A novel UV-resistant bacterium Sphingomonas endolithica sp. nov., and genomic analysis, isolated from the north slope of Mount Everest

Mao Tian; Wei Zhang; Gaosen Zhang; Ali Bahadur; Shiyu Wu; Xue Yu; Yujie Wu; Puchao Jia; Tuo Chen; Guangxiu Liu

doi:10.1007/s10482-023-01903-3

A novel UV-resistant bacterium Sphingomonas endolithica sp. nov., and genomic analysis, isolated from the north slope of Mount Everest

Antonie Van Leeuwenhoek. 2023 Dec 28;117(1):5. doi: 10.1007/s10482-023-01903-3.

Authors

Mao Tian^{1

2

3}, Wei Zhang^{4

5}, Gaosen Zhang^{2

6}, Ali Bahadur^{1

2

3}, Shiyu Wu^{1

2

3}, Xue Yu^{2

3

6}, Yujie Wu^{1

2

3}, Puchao Jia^{2

3

6}, Tuo Chen^{1

2}, Guangxiu Liu^{1

2}

Affiliations

¹ State Key Laboratory of Cryospheric Sciences, Northwest Institute of Eco-Environment and Resources, Chinese Academy of Sciences, Lanzhou, 730000, Gansu Province, China.
² Key Laboratory of Extreme Environmental Microbial Resources and Engineering, Lanzhou, 730000, Gansu Province, China.
³ University of Chinese Academy of Sciences, Beijing, 100049, China.
⁴ Key Laboratory of Extreme Environmental Microbial Resources and Engineering, Lanzhou, 730000, Gansu Province, China. ziaoshen@163.com.
⁵ Key Laboratory of Desert and Desertification, Northwest Institute of Eco-Environment and Resources, Chinese Academy of Sciences, 320 Donggang West Road, Lanzhou, 730000, Gansu Province, China. ziaoshen@163.com.
⁶ Key Laboratory of Desert and Desertification, Northwest Institute of Eco-Environment and Resources, Chinese Academy of Sciences, 320 Donggang West Road, Lanzhou, 730000, Gansu Province, China.

PMID: 38153511
DOI: 10.1007/s10482-023-01903-3

Abstract

Gram-stain-negative, aerobic, rod-shaped, non-motile bacterium strain ZFBP2030^T was isolated from a rock on the North slope of Mount Everest. This strain contained a unique ubiquinone-10 (Q-10) as a predominant respiratory quinone. Among the tested fatty acids, the strain contained summed feature 8, C_14:0 2OH, and C_16:0, as major cellular fatty acids. The polar lipid profile contained phosphatidyl glycerol, phosphatidyl ethanolamine, three unidentified phospholipids, two unidentified aminolipids, and six unidentified lipids. The cell-wall peptidoglycan was a meso-diaminopimelic acid, and cell-wall sugars were ribose and galactose. Phylogenetic analyses based on 16S rRNA gene sequence revealed that strain ZFBP2030^T was a member of the genus Sphingomonas, exhibiting high sequence similarity to the 16S rRNA gene sequences of Sphingomonas aliaeris DH-S5^T (97.9%), Sphingomonas alpina DSM 22537^T (97.3%) and Sphingomonas hylomeconis CCTCC AB 2013304^T (97.0%). The 16S rRNA gene sequence similarity between ZFBP2030^T and other typical strains was less than 97.0%. The average amino acid identity values, average nucleotide identity, and digital DNA-DNA hybridization values between strain ZFBP2030^T and its highest sequence similarity strains were 56.9-79.9%, 65.1-82.2%, and 19.3-25.8%, respectively. The whole-genome size of the novel strain ZFBP2030^T was 4.1 Mbp, annotated with 3838 protein-coding genes and 54 RNA genes. Moreover, DNA G + C content was 64.7 mol%. Stress-related functions predicted in the subsystem classification of the strain ZFBP2030^T genome included osmotic, oxidative, cold/heat shock, detoxification, and periplasmic stress responses. The overall results of this study clearly showed that strain ZFBP2030^T is a novel species of the genus Sphingomonas, for which the name Sphingomonas endolithica sp. nov. is proposed. The type of strain is ZFBP2030^T (= EE 013^T = GDMCC 1.3123^T = JCM 35386^T).

Keywords: Genome analysis; Mount Everest; New species; Polyphasic taxonomy; Sphingomonas endolithica.

MeSH terms

Bacteria
DNA
Fatty Acids
Genomics
Phylogeny
RNA, Ribosomal, 16S / genetics
Sphingomonas* / genetics

Substances

RNA, Ribosomal, 16S
Fatty Acids
DNA

Abstract

MeSH terms

Substances

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