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Abstract

A rod-shaped, endospore-forming, aerobic bacterium, designated FJAT-46582, was isolated from a sediment sample of the coastal region in Xiapu County, Fujian Province in China. Growth was observed at 10–30 °C (optimum, 25 °C), in 0–7.0 % NaCl (0 %) and at pH 6.0–11.0 (pH 8.0), respectively. The cell-wall peptidoglycan contained meso-diaminopimelic acid and the isoprenoid quinone was MK-7. The main fatty acids were anteiso-C17 : 0 (26.5 %), anteiso-C15 : 0 (19.6 %), iso-C15 : 0 (14.4 %) and C16 : 0 (10.5 %). The main polar lipids were diphosphatidylglycerol, phosphatidylglycerol and phosphatidyl ethanolamine. Phylogenetic analysis based on 16S rRNA gene sequences affiliated strain FJAT-46582 with the genus Bacillus , and showed the highest sequence similarity to Bacillus thermotolerans SGZ-8 (97.6 %) and Bacillus ectoinformans (97.1 %). The average nucleotide identity and in silico DNA–DNA hybridization values between strain FJAT-46582 and the most closely related species were 72.3 and 22.9 %, respectively, which were much lower than the thresholds commonly used to define species (96 and 70 %, respectively) indicating that it belonged to a different taxon. The DNA G+C content was 44.2 mol%. The phenotypic characters and taxono-genomics study revealed that strain FJAT-46582 represents a novel Bacillus species, for which the name Bacillus xiapuensis sp. nov. is proposed. The type strain is FJAT-46582 (=JCM 33155=CCTCC AB 2017047).

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2019-04-04
2024-04-20
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References

