1887

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY logo

Volume 65, Issue Pt_5

sp. nov., isolated from an oyster () Free

Abstract

A novel Gram-stain-positive, motile, catalase- and oxidase-positive, endospore-forming, facultatively anaerobic rod, designated strain JSM 100118, was isolated from an oyster () collected from the tidal flat of Naozhou Island in the South China Sea. Strain JSM 100118 was able to grow with 0–13 % (w/v) NaCl (optimum 2–5 %), at pH 5.5–10.0 (optimum pH 7.5) and at 5–50 °C (optimum 30–35 °C). The cell-wall peptidoglycan contained -diaminopimelic acid as the diagnostic diamino acid. The predominant respiratory quinone was menaquinone-7 and the major cellular fatty acids were anteiso-C, iso-C, C and Cω11. The polar lipids consisted of diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, an unknown glycolipid and an unknown phospholipid. The genomic DNA G+C content was 35.9 mol%. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain JSM 100118 belonged to the genus , and was most closely related to SW-211 (98.9 % 16S rRNA gene sequence similarity), E33 (98.3 %), 4T19 (97.8 %) and D-1,5a (97.1 %). The combination of results from the phylogenetic analysis, DNA–DNA hybridization, and phenotypic and chemotaxonomic characterization supported the conclusion that strain JSM 100118 represents a novel species of the genus , for which the name sp. nov. is proposed. The type strain is JSM 100118 ( = CCTCC AB 2010452 = DSM 24486 = JCM 17523).

  • Published Online:
Funding
This study was supported by the:
  • National Natural Science Foundation of China (Award 31360062, 30970007 and 31460004)
  • National Basic Research Program of China (Award 2010CB833800)
  • China Scholarship Council (Award CSC 201208430446)
  • Construct Program of the Key Discipline in Hunan Province (Award JSU071312Z01)
  • Aid program for Science and Technology Innovative Research Team in Higher Educational Instituions of Hunan Province (Award 201208)
  • High-Level Overseas Talents Program from Hunan Province, Hunan Agricultural University
© 2015 IUMS
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.000139
2015-05-01
2024-05-03
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/65/5/1561.html?itemId=/content/journal/ijsem/10.1099/ijs.0.000139&mimeType=html&fmt=ahah

