1887

Abstract

Two rod-shaped, slightly halophilic and extremely halotolerant bacterial strains (X-1125 and X-1174), which were Gram-stain-positive, facultatively anaerobic and motile with peritrichous flagella, were isolated from the faeces of Tibetan antelopes. Their optimal temperature, NaCl concentration and pH for growth were 28 °C, 3 % (w/v) NaCl and pH 7.5, respectively. Based on the results of 16S rRNA gene sequences, and phylogenetic and phylogenomic analyses, their nearest phylogenetic neighbours were Paraliobacillussediminis KCTC 33762 (98.4 % similarity), Paraliobacillusquinghaiensis CGMCC 1.6333 (96.9 %) and Paraliobacillusryukyuensis NBRC 100001 (95.9 %) while the 16S rRNA genes of strains X-1125 and X-1174 were highly similar (99.7 %) to each other. The polar lipids comprised diphosphatidylglycerol, two unidentified phospholipids and four unidentified lipids. MK-7 was the sole menaquinone (100 %). The cell wall contained alanine, glycine, glutamic acid and meso-diaminopimelic acid. The major fatty acids (>9 %) were anteiso-C15 : 0, anteiso-C17 : 0 and C16 : 1ω11c. The in silico DNA–DNA hybridization value between strains X-1125 and X-1174 was 97.8 % (well above the species threshold), but their values were lower than the 70 % threshold with the three closely related type strains. Strains X-1125 and X-1174 had DNA G+C contents (mol%) of 35.2 and 35.1 %, respectively. Based on the presented data, strains X-1125 and X-1174 hereby represent a novel species of the genus Paraliobacillus , for which the name Paraliobacillus zengyii sp. nov. is proposed. The type strain is X-1125 (=DSM 107811=CGMCC 1.16464).

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2019-03-12
2024-03-29
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References

