1887

Abstract

A novel Gram-stain-negative, rod-shaped, aerobic, oxidase-positive and catalase-positive bacterium of the genus , designated strain E2-1, was isolated from surface water of Jiulong River Estuary, PR China. Cells of strain E2-1 grew in medium containing 0.5–12 % NaCl (w/v; optimum, 2–4 %), at 15–45 °C (optimum, 28–33 °C) and at pH 7.0–9.0 (optimum, pH 7.0–8.0). Comparative analyses of the 16S rRNA gene sequence revealed that strain E2-1 had the highest similarity to JLT1210 (97.3 %) and HTCC2597 (97.1 %), and had less than 97.0 % 16S rRNA gene sequence similarity to other type strains within the genus . The DNA G+C content of strain E2-1 was 65.7 mol%. The average nucleotide identity and digital DNA–DNA hybridization relatedness values between E2-1 and related type strains were 75.0 and 20.1 % with JLT1210 and 75.6 and 20.4 % with HTCC2597, respectively. The sole isoprenoid quinone was Q-10; the predominant polar lipids were diphosphatidylglycerol, phosphatidylcholine, phosphatidylethanolamine, phosphatidylglycerol, three unidentified phospholipids and six unidentified lipids; the major cellular fatty acids were C (17.5 %), C cyclo 8 (22.7 %) and summed feature 8 (C 7C 6; 10.1 %). According to the phylogenetic and genotypic results, strain E2-1 represents a novel species in the genus , for which the name sp. nov. is proposed. The type strain is E2-1 (=MCCC 1K03742=KCTC 72107).

Funding
This study was supported by the:
  • Key Project of Chinese Ministry of Education (Award 113039A)
    • Principle Award Recipient: Hantao Zhou
  • National Science Fund (Award 31371988)
    • Principle Award Recipient: Hantao Zhou
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.004520
2020-10-15
2024-11-08
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/70/12/6220.html?itemId=/content/journal/ijsem/10.1099/ijsem.0.004520&mimeType=html&fmt=ahah