References

  1. Ahmed I., Yokota A., Fujiwara T. ( 2007 ). A novel highly boron tolerant bacterium, Bacillus boroniphilus sp. nov., isolated from soil, that requires boron for its growth. . Extremophiles 11, 217–224. [View Article] [PubMed]
    [Google Scholar]
  2. Ash C., Farrow J. A. E., Wallbanks S., Collins M. D. ( 1991 ). Phylogenetic heterogeneity of the genus Bacillus as revealed by comparative analysis of small-subunit-ribosomal RNA sequences. . Lett Appl Microbiol 13, 202–206. [View Article]
    [Google Scholar]
  3. Atlas R. M. ( 1993 ). Handbook of Microbiological Media. Edited by Parks L. C. . Boca Raton, FL:: CRC Press;.
     [Google Scholar]
  4. Carrasco I. J., Márquez M. C., Xue Y., Ma Y., Cowan D. A., Jones B. E., Grant W. D., Ventosa A. ( 2007 ). Bacillus chagannorensis sp. nov., a moderate halophile from a soda lake in Inner Mongolia, China. . Int J Syst Evol Microbiol 57, 2084–2088. [View Article] [PubMed]
    [Google Scholar]
  5. Chen Y.-G., Cui X.-L., Pukall R., Li H.-M., Yang Y.-L., Xu L.-H., Wen M.-L., Peng Q., Jiang C.-L. ( 2007 ). Salinicoccus kunmingensis sp. nov., a moderately halophilic bacterium isolated from a salt mine in Yunnan, south-west China. . Int J Syst Evol Microbiol 57, 2327–2332. [View Article] [PubMed]
    [Google Scholar]
  6. Chen Y.-G., Zhang Y.-Q., Shi J.-X., Xiao H.-D., Tang S.-K., Liu Z.-X., Huang K., Cui X.-L., Li W.-J. ( 2009 a). Jeotgalicoccus marinus sp. nov., a marine bacterium isolated from a sea urchin. . Int J Syst Evol Microbiol 59, 1625–1629.[PubMed] [CrossRef]
    [Google Scholar]
  7. Chen Y.-G., Zhang Y.-Q., Xiao H.-D., Liu Z.-X., Yi L.-B., Shi J.-X., Zhi X.-Y., Cui X.-L., Li W.-J. ( 2009 b). Pontibacillus halophilus sp. nov., a moderately halophilic bacterium isolated from a sea urchin. . Int J Syst Evol Microbiol 59, 1635–1639.[PubMed] [CrossRef]
    [Google Scholar]
  8. Chen Y.-G., Zhang Y.-Q., Wang Y.-X., Liu Z.-X., Klenk H.-P., Xiao H.-D., Tang S.-K., Cui X.-L., Li W.-J. ( 2009 c). Bacillus neizhouensis sp. nov., a halophilic marine bacterium isolated from a sea anemone. . Int J Syst Evol Microbiol 59, 3035–3039. [View Article] [PubMed]
    [Google Scholar]
  9. Chen Y.-G., Zhang Y.-Q., Yi L.-B., Li Z.-Y., Wang Y.-X., Xiao H.-D., Chen Q.-H., Cui X.-L., Li W.-J. ( 2010 ). Pontibacillus litoralis sp. nov., a facultatively anaerobic bacterium isolated from a sea anemone, and emended description of the genus Pontibacillus . . Int J Syst Evol Microbiol 60, 560–565. [View Article] [PubMed]
    [Google Scholar]
  10. Chen Y.-G., Hu S.-P., Tang S.-K., He J.-W., Xiao J.-Q., Zhu H.-Y., Li W.-J. ( 2011 a). Bacillus zhanjiangensis sp. nov., isolated from an oyster in South China Sea. . Antonie van Leeuwenhoek 99, 473–480. [View Article] [PubMed]
    [Google Scholar]
  11. Chen Y.-G., Zhang L., Zhang Y.-Q., He J.-W., Klenk H.-P., Tang S.-K., Zhang Y.-X., Li W.-J. ( 2011 b). Bacillus nanhaiensis sp. nov., isolated from an oyster. . Int J Syst Evol Microbiol 61, 888–893. [View Article] [PubMed]
    [Google Scholar]
  12. Chen Y.-G., Zhang Y.-Q., He J.-W., Klenk H.-P., Xiao J.-Q., Zhu H.-Y., Tang S.-K., Li W.-J. ( 2011 c). Bacillus hemicentroti sp. nov., a moderate halophile isolated from a sea urchin. . Int J Syst Evol Microbiol 61, 2950–2955. [View Article] [PubMed]
    [Google Scholar]
