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Rubellimicrobium rubrum sp. nov., a novel bright reddish bacterium isolated from a lichen sample

  • Long-Qian Jiang
  • Kun Zhang
  • Gui-Ding Li
  • Xin-Yu Wang
  • Song-Biao Shi
  • Qin-Yuan Li
  • De-Feng An
  • Lei Lang
  • Li-Song Wang
  • Cheng-Lin Jiang
  • Yi JiangEmail author
Original Paper
  • 82 Downloads

Abstract

A novel strain, YIM 131921T, was isolated from a Physcia sp. lichen collected from the South Bank Forest of the Baltic Sea. The strain is Gram-negative, catalase positive and oxidase negative, strictly aerobic, asporogenous, non-motile and reddish brown in colour. The temperature and pH for growth were found to be 20–30 °C (optimum 28 °C) and pH 6.5–12.0 (optimum pH 7.0 ± 0.5). No growth was observed in the presence of NaCl. Based on 16S rRNA gene sequence similarity, strain YIM 131921T shares high similarities with Rubellimicrobium roseum YIM 48858T (98.3%), followed by Rubellimicrobium mesophilum MSL-20T (96.8%), Rubellimicrobium aerolatum 5715S-9T (96.1%) and Rubellimicrobium thermophilum DSM 16684T (96.0%). Phylogenetic trees showed YIM 131921T forms a cluster with type strains of the genus Rubellimicrobium. The predominant cellular fatty acids (> 20%) were identified as summed feature 8 (C18:1ω7c) and C16:0. Q-10 was found to be the predominant respiratory ubiquinone. The polar lipids were identified as diphosphatidylglycerol, phosphatidylglycerol, phosphatidylcholine, glycolipid, phospholipids and an unidentified aminolipid. The DNA G + C content of the draft genome sequence is 66.6 mol%. Strain YIM 131921T showed an average nucleotide identity value of 80.3% and a digital DNA–DNA hybridizations value of 26.1% with the reference strain R. roseum YIM 48858T based on draft genome sequences. Based on comparative analyses of phenotypic, molecular, chemotaxonomic data and genomic comparisons, strain YIM 131921T is concluded to represent a novel species of the genus Rubellimicrobium, for which the name Rubellimicrobium rubrum sp. nov. is proposed. The type strain is YIM 131921T (= CGMCC 1.13958T = NBRC 114054T = KCTC 72461T).

Keywords

Rubellimicrobium rubrum New species Physcia sp. lichen 16S rRNA gene Draft genome sequences 

Notes

Acknowledgements

Funding was provided by National Natural Science Foundation of China (31460005).

Author contributions

L-QJ: performed the experiments and wrote the manuscript; X-YW: collected the lichen samples; KZ and G-DL: analysed the data; S-BS and Q-YL: performed the study; D-FA and LL: analysed the data; L-SW: identified the lichen samples; YJ: guided the experiments and revised the manuscript; C-LJ: designed the study.

Compliance with ethical standards

Conflict of interest

The authors declare no conflict of interest.

Ethical standards

This article does not contain any studies with human participants and/or animals performed by any of the authors.

Supplementary material

10482_2019_1304_MOESM1_ESM.docx (224 kb)
Supplementary material 1 (DOCX 224 kb)

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Copyright information

© Springer Nature Switzerland AG 2019

Authors and Affiliations

  1. 1.Yunnan Institute of Microbiology, Key Laboratory for Conservation and Utilization of Bio-Resource, School of Life SciencesYunnan UniversityKunmingPeople’s Republic of China
  2. 2.Institute of Microbial PharmaceuticalsNortheastern UniversityShenyangPeople’s Republic of China
  3. 3.Key Lab for Plant Diversity and Biogeography of East Asia, Kunming Institute of BotanyChinese Academy of SciencesKunmingPeople’s Republic of China
  4. 4.School of Chemistry and Chemical Engineering, Guangxi Key Laboratory of Chemistry and Engineering of Forest ProductsGuangxi University for NationalitiesNanningPeople’s Republic of China

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