  1. Ash C, Farrow JAE, Wallbanks S, Collins MD. Phylogenetic heterogeneity of the genus Bacillus revealed by comparative analysis of small-subunit-ribosomal RNA sequences. Lett Appl Microbiol 1991; 13:202–206 [View Article]
    [Google Scholar]
  2. Logan NA, De Vos P. Genus I. Bacillus. In De Vos P, Garrity G, Jones D, Krieg NR, Ludwig W et al. (editors) Bergey's Manual of Systematic Bacteriology vol. 3 New York: Springer; 2009 pp. 21–128
    [Google Scholar]
  3. Lai Q, Liu Y, Shao Z. Bacillus xiamenensis sp. nov., isolated from intestinal tract contents of a flathead mullet (Mugil cephalus). Antonie van Leeuwenhoek 2014; 105:99–107 [View Article][PubMed]
    [Google Scholar]
  4. Liu B, Liu GH, Hu GH, Chen MC. Bacillus mesonae sp. nov., isolated from the root of Mesona chinensis . Int J Syst Evol Microbiol 2014; 64:3346–3352 [View Article][PubMed]
    [Google Scholar]
  5. Liu B, Liu GH, Sengonca C, Schumann P, Che JM et al. Bacillus wuyishanensis sp. nov., isolated from rhizosphere soil of a medical plant, Prunella vulgaris . Int J Syst Evol Microbiol 2015; 65:2030–2035 [View Article][PubMed]
    [Google Scholar]
  6. Liu Y, Lai Q, Du J, Shao Z. Bacillus zhangzhouensis sp. nov. and Bacillus australimaris sp. nov. Int J Syst Evol Microbiol 2016; 66:1193–1199 [View Article][PubMed]
    [Google Scholar]
  7. Ramasamy D, Mishra AK, Lagier JC, Padhmanabhan R, Rossi M et al. A polyphasic strategy incorporating genomic data for the taxonomic description of novel bacterial species. Int J Syst Evol Microbiol 2014; 64:384–391 [View Article][PubMed]
    [Google Scholar]
  8. Gregersen T. Rapid method for distinction of gram-negative from gram-positive bacteria. Eur J Appl Microbiol Biotechnol 1978; 5:123–127 [View Article]
    [Google Scholar]
  9. Smibert RM, Krieg NR. Phenotypic characterization. In Gerhardt P, Murray RGE, Wood WA, Krieg NR. (editors) Methods for General and Molecular Bacteriology Washington, DC: American Society for Microbiology; 1994 pp. 607–654
    [Google Scholar]
  10. Murray RGE, Doetsch RN, Robinow CF. Determinative and cytological light microscopy. In Gerhardt P, Murray RGE, Wood WA, Krieg NR. (editors) Methods for General and Molecular Bacteriology American Society for Microbiology; Washington: 1994 pp. 21–41
    [Google Scholar]
  11. Chen YG, Cui XL, Pukall R, Li HM, Yang YL et al. Salinicoccus kunmingensis sp. nov., a moderately halophilic bacterium isolated from a salt mine in Yunnan, south-west China. Int J Syst Evol Microbiol 2007; 57:2327–2332 [View Article][PubMed]
    [Google Scholar]
  12. Yoon SH, Ha SM, Kwon S, Lim J, Kim Y et al. Introducing EzBioCloud: a taxonomically united database of 16S rRNA gene sequences and whole-genome assemblies. Int J Syst Evol Microbiol 2017; 67:1613–1617 [View Article][PubMed]
    [Google Scholar]
  13. Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG. The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 1997; 25:4876–4882 [View Article][PubMed]
    [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. Rzhetsky A, Nei M. A simple method for estimating and testing minimum evolution trees. Mol Biol Evol 1992; 9:945–967
    [Google Scholar]
  16. Tamura K, Nei M. Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees. Mol Biol Evol 1993; 10:512–526 [View Article][PubMed]
    [Google Scholar]
  17. Kumar S, Stecher G, Tamura K. MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger Datasets. Mol Biol and Evol 2016; 33:1870–1874 [View Article][PubMed]
    [Google Scholar]
  18. Nei M, Kumar S. Molecular Evolution and Phylogenetics New York: Oxford University Press; 2000
    [Google Scholar]
  19. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985; 39:783–791 [View Article][PubMed]
    [Google Scholar]
  20. Goris J, Konstantinidis KT, Klappenbach JA, Coenye T, Vandamme P et al. DNA-DNA hybridization values and their relationship to whole-genome sequence similarities. Int J Syst Evol Microbiol 2007; 57:81–91 [View Article][PubMed]
    [Google Scholar]
  21. Liu B, Gp H, Tang WQ. Characteristic of average nucleotide identity (ANI) based on the whole genomes from Bacillus species in Bacillus-like genus. Fujian J Agri Sci 2013; 28:833–843
    [Google Scholar]
  22. Auch AF, von Jan M, Klenk HP, Göker M. Digital DNA-DNA hybridization for microbial species delineation by means of genome-to-genome sequence comparison. Stand Genomic Sci 2010; 2:117–134 [View Article][PubMed]
    [Google Scholar]
  23. Meier-Kolthoff JP, Auch AF, Klenk HP, Göker M. Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinformatics 2013; 14:60 [View Article][PubMed]
    [Google Scholar]
  24. Wayne LG, Brenner DJ, Colwell RR, Grimont PAD, Kandler O et al. International Committee on Systematic Bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 1987; 37:463–464
    [Google Scholar]
  25. Collins MD, Pirouz T, Goodfellow M, Minnikin DE. Distribution of menaquinones in actinomycetes and corynebacteria. J Gen Microbiol 1977; 100:221–230 [View Article][PubMed]
    [Google Scholar]
  26. Groth I, Schumann P, Weiss N, Martin K, Rainey FA. Agrococcus jenensis gen. nov., sp. nov., a new genus of actinomycetes with diaminobutyric acid in the cell wall. Int J Syst Evol Microbiol 1996; 46:234–239 [View Article][PubMed]
    [Google Scholar]
  27. Schleifer KH. Analysis of the chemical composition and primary structure of murein. Methods Microbiol 1985; 18:123–156
    [Google Scholar]
  28. Minnikin DE, Collins MD, Goodfellow M. Fatty acid and polar lipid composition in the classification of Cellulomonas, Oerskovia and related taxa. J Appl Bacteriol 1979; 47:87–95 [View Article]
    [Google Scholar]
  29. Sasser M. Identification of bacteria by gas chromatography of cellular fatty acids. USFCC News 1990; 20:16
    [Google Scholar]
  30. Kämpfer P. Limits and possibilities of total fatty acid analysis for classification and identification of Bacillus Species. Syst Appl Microbiol 1994; 17:86–98 [View Article]
    [Google Scholar]
  31. Zhu D, Zhang P, Niu L, Xie C, Li P et al. Bacillus ectoiniformans sp. nov., a halotolerant bacterium isolated from deep-sea sediments. Int J Syst Evol Microbiol 2016; 66:616–622 [View Article][PubMed]
    [Google Scholar]
  32. Sharma A, Dhar SK, Prakash O, Vemuluri VR, Thite V et al. Description of Domibacillus indicus sp. nov., isolated from ocean sediments and emended description of the genus Domibacillus . Int J Syst Evol Microbiol 2014; 64:3010–3015 [View Article][PubMed]
    [Google Scholar]
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