  13. Collins M. D., Jones D. ( 1980 ). Lipids in the classification and identification of coryneform bacteria containing peptidoglycans based on 2,4-diaminobutyric acid. . J Appl Bacteriol 48, 459–470. [View Article]
    [Google Scholar]
  14. Cowan S. T., Steel K. J. ( 1965 ). Manual for the Identification of Medical Bacteria. London:: Cambridge University Press;.
     [Google Scholar]
  15. Cui X.-L., Mao P.-H., Zeng M., Li W.-J., Zhang L.-P., Xu L.-H., Jiang C.-L. ( 2001 ). Streptimonospora salina gen. nov., sp. nov., a new member of the family Nocardiopsaceae . . Int J Syst Evol Microbiol 51, 357–363.[PubMed]
    [Google Scholar]
  16. De Ley J., Cattoir H., Reynaerts A. ( 1970 ). The quantitative measurement of DNA hybridization from renaturation rates. . Eur J Biochem 12, 133–142. [View Article] [PubMed]
    [Google Scholar]
  17. Felsenstein J. ( 1981 ). Evolutionary trees from DNA sequences: a maximum likelihood approach. . J Mol Evol 17, 368–376. [View Article] [PubMed]
    [Google Scholar]
  18. Felsenstein J. ( 1985 ). Confidence limits on phylogenies: an approach using the bootstrap. . Evolution 39, 783–791. [View Article]
    [Google Scholar]
  19. Gregersen T. ( 1978 ). Rapid method for distinction of Gram-negative from Gram-positive bacteria. . Eur J Appl Microbiol Biotechnol 5, 123–127. [View Article]
    [Google Scholar]
  20. Groth I., Schumann P., Weiss N., Martin K., Rainey F. A. ( 1996 ). Agrococcus jenensis gen. nov., sp. nov., a new genus of actinomycetes with diaminobutyric acid in the cell wall. . Int J Syst Bacteriol 46, 234–239. [View Article] [PubMed]
    [Google Scholar]
  21. Hasegawa T., Takizawa M., Tanida S. ( 1983 ). A rapid analysis for chemical grouping of aerobic actinomycetes. . J Gen Appl Microbiol 29, 319–322. [View Article]
    [Google Scholar]
  22. Hopwood D. A., Bibb M. J., Chater K. F., Kieser T., Bruton C. J., Kieser H. M., Lydiate D. J., Smith C. P., Ward J. M. (editors) ( 1985 ). Genetic Manipulation of Streptomyces: A Laboratory Manual. Norwich:: John Innes Foundation;.
     [Google Scholar]
  23. Huang K., Zhang L., Liu Z., Chen Q., Peng Q., Li W., Cui X., Chen Y. ( 2009 ). [Diversity of culturable bacteria associated with the sea urchin Hemicentrotus pulcherrimus from Naozhou Island]. . Wei Sheng Wu Xue Bao 49, 1424–1429 (in Chinese).[PubMed]
    [Google Scholar]
  24. Huß V. A., Festl H., Schleifer K. H. ( 1983 ). Studies on the spectrophotometric determination of DNA hybridization from renaturation rates. . Syst Appl Microbiol 4, 184–192. [View Article] [PubMed]
    [Google Scholar]
  25. Jahnke K. D. ( 1992 ). basic computer program for evaluation of spectroscopic DNA renaturation data from Gilford System 2600 spectrophotometer on a PC/XT/AT type personal computer. . J Microbiol Methods 15, 61–73. [View Article]
    [Google Scholar]
  26. Kämpfer P. ( 1994 ). Limits and possibilities of total fatty acid analysis for classification and identification of Bacillus species. . Syst Appl Microbiol 17, 86–98. [View Article]
    [Google Scholar]
  27. Kim O.-S., Cho Y.-J., Lee K., Yoon S.-H., Kim M., Na H., Park S.-C., Jeon Y. S., Lee J.-H. et al. ( 2012 ). Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. . Int J Syst Evol Microbiol 62, 716–721. [View Article] [PubMed]
    [Google Scholar]
  28. Kimura M. ( 1980 ). A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. . J Mol Evol 16, 111–120. [View Article] [PubMed]
    [Google Scholar]
