1887

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY logo

Volume 63, Issue Pt_10

sp. nov., isolated from manganese mining soil Free

Abstract

A Gram-stain-positive, aerobic, motile, rod-shaped bacterium, designated strain Mn1-7, was isolated from manganese mining soil in Tianjin, China. The closest phylogenetic relatives were CCUG 49529 (97.2 % 16S rRNA gene sequence similarity), XDB9 (96.7 %), JCM 15800 (96.2 %), NBRC 100172 (95.9 %) and NBRC 103108 (95.4 %) (the type species of the genus). DNA–DNA hybridization values for strain Mn1-7 with the type strains of and were 24.9 and 27.7 %, respectively. The genomic DNA G+C content was 38.4 mol%. The major menaquinone was MK-7 and the major fatty acids were iso-C, iso-C and iso-C. The major polar lipids were diphosphatidylglycerol and phosphatidylglycerol. The cell-wall peptidoglycan was type A4α (-Lys–-Asp), and the predominant cell-wall sugar was xylose. DNA–DNA hybridization results and comparison of phenotypic and chemotaxonomic characters between strain Mn1-7 and the phylogenetically most closely related strains revealed that the isolate represents a novel species of the genus , for which the name sp. nov. is proposed. The type strain is Mn1-7 ( = DSM 26584 = CCTCC AB 2012916).

  • Published Online:
Funding
This study was supported by the:
  • National Natural Science Foundation of China (Award 31170106)
  • National High Tech Development Program, PR China (Award 2012AA101402-3)
© 2013 IUMS
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.050492-0
2013-10-01
2024-04-19
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/63/10/3568.html?itemId=/content/journal/ijsem/10.1099/ijs.0.050492-0&mimeType=html&fmt=ahah

