Skip to main content
SpringerLink
Log in

Tepidiphilus baoligensis sp. nov., a Novel Bacterium of the Family Hydrogenophilaceae Isolated from an Oil Reservoir

  • Published:
Current Microbiology Aims and scope Submit manuscript

Abstract

A Gram-negative, aerobic, motile, non-spore-forming and rod-shaped bacterium, designated strain B18-69 T, was isolated from oil-well production liquid in Baolige oilfield, China. The strain was able to grow at pH 6–9.5 (optimum at pH 7), in 0–4% (w/v) NaCl (optimum at 0.5–1%, w/v) and at 35–60 °C (optimum at 55 °C). Major cellular fatty acids were C16:0, C19:0 cyclo ω8c, C17:0 cyclo and C18:1 ω7c. The predominant respiratory quinone was ubiquinone 8. Major polar lipids were phosphatidylethanolamine (PE), phosphatidylglycerol (PG), diphosphatidylglycerol (DPG) and phosphatidylcholine (PC). Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain B18-69 T was most closely related to Tepidiphilus margaritifer DSM 15129 T (98.8% similarity). The draft genome of strain B18-69 T was composed of 2,250,419 bp, and the G+C content was 64.6 mol%. Average nucleotide identity (ANI) and digital DNA–DNA hybridization (dDDH) values between strain B18-69 T and T. margaritifer DSM 15129 T were 90.9% and 68.9%, respectively. Genotypic and phenotypic features indicate that strain B18-69 T represents a novel species of the genus Tepidiphilus, for which the name Tepidiphilus baoligensis sp. nov. is proposed. The type strain is B18-69 T (= CGMCC 1.13573 T = KCTC 62782 T).

This is a preview of subscription content, log in via an institution to check access.

Access this article

Log in via an institution

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Institutional subscriptions

Fig. 1
Fig. 2

Similar content being viewed by others

Data Availability

The GenBank accession numbers for the 16S rRNA gene sequence and the draft genome of strain B18-69T are MH209249 and JAAAUB000000000, respectively.

Abbreviations

dDDH:

Digital DNA–DNA hybridization

GGDC:

Genome-to-genome distance calculation

ANI:

Average nucleotide identity

ML:

Maximum-likelihood

MP:

Maximum-parsimony

NJ:

Neighbor-joining

DPG:

Diphosphatidylglycerol

PC:

Phosphatidylcholine

PE:

Phosphatidylethanolamine

PG:

Phosphatidylglycerol

HPLC:

High-performance liquid chromatography

TSA:

Tryptic soy agar

CHES:

2-(Cyclohexylamino)ethanesulfonic acid

MES:

2-(N-Morpholino)ethanesulfonic acid

MOPS:

3-(N-Morphine)propanesulfonic acid

TAPS:

N-Tris(hydroxymethyl)methyl-3-aminopropanesulfonic acid

References

  1. Manaia CM, Nogales B, Nunes OC (2003) Tepidiphilus margaritifer gen. nov., sp. nov., isolated from a thermophilic aerobic digester. Int J Syst Evol Microbiol 53:1405–1410

    Article  CAS  Google Scholar 

  2. Poddar A, Lepcha RT, Das SK (2014) Taxonomic study of the genus Tepidiphilus: transfer of Petrobacter succinatimandens to the genus Tepidiphilus as Tepidiphilus succinatimandens comb. nov., emended description of the genus Tepidiphilus and description of Tepidiphilus thermophilus sp. nov., isolated from a terrestrial hot spring. Int J Syst Evol Microbiol 64:228–235

    Article  CAS  Google Scholar 

  3. Salinas MB, Fardeau ML, Cayol JL, Casalot L, Patel BKC, Thomas P, Garcia JL, Ollivier B (2004) Petrobacter succinatimandens gen. nov., sp. nov., a moderately thermophilic, nitrate-reducing bacterium isolated from an Australian oil well. Int J Syst Evol Microbiol 54:645–649

    Article  CAS  Google Scholar 

  4. Kieft TL, Fredrickson JK, Onstott TC, Gorby YA, Kostandarithes HM, Bailey TJ, Kennedy DW, Li SW, Plymale AE, Spadoni CM, Gray MS (1999) Dissimilatory reduction of Fe(III) and other electron acceptors by a Thermus isolate. Appl Environ Microbiol 65:1214–1221

    Article  CAS  Google Scholar 

  5. Gerhardt P, Murray RGE, Costilow RN, Nester EW, Wood WA, Krieg NR, Phillips GB (1981) Manual of methods for general bacteriology. American Society for Microbiology, Washington, DC

    Google Scholar 

  6. Dong XZ, Cai MY (2001) Determinative manual for routine bacteriology. Scientific, Beijing (in Chinese)

    Google Scholar 

  7. Degryse E, Glansdorff N, Pierard A (1978) A comparative analysis of extreme thermophilic bacteria belonging to the genus Thermus. Arch Microbiol 117:189–196

    Article  CAS  Google Scholar 

  8. Collins MD, Pirouz T, Goodfellow M, Minnikin DE (1977) Distribution of menaquinones in actinomycetes and corynebacteria. J Gen Microbiol 100:221–230