  1. Ishikawa M, Ishizaki S, Yamamoto Y, Yamasato K. Paraliobacillus ryukyuensis gen. nov., sp. nov., a new Gram-positive, slightly halophilic, extremely halotolerant, facultative anaerobe isolated from a decomposing marine alga. J Gen Appl Microbiol 2002; 48:269–279 [View Article][PubMed]
    [Google Scholar]
  2. List Editor. Validation of publication of new names and new combinations previously effectively published outside the IJSEM. Int J Syst Evol Microbiol 2003; 53:627–628 [View Article][PubMed]
    [Google Scholar]
  3. Chen YG, Cui XL, Zhang YQ, Wj L, Wang YX et al. Paraliobacillus quinghaiensis sp. nov. isolated from salt-lake sediment in China.
  4. Cao WR, Guo LY, Du ZJ, Das A, Saren G et al. Corrigendum: Paraliobacillus sediminis sp. nov., isolated from East China sea sediment. Int J Syst Evol Microbiol 2017; 67:3135 [View Article][PubMed]
    [Google Scholar]
  5. 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]
  6. Bai X, Xiong Y, Lu S, Jin D, Lai X et al. Streptococcuspantholopis sp. nov., isolated from faeces of the Tibetan antelope (Pantholops hodgsonii). Int J Syst Evol Microbiol 2016; 66:3281–3286 [View Article][PubMed]
    [Google Scholar]
  7. 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]
  8. 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]
  9. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 1981; 17:368–376 [View Article][PubMed]
    [Google Scholar]
  10. Kolaczkowski B, Thornton JW. Performance of maximum parsimony and likelihood phylogenetics when evolution is heterogeneous. Nature 2004; 431:980–984 [View Article][PubMed]
    [Google Scholar]
  11. 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][PubMed]
    [Google Scholar]
  12. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985; 39:783–791 [View Article][PubMed]
    [Google Scholar]
  13. 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]
  14. Price MN, Dehal PS, Arkin AP. FastTree: computing large minimum evolution trees with profiles instead of a distance matrix. Mol Biol Evol 2009; 26:1641–1650 [View Article][PubMed]
    [Google Scholar]
  15. Fu L, Niu B, Zhu Z, Wu S, Li W. CD-HIT: accelerated for clustering the next-generation sequencing data. Bioinformatics 2012; 28:3150–3152 [View Article][PubMed]
    [Google Scholar]
  16. 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]
  17. Kudo T, Hino M, Kitada M, Horikoshi K. DNA sequences required for the alkalophily of Bacillus sp. strain C-125 are located close together on its chromosomal DNA. J Bacteriol 1990; 172:7282–7283 [View Article][PubMed]
    [Google Scholar]
  18. Hamamoto T, Hashimoto M, Hino M, Kitada M, Seto Y et al. Characterization of a gene responsible for the Na+/H+ antiporter system of alkalophilic Bacillus species strain C-125. Mol Microbiol 1994; 14:939–946 [View Article][PubMed]
    [Google Scholar]
  19. Ito M, Guffanti AA, Oudega B, Krulwich TA. mrp, a multigene, multifunctional locus in Bacillus subtilis with roles in resistance to cholate and to Na+ and in pH homeostasis. J Bacteriol 1999; 181:2394–2402[PubMed]
    [Google Scholar]
  20. Ito M, Guffanti AA, Wang W, Krulwich TA. Effects of nonpolar mutations in each of the seven Bacillus subtilis mrp genes suggest complex interactions among the gene products in support of Na(+) and alkali but not cholate resistance. J Bacteriol 2000; 182:5663–5670 [View Article][PubMed]
    [Google Scholar]
  21. Kosono S, Morotomi S, Kitada M, Kudo T. Analyses of a Bacillus subtilis homologue of the Na+/H+ antiporter gene which is important for pH homeostasis of alkaliphilic Bacillus sp. C-125. Biochim Biophys Acta 1999; 1409:171–175 [View Article][PubMed]
    [Google Scholar]
  22. Kosono S, Ohashi Y, Kawamura F, Kitada M, Kudo T. Function of a principal Na(+)/H(+) antiporter, ShaA, is required for initiation of sporulation in Bacillus subtilis. J Bacteriol 2000; 182:898–904 [View Article][PubMed]
    [Google Scholar]
  23. Takami H, Nakasone K, Takaki Y, Maeno G, Sasaki R et al. Complete genome sequence of the alkaliphilic bacterium Bacillus halodurans and genomic sequence comparison with Bacillus subtilis. Nucleic Acids Res 2000; 28:4317–4331 [View Article][PubMed]
    [Google Scholar]
  24. Putnoky P, Kereszt A, Nakamura T, Endre G, Grosskopf E et al. The pha gene cluster of Rhizobium meliloti involved in pH adaptation and symbiosis encodes a novel type of K+ efflux system. Mol Microbiol 1998; 28:1091–1101 [View Article][PubMed]
    [Google Scholar]
  25. Kosono S, Haga K, Tomizawa R, Kajiyama Y, Hatano K et al. Characterization of a multigene-encoded sodium/hydrogen antiporter (sha) from Pseudomonas aeruginosa: its involvement in pathogenesis. J Bacteriol 2005; 187:5242–5248 [View Article][PubMed]
    [Google Scholar]
  26. Kashyap DR, Botero LM, Lehr C, Hassett DJ, McDermott TR. A Na+:H+ antiporter and a molybdate transporter are essential for arsenite oxidation in Agrobacterium tumefaciens. J Bacteriol 2006; 188:1577–1584 [View Article][PubMed]
    [Google Scholar]
  27. Saier MH, Reddy VS, Tsu BV, Ahmed MS, Li C et al. The Transporter Classification Database (TCDB): recent advances. Nucleic Acids Res 2016; 44:D372–D379 [View Article][PubMed]
    [Google Scholar]
  28. Sasser M. Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids, MIDI technical note. 1990 pp. 1–7
    [Google Scholar]
  29. Minnikin DE, Patel PV, Alshamaony L, Goodfellow M. Polar lipid composition in the classification of Nocardia and related bacteria. Int J Syst Bacteriol 1977; 27:104–117 [View Article]
    [Google Scholar]
  30. Komagata K, Suzuki KI. 4 Lipid and cell-wall analysis in bacterial systematics. Methods Microbiol 1987; 19:161–207
    [Google Scholar]
  31. Kroppenstedt RM. Separation of bacterial menaquinones by HPLC using reverse phase (RP18) and a silver loaded ion exchanger as stationary phases. J Liq Chromatogr 1982; 5:2359–2367 [View Article]
    [Google Scholar]
  32. 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]
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