1887

Abstract

A Gram-stain-positive bacterium, designated strain NIO-1109, was isolated from a marine sediment sample from Chorao Island, Goa, India. Phenotypic and chemotaxonomic characteristics and data from phylogenetic analysis based on 16S rRNA gene sequences indicated that strain NIO-1109 was related to the genus . Strain NIO-1109 exhibited >98.0 % 16S rRNA gene sequence similarity with respect to HHS 31 (99.5 %) and NCIMB 9889 (99.1 %); the type strains of other species showed <98 % similarity. Levels of DNA–DNA relatedness between strain NIO-1109 and DSM 20416 and LMG 23471 were less than 70 % (33.0±2.0 and 37±3.2 %, respectively). Strain NIO-1109 also differed from these two closely related species in a number of phenotypic traits. Based on phenotypic, chemotaxonomic and phylogenetic data, strain NIO-1109 is considered to represent a novel species of the genus , for which the name sp. nov. is proposed. The type strain is NIO-1109 ( = NCIM 5457 = DSM 25128 = CCTCC AB 2011124).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.000149
2015-05-01
2024-04-25
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/65/5/1611.html?itemId=/content/journal/ijsem/10.1099/ijs.0.000149&mimeType=html&fmt=ahah

References

  1. Carneiro A. R., Ramos R. T., Dall’Agnol H., Pinto A. C., de Castro Soares S., Santos A. R., Guimarães L. C., Almeida S. S., Baraúna R. A. et al. ( 2012 ). Genome sequence of Exiguobacterium antarcticum B7, isolated from a biofilm in Ginger Lake, King George Island, Antarctica. . J Bacteriol 194, 66896690. [View Article] [PubMed]
    [Google Scholar]
  2. Chaturvedi P., Shivaji S. ( 2006 ). Exiguobacterium indicum sp. nov., a psychrophilic bacterium from the Hamta glacier of the Himalayan mountain ranges of India. . Int J Syst Evol Microbiol 56, 27652770. [View Article] [PubMed]
    [Google Scholar]
  3. Collins M. D., Lund B. M., Farrow J. A. E., Schleifer K. H. ( 1983 ). Chemotaxonomic study of an alkalophilic bacterium Exiguobacterium aurantiacum gen. nov., sp. nov.. . J Gen Microbiol 129, 20372042.
    [Google Scholar]
  4. Crapart S., Fardeau M. L., Cayol J. L., Thomas P., Sery C., Ollivier B., Combet-Blanc Y. ( 2007 ). Exiguobacterium profundum sp. nov., a moderately thermophilic, lactic acid-producing bacterium isolated from a deep-sea hydrothermal vent. . Int J Syst Evol Microbiol 57, 287292. [View Article] [PubMed]
    [Google Scholar]
  5. De Ley J., Cattoir H., Reynaerts A. ( 1970 ). The quantitative measurement of DNA hybridization from renaturation rates. . Eur J Biochem 12, 133142. [View Article] [PubMed]
    [Google Scholar]
  6. Farrow J. A. E., Wallbanks S., Collins M. D. ( 1994 ). Phylogenetic interrelationships of round-spore-forming bacilli containing cell walls based on lysine and the non-spore-forming genera Caryophanon, Exiguobacterium, Kurthia, and Planococcus . . Int J Syst Bacteriol 44, 7482. [View Article] [PubMed]
    [Google Scholar]
  7. Felsenstein J. ( 1981 ). Evolutionary trees from DNA sequences: a maximum likelihood approach. . J Mol Evol 17, 368376. [View Article] [PubMed]
    [Google Scholar]
  8. Felsenstein J. ( 1985 ). Confidence limits on phylogenies: an approach using the bootstrap. . Evolution 39, 783791. [View Article]
    [Google Scholar]
  9. Fitch W. M. ( 1971 ). Toward defining the course of evolution: minimum change for a specified tree topology. . Syst Zool 20, 406416. [View Article]
    [Google Scholar]
  10. Huss V. A., Festl H., Schleifer K. H. ( 1983 ). Studies on the spectrophotometric determination of DNA hybridization from renaturation rates. . Syst Appl Microbiol 4, 184192. [View Article] [PubMed]
    [Google Scholar]
  11. Jahnke K. D. ( 1992 ). BASIC computer program for evaluation of spectroscopic DNA renaturation data from GILFORD System 2600 spectrometer on a PC/XT/AT type personal computer. . J Microbiol Methods 15, 6173. [View Article]
    [Google Scholar]
  12. Kim I. G., Lee M. H., Jung S. Y., Song J. J., Oh T. K., Yoon J. H. ( 2005 ). Exiguobacterium aestuarii sp. nov. and Exiguobacterium marinum sp. nov., isolated from a tidal flat of the Yellow Sea in Korea. . Int J Syst Evol Microbiol 55, 885889. [View Article] [PubMed]
    [Google Scholar]
  13. 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, 716721. [View Article] [PubMed]
    [Google Scholar]
  14. Kimura M. ( 1980 ). A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. . J Mol Evol 16, 111120. [View Article] [PubMed]
    [Google Scholar]
  15. Kroppenstedt R. M. ( 1982 ). Separation of bacterial menaquinones by HPLC using reverse phase (RP-18) and a silver-loaded ion exchanger. . J Liq Chromatogr 5, 23592367. [View Article]
    [Google Scholar]
  16. Leifson E. ( 1960 ). Atlas of Bacterial Flagellation. London:: Academic Press;.
