1887

Abstract

A novel actinobacterial strain, designated MUSC 201, was isolated from a mangrove soil collected from Kuantan, the capital city of Pahang State in Malaysia. The taxonomic status of this strain was determined using a polyphasic approach. Comparative 16S rRNA gene sequence analysis revealed that strain MUSC 201 represented a novel lineage within the class . Strain MUSC 201 formed a distinct clade in the family and was most closely related to the members of the genera (16S rRNA gene sequence similarity, 91.9–95.1 %), (92.7–94.6 %), (92.5–93.1 %) and (91.5–92.4 %). The cells of this strain were irregular coccoid to short rod shaped. The peptidoglycan contained -diaminopimelic acid as diagnostic diamino acid and the peptidoglycan type was A3γ. The peptidoglycan cell wall contained -diaminopimelic acid, glycine, glutamic acid and alanine in a molar ratio of 1.5 : 0.9 : 1.0 : 1.5. The cell-wall sugars were galactose and rhamnose. The predominant menaquinone was MK-9(H). The polar lipids consisted of diphosphatidylglycerol, phosphatidylglycerol, phosphoglycolipid, glycolipid and four unknown phospholipids. The major cellular fatty acids were Cω9 (30.8 %), C (24.1 %), and 10-methyl C (13.9 %). The DNA G+C content was 72.0±0.1 mol%. On the basis of phylogenetic and phenotypic differences from members of the genera of the family , a novel genus and species, gen. nov., sp. nov. are proposed. The type strain of is MUSC 201 ( = DSM 27763 = MCCC 1A00646 = NBRC 109973).

Funding
This study was supported by the:
  • University of Malaya (Award H-50001-A000027)
  • Biotek Abadi (Award GBA-808138)
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.058701-0
2014-05-01
2024-04-27
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/64/5/1461.html?itemId=/content/journal/ijsem/10.1099/ijs.0.058701-0&mimeType=html&fmt=ahah