References

  1. Ahmed I., Yokota A., Yamazoe A., Fujiwara T. ( 2007 ). Proposal of Lysinibacillus boronitolerans gen. nov., sp. nov., and transfer of Bacillus fusiformis to Lysinibacillus fusiformis comb. nov. and Bacillus sphaericus to Lysinibacillus sphaericus comb. nov.. Int J Syst Evol Microbiol 57, 1117–1125. [View Article] [PubMed]
    [Google Scholar]
  2. Ash C., Farrow J. A. E., Wallbanks S., Collins M. D. ( 1991 ). Phylogenetic heterogeneity of the genus Bacillus revealed by comparative analysis of small-subunit-ribosomal RNA sequences. . Lett Appl Microbiol 13, 202–206. [View Article]
    [Google Scholar]
  3. Breznak J. A., Costilow R. N. ( 1994 ). Physicochemical factors in growth. . In Methods for General and Molecular Bacteriology, pp. 137–154. Edited by Gerhardt P., Murray R. G. E., Wood W. A., Krieg N. R. . Washington, DC:: American Society for Microbiology;.
     [Google Scholar]
  4. Brosius J., Palmer M. L., Kennedy P. J., Noller H. F. ( 1978 ). Complete nucleotide sequence of a 16S ribosomal RNA gene from Escherichia coli . . Proc Natl Acad Sci U S A 75, 4801–4805. [View Article] [PubMed]
    [Google Scholar]
  5. Coorevits A., Dinsdale A. E., Heyrman J., Schumann P., Van Landschoot A., Logan N. A., De Vos P. ( 2012 ). Lysinibacillus macroides sp. nov., nom. rev.. Int J Syst Evol Microbiol 62, 1121–1128. [View Article] [PubMed]
    [Google Scholar]
  6. Cowan S. T., Steel K. J. ( 1965 ). Manual for the Identification of Medical Bacteria, pp. 17–39. London:: Cambridge University Press;.
     [Google Scholar]
  7. Dussault H. P. ( 1955 ). An improved technique for staining red halophilic bacteria. . J Bacteriol 70, 484–485.[PubMed]
    [Google Scholar]
  8. Fan H., Su C., Wang Y., Yao J., Zhao K., Wang Y., Wang G. ( 2008 ). Sedimentary arsenite-oxidizing and arsenate-reducing bacteria associated with high arsenic groundwater from Shanyin, Northwestern China. . J Appl Microbiol 105, 529–539. [View Article] [PubMed]
    [Google Scholar]
  9. Felsenstein J. ( 1985 ). Confidence limits on phylogenies: an approach using the bootstrap. . Evolution 39, 783–791. [View Article]
    [Google Scholar]
  10. Fitch W. M. ( 1971 ). Toward defining the course of evolution: minimum change for a specific tree topology. . Syst Zool 20, 406–416. [View Article]
    [Google Scholar]
  11. Guindon S., Dufayard J. F., Lefort V., Anisimova M., Hordijk W., Gascuel O. ( 2010 ). New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0. . Syst Biol 59, 307–321. [View Article] [PubMed]
    [Google Scholar]
  12. Hendrikson D. A., Krenz M. M. ( 1991 ). Reagents and stains. . In Manual of Clinical Microbiology, , 5th edn., pp. 1289–1314. Edited by Balows A., Hausler W. J. J., Herrmann K. L., Isenberg H. D., Shadomy H. J. . Washington, DC:: American Society for Microbiology;.
     [Google Scholar]
  13. Huss V. A. R., Festl H., Schleifer K. H. ( 1983 ). Studies on the spectrometric determination of DNA hybridization from renaturation rates. . Syst Appl Microbiol 4, 184–192. [View Article] [PubMed]
    [Google Scholar]
  14. Jung M. Y., Kim J.-S., Paek W. K., Styrak I.-S., Sin Y., Paek J., Park K. A., Kim H., Kim H. L., Chang Y.-H. ( 2012 ). Description of Lysinibacillus sinduriensis sp. nov., and transfer of Bacillus massiliensis and Bacillus odysseyi to the genus Lysinibacillus as Lysinibacillus massiliensis comb. nov. and Lysinibacillus odysseyi comb. nov. with emended description of the genus Lysinibacillus . . Int J Syst Evol Microbiol 62, 2347–2355. [View Article] [PubMed]
    [Google Scholar]
  15. Kämpfer P., Martin K., Glaeser S. P. ( 2013 ). Lysinibacillus contaminans sp. nov., isolated from a surface water. . Int J Syst Evol Microbiol 63, 3148–3153. [View Article] [PubMed]
    [Google Scholar]
  16. Kim O. S., Cho Y. J., Lee K., Yoon S. H., Kim M., Na H., Park S. C., Jeon Y. S., Lee J. H. & other authors ( 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]
  17. Kroppenstedt R. M. ( 1985 ). Fatty acid and menaquinone analysis of actinomycetes and related organisms. . In Chemical Methods in Bacterial Systematics (Society for Applied Bacteriology Technical Series no. 20), pp. 173–199. Edited by Goodfellow M., Minnikin D. E. . London:: Academic Press;.
     [Google Scholar]
  18. Lee C. S., Jung Y.-T., Park S., Oh T.-K., Yoon J.-H. ( 2010 ). Lysinibacillus xylanilyticus sp. nov., a xylan-degrading bacterium isolated from forest humus. . Int J Syst Evol Microbiol 60, 281–286. [View Article] [PubMed]
    [Google Scholar]
  19. Logan N. A., Berge O., Bishop A. H., Busse H.-J., De Vos P., Fritze D., Heyndrickx M., Kämpfer P., Rabinovich L. & other authors ( 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]
  20. 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]
  21. Minnikin D. E., O’Donnell A. G., Goodfellow M., Alderson G., Athalye M., Schaal A., Parlett J. H. ( 1984 ). An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. . J Microbiol Methods 2, 233–241. [View Article]
    [Google Scholar]
  22. Miwa H., Ahmed I., Yokota A., Fujiwara T. ( 2009 ). Lysinibacillus parviboronicapiens sp. nov., a low-boron-containing bacterium isolated from soil. . Int J Syst Evol Microbiol 59, 1427–1432. [View Article] [PubMed]
    [Google Scholar]
  23. Ryu E. ( 1938 ). On the Gram-differentiation of bacteria by the simplest method. . J Jpn Soc Vet Sci 17, 58–63. [CrossRef]
    [Google Scholar]
  24. 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]
  25. Sasser M. ( 1990 ). Identification of bacteria by gas chromatography of cellular fatty acids. , MIDI Technical Note 101. Newark, DE:: MIDI Inc;.
     [Google Scholar]
  26. Schumann P. ( 2011 ). Peptidoglycan structure. . Methods Microbiol 38, 101–129. [View Article]
    [Google Scholar]
  27. Seiler H., Scherer S., Wenning M. ( 2013 ). Lysinibacillus meyeri sp. nov., isolated from a medical practice. . Int J Syst Evol Microbiol 63, 1512–1518. [View Article] [PubMed]
    [Google Scholar]
  28. 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]
  29. 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]
  30. Tamura K., Dudley J., Nei M., Kumar S. ( 2007 ). mega 4: molecular evolutionary genetics analysis (mega) software version 4.0. . Mol Biol Evol 24, 1596–1599. [View Article] [PubMed]
    [Google Scholar]
  31. 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]
  32. Tindall B. J. ( 1990 ). Lipid composition of Halobacterium lacusprofundi . . FEMS Microbiol Lett 66, 199–202. [View Article]
    [Google Scholar]
  33. Tindall B. J., Rosselló-Móra R., Busse H.-J., Ludwig W., Kämpfer P. ( 2010 ). Notes on the characterization of prokaryote strains for taxonomic purposes. . Int J Syst Evol Microbiol 60, 249–266. [View Article] [PubMed]
    [Google Scholar]
  34. Yang L. L., Huang Y., Liu J., Ma L., Mo M. H., Li W. J., Yang F. X. ( 2012 ). Lysinibacillus mangiferahumi sp. nov., a new bacterium producing nematicidal volatiles. . Antonie van Leeuwenhoek 102, 53–59. [View Article] [PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.050492-0
Loading
Lysinibacillusmanganicus sp. nov., isolated from manganese mining soil
Int J Syst Evol Microbiol 63, 3568 (2013); https://doi.org/10.1099/ijs.0.050492-0
/content/journal/ijsem/10.1099/ijs.0.050492-0
/content/journal/ijsem/10.1099/ijs.0.050492-0
Loading

Data & Media loading...

Supplements

Supplementary material 1

PDF

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