References

  1. Lai Q, Li G, Liu X, Du Y, Sun F et al. Pseudooceanicola atlanticus gen. nov. sp. nov., isolated from surface seawater of the Atlantic ocean and reclassification of Oceanicola batsensis, Oceanicola marinus, Oceanicola nitratireducens, Oceanicola nanhaiensis, Oceanicola antarcticus and Oceanicola flagellatus, as Pseudooceanicola batsensis comb. nov., Pseudooceanicola marinus comb. nov., Pseudooceanicola nitratireducens comb. nov., Pseudooceanicola nanhaiensis comb. nov., Pseudooceanicola antarcticus comb. nov., and Pseudooceanicola flagellatus comb. nov. Antonie van Leeuwenhoek 2015; 107:1065–1074 [View Article][PubMed]
    [Google Scholar]
  2. Huo YY, Li ZY, You H, Wang CS, Post AF et al. Oceanicola antarcticus sp. nov. and Oceanicola flagellatus sp. nov., moderately halophilic bacteria isolated from seawater. Int J Syst Evol Microbiol 2014; 64:2975–2979 [View Article][PubMed]
    [Google Scholar]
  3. Cho JC, Giovannoni SJ. Oceanicola granulosus gen. nov., sp. nov. and Oceanicola batsensis sp. nov., poly-beta-hydroxybutyrate-producing marine bacteria in the order 'Rhodobacterales'. Int J Syst Evol Microbiol 2004; 54:1129–1136 [View Article][PubMed]
    [Google Scholar]
  4. Huang MM, Guo LL, Wu YH, Lai QL, Shao ZZ et al. Pseudooceanicola lipolyticus sp. nov., a marine alphaproteobacterium, reclassification of Oceanicola flagellatus as Pseudooceanicola flagellatus comb. nov. and emended description of the genus Pseudooceanicola . Int J Syst Evol Microbiol 2018; 68:409–415 [View Article][PubMed]
    [Google Scholar]
  5. Lin KY, Sheu SY, Chang PS, Cho JC, Chen WM. Oceanicola marinus sp. nov., a marine alphaproteobacterium isolated from seawater collected off Taiwan. Int J Syst Evol Microbiol 2007; 57:1625–1629 [View Article][PubMed]
    [Google Scholar]
  6. Gu J, Guo B, Wang YN, Yu SL, Inamori R et al. Oceanicola nanhaiensis sp. nov., isolated from sediments of the South China Sea. Int J Syst Evol Microbiol 2007; 57:157–160 [View Article][PubMed]
    [Google Scholar]
  7. Zheng Q, Chen C, Wang YN, Jiao N. Oceanicola nitratireducens sp. nov., a marine alphaproteobacterium isolated from the South China Sea. Int J Syst Evol Microbiol 2010; 60:1655–1659 [View Article][PubMed]
    [Google Scholar]
  8. Yin Q, Song Z-M, Liang J, Wang Y, Zheng X et al. Pseudooceanicola onchidii sp. nov., isolated from a marine invertebrate from the South China Sea. Int J Syst Evol Microbiol 2020; 70:1224–1230 [View Article][PubMed]
    [Google Scholar]
  9. Lyu L, Lai Q, Li J, Shao Z, Yu Z. Pseudooceanicola pacificus sp. nov., isolated from deep-sea sediment of the Pacific Ocean. Int J Syst Evol Microbiol 2020; 70:4372–4377 [View Article][PubMed]
    [Google Scholar]
  10. DeLong EF. Archaea in coastal marine environments. Proc Natl Acad Sci U S A 1992; 89:5685–5689 [View Article][PubMed]
    [Google Scholar]
  11. Kim OS, Cho YJ, Lee K, Yoon SH, Kim M et al. Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. Int J Syst Evol Microbiol 2012; 62:716–721 [View Article][PubMed]
    [Google Scholar]
  12. Thompson JD, Higgins DG, Gibson TJ. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 1994; 22:4673–4680 [View Article][PubMed]
    [Google Scholar]
  13. Kumar S, Stecher G, Tamura K. MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol Biol Evol 2016; 33:1870–1874 [View Article]
    [Google Scholar]
  14. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987; 4:406–425 [View Article][PubMed]
    [Google Scholar]
  15. Kimura M. A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 1980; 16:111–120 [View Article][PubMed]
    [Google Scholar]
  16. Rzhetsky A, Nei M. A simple method for estimating and testing minimum evolution trees. Mol Biol Evol 1992; 9:945–967
    [Google Scholar]
  17. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985; 39:783–791 [View Article][PubMed]
    [Google Scholar]
  18. Luo R, Liu B, Xie Y, Li Z, Huang W et al. SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler. Gigascience 2012; 1:6 [View Article][PubMed]
    [Google Scholar]
  19. Yoon SH, Ha SM, Lim J, Kwon S, Chun J. A large-scale evaluation of algorithms to calculate average nucleotide identity. Antonie van Leeuwenhoek 2017; 110:1281–1286 [View Article][PubMed]
    [Google Scholar]
  20. Meier-Kolthoff JP, Auch AF, Klenk H-P, Göker M. Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinformatics 2013; 14:60 [View Article][PubMed]
    [Google Scholar]
  21. Komagata K, Suzuki K. Lipid and cell-wall analysis in bacterial systematics. Methods in Microbiology 1987; 19:161–207
    [Google Scholar]
  22. Cao J, Lai Q, Li G, Shao Z. Pseudopedobacter beijingensis gen. nov., sp. nov., isolated from coking wastewater activated sludge, and reclassification of Pedobacter saltans as Pseudopedobacter saltans comb. nov. Int J Syst Evol Microbiol 2014; 64:1853–1858 [View Article][PubMed]
    [Google Scholar]
  23. Sasser M. Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids, MIDI Technical Note 101. Newark, DE: MIDI Inc; 1990
    [Google Scholar]
  24. Richter M, Rosselló-Móra R. Shifting the genomic gold standard for the prokaryotic species definition. Proc Natl Acad Sci U S A 2009; 106:19126–19131 [View Article][PubMed]
    [Google Scholar]
  25. Wayne LG, Moore WEC, Stackebrandt E, Kandler O, Colwell RR et al. Report of the ad hoc Committee on reconciliation of approaches to bacterial systematics. Int J Syst Evol Microbiol 1987; 37:463–464 [View Article]
    [Google Scholar]
/content/journal/ijsem/10.1099/ijsem.0.004520
Loading
/content/journal/ijsem/10.1099/ijsem.0.004520
Loading

Data & Media loading...

Supplements

Supplementary material 1

PDF
This is a required field
Please enter a valid email address
Approval was a Success
Invalid data
An Error Occurred
Approval was partially successful, following selected items could not be processed due to error