  29. Kosowski K., Schmidt M., Pukall R., Hause G., Kämpfer P., Lechner U. ( 2014 ). Bacillus pervagus sp. nov. and Bacillus andreesenii sp. nov., isolated from a composting reactor. . Int J Syst Evol Microbiol 64, 88–94. [View Article] [PubMed]
    [Google Scholar]
  30. Kwon S.-W., Lee S. Y., Kim B.-Y., Weon H.-Y., Kim J.-B., Go S.-J., Lee G.-B. ( 2007 ). Bacillus niabensis sp. nov., isolated from cotton-waste composts for mushroom cultivation. . Int J Syst Evol Microbiol 57, 1909–1913. [View Article] [PubMed]
    [Google Scholar]
  31. Logan N. A., Berge O., Bishop A. H., Busse H.-J., De Vos P., Fritze D., Heyndrickx M., Kämpfer P., Rabinovitch L. et al. ( 2009 ). Proposed minimal standards for describing new taxa of aerobic, endospore-forming bacteria. . Int J Syst Evol Microbiol 59, 2114–2121. [View Article] [PubMed]
    [Google Scholar]
  32. Mehrshad M., Amoozegar M. A., Didari M., Bagheri M., Fazeli S. A., Schumann P., Spröer C., Sánchez-Porro C., Ventosa A. ( 2013 ). Bacillus halosaccharovorans sp. nov., a moderately halophilic bacterium from a hypersaline lake. . Int J Syst Evol Microbiol 63, 2776–2781. [View Article] [PubMed]
    [Google Scholar]
  33. Mesbah M., Premachandran U., Whitman W. B. ( 1989 ). Precise measurement of the G+C content of deoxyribonucleic acid by high-performance liquid chromatography. . Int J Syst Bacteriol 39, 159–167. [View Article]
    [Google Scholar]
  34. Minnikin D. E., Collins M. D., Goodfellow M. ( 1979 ). Fatty acid and polar lipid composition in the classification of Cellulomonas, Oerskovia and related taxa. . J Appl Bacteriol 47, 87–95. [View Article]
    [Google Scholar]
  35. Nielsen P., Rainey F. A., Outtrup H., Priest F. G., Fritze D. ( 1994 ). Comparative 16S rDNA sequence analysis of some alkaliphilic bacilli and the establishment of a sixth rRNA group within the genus Bacillus . . FEMS Microbiol Lett 117, 61–65. [View Article]
    [Google Scholar]
  36. Priest F. G., Goodfellow M., Todd C. ( 1988 ). A numerical classification of the genus Bacillus . . J Gen Microbiol 134, 1847–1882. [View Article] [PubMed]
    [Google Scholar]
  37. Saitou N., Nei M. ( 1987 ). The neighbor-joining method: a new method for reconstructing phylogenetic trees. . Mol Biol Evol 4, 406–425.[PubMed]
    [Google Scholar]
  38. Sasser, M. (1990). Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101. Newark, DE: MIDI Inc.
  39. Schlesner H., Lawson P. A., Collins M. D., Weiss N., Wehmeyer U., Völker H., Thomm M. ( 2001 ). Filobacillus milensis gen. nov., sp. nov., a new halophilic spore-forming bacterium with Orn-d-Glu-type peptidoglycan. . Int J Syst Evol Microbiol 51, 425–431.[PubMed]
    [Google Scholar]
  40. Smibert R. M., Krieg N. R. ( 1994 ). Phenotypic characterization. . In Methods for General and Molecular Bacteriology, pp. 607–654. Edited by Gerhardt P., Murray R. G. E., Wood W. A., Krieg N. R. . Washington, DC:: American Society for Microbiology;.
     [Google Scholar]
  41. Stackebrandt E., Goebel B. M. ( 1994 ). Taxonomic note: a place for DNA-DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology. . Int J Syst Bacteriol 44, 846–849. [View Article]
    [Google Scholar]
  42. Stackebrandt E., Liesack W. ( 1993 ). Nucleic acids and classification. . In Handbook of New Bacterial Systematics, pp. 152–189. Edited by Goodfellow M., O’Donnell A. G. . London:: Academic Press;.
     [Google Scholar]