References

  1. Atlas R. M. ( 1993 ). Handbook of Microbiological Media. Edited by Parks L. C. . Boca Raton:: CRC Press;.
    [Google Scholar]
  2. Carrillo P. G., Mardaraz C., Pitta-Alvarez S. I., Giulietti A. M. ( 1996 ). Isolation and selection of biosurfactant-producing bacteria. . World J Microbiol Biotechnol 12, 8284. [View Article] [PubMed]
    [Google Scholar]
  3. Cashion P., Holder-Franklin M. A., McCully J., Franklin M. ( 1977 ). A rapid method for the base ratio determination of bacterial DNA. . Anal Biochem 81, 461466. [View Article] [PubMed]
    [Google Scholar]
  4. Cerny G. ( 1978 ). Studies on aminopeptidase for the distinction of Gram-negative from Gram-positive bacteria. . Eur J Appl Microbiol Biotechnol 5, 113122. [View Article]
    [Google Scholar]
  5. Cho C. H., Lee J.-S., An D.-S., Whon T. W., Kim S.-G. ( 2010 ). Nocardioides panacisoli sp. nov., isolated from the soil of a ginseng field. . Int J Syst Evol Microbiol 60, 387392. [View Article] [PubMed]
    [Google Scholar]
  6. Collins M. D., Dorsch M., Stackebrandt E. ( 1989 ). Transfer of Pimelobacter tumescens to Terrabacter gen. nov. as Terrabacter tumescens comb. nov. and of Pimelobacter jensenii to Nocardioides as Nocardioides jensenii comb. nov.. Int J Syst Bacteriol 39, 16. [View Article]
    [Google Scholar]
  7. Dastager S. G., Lee J.-C., Ju Y.-J., Park D.-J., Kim C.-J. ( 2008 ). Marmoricola bigeumensis sp. nov., a member of the family Nocardioidaceae . . Int J Syst Evol Microbiol 58, 10601063. [View Article] [PubMed]
    [Google Scholar]
  8. Dastager S. G., Lee J.-C., Ju Y.-J., Park D.-J., Kim C.-J. ( 2009 ). Nocardioides sediminis sp. nov., isolated from a sediment sample. . Int J Syst Evol Microbiol 59, 280284. [View Article] [PubMed]
    [Google Scholar]
  9. Felsenstein J. ( 1981 ). Evolutionary trees from DNA sequences: a maximum likelihood approach. . J Mol Evol 17, 368376. [View Article] [PubMed]
    [Google Scholar]
  10. Felsenstein J. ( 1985 ). Confidence limits on phylogenies: an approach using the bootstrap. . Evolution 39, 783789. [View Article]
    [Google Scholar]
  11. Fitch W. M. ( 1971 ). Toward defining the course of evolution: minimum change for a specific tree topology. . Syst Zool 20, 406416. [View Article]
    [Google Scholar]
  12. Hong K., Gao A. H., Xie Q. Y., Gao H., Zhuang L., Lin H. P., Yu H. P., Li J., Yao X. S. & other authors ( 2009 ). Actinomycetes for marine drug discovery isolated from mangrove soils and plants in China. . Mar Drugs 7, 2444. [View Article] [PubMed]
    [Google Scholar]
  13. Kaewkla O., Franco C. M. M. ( 2011 ). Flindersiella endophytica gen. nov., sp. nov., an endophytic actinobacterium isolated from the root of Grey Box, an endemic eucalyptus tree. . Int J Syst Evol Microbiol 61, 21352140. [View Article] [PubMed]
    [Google Scholar]
  14. Kates M. ( 1986 ). Techniques of Lipidology, , 2nd edn.. Amsterdam:: Elsevier;.
    [Google Scholar]
  15. Kelly K. L. ( 1964 ). Inter-Society Color Council–National Bureau of Standards Color Name Charts Illustrated with Centroid Colors. Washington, DC:: US Government Printing Office;.
    [Google Scholar]
  16. Kim S. H., Yang H. O., Sohn Y. C., Kwon H. C. ( 2010 ). Aeromicrobium halocynthiae sp. nov., a taurocholic acid-producing bacterium isolated from the marine ascidian Halocynthia roretzi . . Int J Syst Evol Microbiol 60, 27932798. [View Article] [PubMed]
    [Google Scholar]
  17. 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. [View Article] [PubMed]
    [Google Scholar]
  18. 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]
  19. Kuster E., Williams S. T. ( 1964 ). Selection of media for isolation of streptomycetes. . Nature 202, 928929. [View Article] [PubMed]
    [Google Scholar]
  20. Lee D. W., Lee S. D. ( 2008 ). Aeromicrobium ponti sp. nov., isolated from seawater. . Int J Syst Evol Microbiol 58, 987991. [View Article] [PubMed]
    [Google Scholar]
  21. Lee D. W., Lee S. D. ( 2010 ). Marmoricola scoriae sp. nov., isolated from volcanic ash. . Int J Syst Evol Microbiol 60, 21352139. [View Article] [PubMed]
    [Google Scholar]
  22. Lee S. D., Lee D. W., Ko Y.-H. ( 2011 ). Marmoricola korecus sp. nov.. Int J Syst Evol Microbiol 61, 16281631. [View Article] [PubMed]
    [Google Scholar]
  23. MacFaddin, J. F. (2000). Biochemical Tests for Identification of Medical Bacteria, 3rd edn. Baltimore: Lippincott, Williams & Wilkins.
  24. Meena B., Rajan L. A., Vinithkumar N. V., Kirubagaran R. ( 2013 ). Novel marine actinobacteria from emerald Andaman & Nicobar Islands: a prospective source for industrial and pharmaceutical byproducts. . BMC Microbiol 13, 145. [View Article] [PubMed]
    [Google Scholar]
  25. 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]
  26. Miller E. S., Woese C. R., Brenner S. ( 1991 ). Description of the erythromycin-producing bacterium Arthrobacter sp. strain NRRL B-3381 as Aeromicrobium erythreum gen. nov., sp. nov.. Int J Syst Bacteriol 41, 363368. [View Article] [PubMed]
    [Google Scholar]
  27. Nesterenko O. A., Kvasnikov E. I., Nogina T. M. ( 1985 ). Nocardioidaceae fam. nov., a new family of the order Actinomycetales Buchanan 1917. . Mikrobiol Zh 47, 312.
    [Google Scholar]
  28. