships between strain THG-SQA7T and related members of the genus Sphingobium. Numbers at nodes (over 50 % are shown) represent percentages of bootstrap support based on a maximum-likelihood analysis of 1000 resampled datasets

10482_2015_562_MOESM2_ESM.pdf

Supplementary material 2 (PDF 68 kb). Supplementary Fig. S2. Transmission electron micrograph of cells of THG-SQA7T. The detection was performed after negative staining with uranyl acetate. Bar, 0.5 µm

10482_2015_562_MOESM3_ESM.pdf

Supplementary material 3 (PDF 97 kb). Supplementary Fig. S3. Two-dimensional TLC of polar lipids of THG-SQA7T (a1, a2, a3 and a4) and S. abikonense KCTC 2864T (b). a1 and b: Total lipids detected by spraying with 5 % molybdatophosphoric acid for THG-SQA7T and S. abikonense KCTC 2864T, respectively; a2: aminolipids revealed by 0.2 % ninhydrin; a3: phospholipids detected by spraying with molybdenum blue; a4: glycolipids detected by spraying with α-naphthol-sulphuric acid. Abbreviations: phosphatidylethanolamine (PE), phosphatidylmonomethylethanolamine (PME), phosphatidyldimethylethanolamine (PDE), diphosphatidylglycerol (DPG), phosphatidylglycerol (PG), sphingoglycolipid (SGL), unidentified lipids (L1–4), unidentified phospholipid (PL) and unidentified aminolipid (AL)

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Du, J., Singh, H., Yang, JE. et al. Sphingobium soli sp. nov. isolated from rhizosphere soil of a rose. Antonie van Leeuwenhoek 108, 1091–1097 (2015). https://doi.org/10.1007/s10482-015-0562-8

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Keywords

  • Sphingobium soli
  • Ubiquinone-10
  • 16S rRNA