  43. Tamura K., Stecher G., Peterson D., Filipski A., Kumar S. ( 2013 ). mega6: molecular evolutionary genetics analysis version 6.0. . Mol Biol Evol 30, 2725–2729. [View Article] [PubMed]
    [Google Scholar]
  44. Täubel M., Kämpfer P., Buczolits S., Lubitz W., Busse H.-J. ( 2003 ). Bacillus barbaricus sp. nov., isolated from an experimental wall painting. . Int J Syst Evol Microbiol 53, 725–730. [View Article] [PubMed]
    [Google Scholar]
  45. Thompson J. D., Gibson T. J., Plewniak F., Jeanmougin F., Higgins D. G. ( 1997 ). The clustal_x windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. . Nucleic Acids Res 25, 4876–4882. [View Article] [PubMed]
    [Google Scholar]
  46. Ventosa A., Quesada E., Rodriguez-Valera F., Ruiz-Berraquero F., Ramos-Cormenzana A. ( 1982 ). Numerical taxonomy of moderately halophilic Gram-negative rods. . J Gen Microbiol 128, 1959–1968.
     [Google Scholar]
  47. Ventosa A., Nieto J. J., Oren A. ( 1998 ). Biology of moderately halophilic aerobic bacteria. . Microbiol Mol Biol Rev 62, 504–544.[PubMed]
    [Google Scholar]
  48. Wayne L. G., Brenner D. J., Colwell R. R., Grimont P. A. D., Kandler O., Krichevsky M. I., Moore L. H., Moore W. E. C., Murray R. G. E. et al. ( 1987 ). International Committee on Systematic Bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. . Int J Syst Bacteriol 37, 463–464. [View Article]
    [Google Scholar]
  49. Wieser M., Worliczek H., Kämpfer P., Busse H.-J. ( 2005 ). Bacillus herbersteinensis sp. nov.. Int J Syst Evol Microbiol 55, 2119–2123. [View Article] [PubMed]
    [Google Scholar]
  50. Xiao H.-D., Chen Y.-G., Liu Z.-X., Huang K., Li W.-J., Cui X.-L., Zhang L., Yi L.-B. ( 2009 ). [Phylogenetic diversity of cultivable bacteria associated with a sea anemone from coast of the Naozhou island in Zhanjiang, China]. . Wei Sheng Wu Xue Bao 49, 246–250 (in Chinese).[PubMed]
    [Google Scholar]
  51. Xiao J.-Q., Zhu H.-Y., Liu Z.-X., Liu H., He J.-W., Li H.-J., Zhong X.-J., Li W.-J., Chen Y.-G. ( 2013 ). [Biodiversity of culturable bacteria associated with Crassostrea hongkongensis from the tidal flat of Naozhou Island in the South China Sea]. . Microbiology China 40, 939–950 (in Chinese).
     [Google Scholar]
  52. Yoon J.-H., Oh T.-K. ( 2005 ). Bacillus litoralis sp. nov., isolated from a tidal flat of the Yellow Sea in Korea. . Int J Syst Evol Microbiol 55, 1945–1948. [View Article] [PubMed]
    [Google Scholar]
  53. Yoon J.-H., Kim I.-G., Kang K.-H., Oh T.-K., Park Y.-H. ( 2004 ). Bacillus hwajinpoensis sp. nov. and an unnamed Bacillus genomospecies, novel members of Bacillus rRNA group 6 isolated from sea water of the East Sea and the Yellow Sea in Korea. . Int J Syst Evol Microbiol 54, 803–808. [View Article] [PubMed]
    [Google Scholar]
  54. Zhang J., Wang J., Fang C., Song F., Xin Y., Qu L., Ding K. ( 2010 ). Bacillus oceanisediminis sp. nov., isolated from marine sediment. . Int J Syst Evol Microbiol 60, 2924–2929. [View Article] [PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.000139
Loading
Bacillus crassostreae sp. nov., isolated from an oyster (Crassostrea hongkongensis)
Int J Syst Evol Microbiol 65, 1561 (2015); https://doi.org/10.1099/ijs.0.000139
/content/journal/ijsem/10.1099/ijs.0.000139
/content/journal/ijsem/10.1099/ijs.0.000139
Loading

Data & Media loading...

Most cited Most Cited RSS feed

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