    [Google Scholar]
  17. Li W. J., Xu P., Schumann P., Zhang Y. Q., Pukall R., Xu L. H., Stackebrandt E., Jiang C. L. ( 2007 ). Georgenia ruanii sp. nov., a novel actinobacterium isolated from forest soil in Yunnan (China), and emended description of the genus Georgenia . . Int J Syst Evol Microbiol 57, 14241428. [View Article] [PubMed]
    [Google Scholar]
  18. López-Cortés A., Schumann P., Pukall R., Stackebrandt E. ( 2006 ). Exiguobacterium mexicanum sp. nov. and Exiguobacterium artemiae sp. nov., isolated from the brine shrimp Artemia franciscana . . Syst Appl Microbiol 29, 183190. [View Article] [PubMed]
    [Google Scholar]
  19. Marmur J., Doty P. ( 1962 ). Determination of the base composition of deoxyribonucleic acid from its thermal denaturation temperature. . J Mol Biol 5, 109118. [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, 159167. [View Article]
    [Google Scholar]
  21. Minnikin D. E., O’Donnell A. G., Goodfellow M., Alderson G., Athalye M., Schaal K., Parlett J. H. ( 1984 ). An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. . J Microbiol Methods 2, 233241. [View Article]
    [Google Scholar]
  22. Mohan Kulshreshtha N., Kumar R., Begum Z., Shivaji S., Kumar A. ( 2013 ). Exiguobacterium alkaliphilum sp. nov. isolated from alkaline wastewater drained sludge of a beverage factory. . Int J Syst Evol Microbiol 63, 43744379. [View Article] [PubMed]
    [Google Scholar]
  23. Ordoñez O. F., Lanzarotti E., Kurth D., Gorriti M. F., Revale S., Cortez N., Vazquez M. P., Farías M. E., Turjanski A. G. ( 2013 ). Draft genome sequence of the polyextremophilic Exiguobacterium sp. strain S17, isolated from hyperarsenic lakes in the Argentinian Puna. . Genome Announc 1, e00480-13.[PubMed] [CrossRef]
    [Google Scholar]
  24. Raichand R., Pareek S., Singh N. K., Mayilraj S. ( 2012 ). Exiguobacterium aquaticum sp. nov., a member of the genus Exiguobacterium . . Int J Syst Evol Microbiol 62, 21502155. [View Article] [PubMed]
    [Google Scholar]
  25. Saitou N., Nei M. ( 1987 ). The neighbor-joining method: a new method for reconstructing phylogenetic trees. . Mol Biol Evol 4, 406425.[PubMed]
    [Google Scholar]
  26. Sasser, M. (1990). Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101. Newark, DE: MIDI Inc.
  27. Singh N. K., Raichand R., Kaur I., Kaur C., Pareek S., Mayilraj S. ( 2013 ). Exiguobacterium himgiriensis sp. nov. a novel member of the genus Exiguobacterium, isolated from the Indian Himalayas. . Antonie van Leeuwenhoek 103, 789796. [View Article] [PubMed]
    [Google Scholar]
  28. Smibert R. M., Krieg N. R. ( 1981 ). General characterization. . In Manual of Methods for General Microbiology, pp. 409443. Edited by Gerhardt P., Murray R. G. E., Costilow R. N., Nester E. W., Wood W. A., Krieg N. R., Phillips G. B. . Washington, DC:: American Society for Microbiology;.
    [Google Scholar]
  29. Smibert R. M., Krieg N. R. ( 1994 ). Phenotypic characterization. . In Methods for General and Molecular Bacteriology, pp. 607654. Edited by Gerhardt P., Murray R. G. E., Wood W. A., Krieg N. R. . Washington, DC:: American Society for Microbiology;.
    [Google Scholar]
  30. Tamura K., Stecher G., Peterson D., Filipski A., Kumar S. ( 2013 ). mega6: molecular evolutionary genetics analysis version 6.0. . Mol Biol Evol 30, 27252729. [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, 48764882. [View Article] [PubMed]
    [Google Scholar]
  32. Vishnivetskaya T. A., Siletzky R., Jefferies N., Tiedje J. M., Kathariou S. ( 2007 ). Effect of low temperature and culture media on the growth and freeze-thawing tolerance of Exiguobacterium strains. . Cryobiology 54, 234240. [View Article] [PubMed]
    [Google Scholar]
  33. Vishnivetskaya T. A., Kathariou S., Tiedje J. M. ( 2009 ). The Exiguobacterium genus: biodiversity and biogeography. . Extremophiles 13, 541555. [View Article] [PubMed]
    [Google Scholar]
  34. 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, 463464. [View Article]
    [Google Scholar]
  35. White R. A. III, Grassa C. J., Suttle C. A. ( 2013 ). Draft genome sequence of Exiguobacterium pavilionensis strain RW-2, with wide thermal, salinity, and pH tolerance, isolated from modern freshwater microbialites. . Genome Announc 1, e00597-13. [View Article] [PubMed]
    [Google Scholar]
  36. Xu P., Li W. J., Tang S. K., Zhang Y. Q., Chen G. Z., Chen H. H., Xu L. H., Jiang C. L. ( 2005 ). Naxibacter alkalitolerans gen. nov., sp. nov., a novel member of the family ‘Oxalobacteraceae’ isolated from China. . Int J Syst Evol Microbiol 55, 11491153. [View Article] [PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.000149
Loading
/content/journal/ijsem/10.1099/ijs.0.000149
Loading

Data & Media loading...

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