1887

Abstract

A Gram-staining-positive bacterium, designated strain XN13, was isolated from a soil sample collected from ALaShan National Geological Park in Inner Mongolia Autonomous Region, China and subjected to a taxonomic study using a polyphasic approach. Strain XN13 was found to have a range of chemical and morphological properties consistent with its classification in the genus . Phylogenetic analyses based on 16S rRNA gene sequences revealed that strain XN13 was related to members of the genus . The closest phylogenetic relatives were NBRC 12536, JG07, S23F2 and ISL-41 with 98.2 %, 97.8 %, 97.8 % and 97.7 % 16S rRNA gene sequence similarity, respectively. The major cellular fatty acids were anteiso-C, Cω7 alcohol, iso-C and Cω11. The predominant menaquinones were MK-8 and MK-7. The DNA G+C content was 40.3 mol%. The DNA–DNA relatedness values between strain XN13 and KCTC 3672, KCTC 3684, CGMCC 1.2724, KCTC 13261, CGMCC 1.3454 and CGMCC 1.6846 were 36 %, 30 %, 34 %, 29 %, 30 % and 31 %, respectively. The organism is different from recognized species of the genus in several phenotypic characteristics. On the basis of phenotypic and genotypic properties, strain XN13 represents a novel species of the genus , for which the name sp. nov. is proposed. The type strain is XN13 ( = CGMCC 1.12259 = KCTC 33047).

Funding
This study was supported by the:
  • , National Natural Science Foundation of China , (Award 30970009 and 31070002)
  • , Special Fund for Public Welfare Industrial (Agriculture) Research of China , (Award 200903001)
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.055426-0
2014-08-01
2020-07-03
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/64/8/2700.html?itemId=/content/journal/ijsem/10.1099/ijs.0.055426-0&mimeType=html&fmt=ahah