    CAS  Google Scholar 

  9. Minnikin DE, Collins MD, Goodfellow M (1979) Fatty acid and polar lipid composition in the classification of Cellulomonas, Oerskovia and related taxa. J Appl Bacteriol 47:87–95

    Article  CAS  Google Scholar 

  10. Marmur J (1961) A procedure for the isolation of deoxyribonucleic acid from micro-organisms. J Mol Biol 3:208–218

    Article  CAS  Google Scholar 

  11. Lane DJ (1991) 16S/23S rRNA sequencing. In: Stackebrandt E, Goodfellow M (eds) Nucleic acid techniques in bacterial systematics. Wiley, Chichester, pp 115–175

    Google Scholar 

  12. Yoon SH, Ha SM, Kwon S, Lim J, Kim Y, Seo H, Chun J (2017) Introducing EzBioCloud: A taxonomically united database of 16S rRNA and whole genome assemblies. Int J Syst Evol Microbiol 67:1613–1617

    Article  CAS  Google Scholar 

  13. Kumar S, Stecher G, Tamura K (2016) MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol Biol Evol 33:1870-1874

    Article  CAS  Google Scholar 

  14. Luo R, Liu B, Xie Y, Li Z, Huang W, Yuan J, He G, Chen Y, Pan Q, Liu Y, Tang J, Wu G, Zhang H, Shi Y, Liu Y, Yu C, Wang B, Lu Y, Han C, Cheung DW, Yiu SM, Peng S, Xiaoqian Z, Liu G, Liao X, Li Y, Yang H, Wang J, Lam TW, Wang J (2012) SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler. Gigascience 1:18

    Article  Google Scholar 

  15. Tatusova T, DiCuccio M, Badretdin A, Chetvernin V, Nawrocki EP, Zaslavsky L, Lomsadze A, Pruitt KD, Borodovsky M, Ostell J (2016) NCBI prokaryotic genome annotation pipeline. Nucleic Acids Res 44:6614–6624

    Article  CAS  Google Scholar 

  16. Yoon SH, Ha SM, Lim JM, Kwon SJ, Chun J (2017) A large-scale evaluation of algorithms to calculate average nucleotide identity. Antonie Van Leeuwenhoek 110:1281–1286

    Article  CAS  Google Scholar 

  17. Meier-Kolthoff JP, Göker M (2019) TYGS is an automated high-throughput platform for state-of-the-art genome-based taxonomy. Nat Commun 10:2182

    Article  Google Scholar 

  18. Meier-Kolthoff JP, Auch AF, Klenk HP, Göker M (2013) Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinform 14:60–73

    Article  Google Scholar 

  19. Chun J, Oren A, Ventosa A, Christensen H, Arahal DR, da Costa MS, Rooney AP, Yi H, Xu XW, Meyer SD, Trujillo ME (2018) Proposed minimal standards for the use of genome data for the taxonomy of prokaryotes. Int J Syst Evol Microbiol 68:461–466

    Article  CAS  Google Scholar 

Download references

Acknowledgements

This work was supported by the National Key R&D Program of China (2018YFA0902101) and the Huabei Oilfield Company (2017-HB-B19).

Author information

Authors and Affiliations

  1. State Key Laboratory of Microbial Resources, Institute of Microbiology, CAS, Beijing, 100101, China

    Xueying Zhang, Xiaochen Ma, Yanfen Xue & Yanhe Ma

  2. Engineering Technology Research Institute of Huabei Oilfield Company, Renqiu, 062552, China

    Guan Wang, Jiliang Yu & Jing You

  3. University of Chinese Academy of Sciences, Beijing, 100049, China

    Xueying Zhang

Authors
  1. Xueying Zhang
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. Guan Wang
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. Xiaochen Ma
    View author publications

    You can also search for this author in PubMed Google Scholar

  4. Jiliang Yu
    View author publications

    You can also search for this author in PubMed Google Scholar

  5. Jing You
    View author publications

    You can also search for this author in PubMed Google Scholar

  6. Yanfen Xue
    View author publications

    You can also search for this author in PubMed Google Scholar

  7. Yanhe Ma
    View author publications

    You can also search for this author in PubMed Google Scholar

Contributions

XZ and XM tested the phenotypic and chemotaxonomic characteristics. GW and JLY isolated the strain, and participated in the morphology investigation and the 16S rRNA gene and genome sequence. YX designed the tests, analyzed the data and prepared the manuscript. JY and YM conceived of the study and participated in the data analysis and paper writing. All authors approved the manuscript and its submission.

Corresponding author

Correspondence to Yanfen Xue.

Ethics declarations

Conflict of interest

The authors declare that no competing interests exist.

Ethical Statement

The authors declare that no ethical issues exist.

Additional information

Publisher's Note

Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.

Electronic supplementary material

Below is the link to the electronic supplementary material.

Supplementary file1 (DOCX 1851 kb)

Rights and permissions

Reprints and permissions

About this article

Check for updates. Verify currency and authenticity via CrossMark

Cite this article

Zhang, X., Wang, G., Ma, X. et al. Tepidiphilus baoligensis sp. nov., a Novel Bacterium of the Family Hydrogenophilaceae Isolated from an Oil Reservoir. Curr Microbiol 77, 1939–1944 (2020). https://doi.org/10.1007/s00284-020-01983-8

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s00284-020-01983-8

Search

Navigation