References

  1. Bruns A., Rohde M., Berthe-Corti L. ( 2001 ). Muricauda ruestringensis gen. nov., sp. nov., a facultatively anaerobic, appendaged bacterium from German North Sea intertidal sediment. . Int J Syst Evol Microbiol 51, 19972006. [CrossRef] [PubMed]
    [Google Scholar]
  2. 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, 459470. [CrossRef]
    [Google Scholar]
  3. Collins M. D., Howarth O. W., Grund E., Kroppenstedt R. M. ( 1987 ). Isolation and structural determination of new members of the vitamin K2 series in Nocardia brasiliensis . . FEMS Microbiol Lett 41, 3539. [CrossRef]
    [Google Scholar]
  4. Dai X., Wang Y.-N., Wang B.-J., Liu S.-J., Zhou Y.-G. ( 2005 ). Planomicrobium chinense sp. nov., isolated from coastal sediment, and transfer of Planococcus psychrophilus and Planococcus alkanoclasticus to Planomicrobium as Planomicrobium psychrophilum comb. nov. and Planomicrobium alkanoclasticum comb. nov.. Int J Syst Evol Microbiol 55, 699702. [CrossRef] [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. [CrossRef] [PubMed]
    [Google Scholar]
  6. Engelhardt M. A., Daly K., Swannell R. P. J., Head I. M. ( 2001 ). Isolation and characterization of a novel hydrocarbon-degrading, Gram-positive bacterium, isolated from intertidal beach sediment, and description of Planococcus alkanoclasticus sp. nov.. J Appl Microbiol 90, 237247. [CrossRef] [PubMed]
    [Google Scholar]
  7. Goodfellow M., Orchard V. A. ( 1974 ). Antibiotic sensitivity of some nocardioform bacteria and its value as a criterion for taxonomy. . J Gen Microbiol 83, 375387. [CrossRef] [PubMed]
    [Google Scholar]
  8. Gordon R. E., Mihm J. M. ( 1957 ). A comparative study of some strains received as nocardiae. . J Bacteriol 73, 1527.[PubMed]
    [Google Scholar]
  9. 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. [CrossRef] [PubMed]
    [Google Scholar]
  10. Jung Y.-T., Kang S.-J., Oh T.-K., Yoon J.-H., Kim B.-H. ( 2009 ). Planomicrobium flavidum sp. nov., isolated from a marine solar saltern, and transfer of Planococcus stackebrandtii Mayilraj et al. 2005 to the genus Planomicrobium as Planomicrobium stackebrandtii comb. nov.. Int J Syst Evol Microbiol 59, 29292933. [CrossRef] [PubMed]
    [Google Scholar]
  11. Junge K., Gosink J. J., Hoppe H.-G., Staley J. T. ( 1998 ). Arthrobacter, Brachybacterium and Planococcus isolates identified from antarctic sea ice brine. Description of Planococcus mcmeekinii, sp. nov.. Syst Appl Microbiol 21, 306314. [CrossRef] [PubMed]
    [Google Scholar]
  12. Kämpfer P., Kroppenstedt R. M. ( 1996 ). Numerical analysis of fatty acid patterns of coryneform bacteria and related taxa. . Can J Microbiol 42, 9891005. [CrossRef]
    [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. & 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, 716721. [CrossRef] [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. [CrossRef] [PubMed]
    [Google Scholar]
  15. Kluge A. G., Farris J. S. ( 1969 ). Quantitative phyletics and the evolution of anurans. . Syst Zool 18, 132. [CrossRef]
    [Google Scholar]
  16. Lányi B. ( 1987 ). Classical and rapid identification methods for medically important bacteria. . Methods Microbiol 19, 167. [CrossRef]
    [Google Scholar]
  17. Leifson E. ( 1963 ). Determination of carbohydrate metabolism of marine bacteria. . J Bacteriol 85, 11831184.[PubMed]
    [Google Scholar]
  18. Lu Z., Liu Z., Wang L., Zhang Y., Qi W., Goodfellow M. ( 2001 ). Saccharopolyspora flava sp. nov. and Saccharopolyspora thermophila sp. nov., novel actinomycetes from soil. . Int J Syst Evol Microbiol 51, 319325.[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. [CrossRef] [PubMed]
    [Google Scholar]
  20. Mayilraj S., Prasad G. S., Suresh K., Saini H. S., Shivaji S., Chakrabarti T. ( 2005 ). Planococcus stackebrandtii sp. nov., isolated from a cold desert of the Himalayas, India. . Int J Syst Evol Microbiol 55, 9194. [CrossRef] [PubMed]
    [Google Scholar]
  21. 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, 8795. [CrossRef]
    [Google Scholar]
  22. Nakagawa Y., Sakane T., Yokota A. ( 1996 ). Emendation of the genus Planococcus and transfer of Flavobacterium okeanokoites Zobell and Upham 1944 to the genus Planococcus as Planococcus okeanokoites comb. nov.. Int J Syst Bacteriol 46, 866870. [CrossRef] [PubMed]
    [Google Scholar]
  23. Rainey F. A., Ward-Rainey N., Kroppenstedt R. M., Stackebrandt E. ( 1996 ). The genus Nocardiopsis represents a phylogenetically coherent taxon and a distinct actinomycete lineage: proposal of Nocardiopsaceae fam. nov.. Int J Syst Bacteriol 46, 10881092. [CrossRef] [PubMed]
    [Google Scholar]
  24. Reddy G. S. N., Prakash J. S. S., Vairamani M., Prabhakar S., Matsumoto G. I., Shivaji S. ( 2002 ). Planococcus antarcticus and Planococcus psychrophilus spp. nov. isolated from cyanobacterial mat samples collected from ponds in Antarctica. . Extremophiles 6, 253261. [CrossRef] [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;.
    [Google Scholar]
  27. Schleifer K. H., Kandler O. ( 1972 ). Peptidoglycan types of bacterial cell walls and their taxonomic implications. . Bacteriol Rev 36, 407477.[PubMed]
    [Google Scholar]
  28. 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]
  29. Tamura K., Peterson D., Peterson N., Stecher G., Nei M., Kumar S. ( 2011 ). mega5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. . Mol Biol Evol 28, 27312739. [CrossRef] [PubMed]
    [Google Scholar]
  30. 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. [CrossRef] [PubMed]
    [Google Scholar]
  31. 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. & other authors ( 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. [CrossRef]
    [Google Scholar]
  32. Wu C., Lu X., Qin M., Wang Y., Ruan J. ( 1989 ). Analysis of menaquinone compound in microbial cells by HPLC. . Microbiology [English translation of Microbiology (Beijing)] 16, 176178. [CrossRef]
    [Google Scholar]
  33. Yoon J.-H., Lee S. T., Park Y.-H. ( 1998 ). Inter- and intraspecific phylogenetic analysis of the genus Nocardioides and related taxa based on 16S rDNA sequences. . Int J Syst Bacteriol 48, 187194. [CrossRef] [PubMed]
    [Google Scholar]
  34. Yoon J.-H., Kang S.-S., Lee K.-C., Lee E. S., Kho Y. H., Kang K. H., Park Y.-H. ( 2001 ). Planomicrobium koreense gen. nov., sp. nov., a bacterium isolated from the Korean traditional fermented seafood jeotgal, and transfer of Planococcus okeanokoites (Nakagawa et al. 1996) and Planococcus mcmeekinii (Junge et al. 1998) to the genus Planomicrobium . . Int J Syst Evol Microbiol 51, 15111520.[PubMed]
    [Google Scholar]
  35. Zhang D.-C., Liu H.-C., Xin Y.-H., Yu Y., Zhou P.-J., Zhou Y. G. ( 2009 ). Planomicrobium glaciei sp. nov., a psychrotolerant bacterium isolated from a glacier. . Int J Syst Evol Microbiol 59, 13871390. [CrossRef] [PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.055426-0
Loading
/content/journal/ijsem/10.1099/ijs.0.055426-0
Loading

Data & Media loading...

Most cited this month 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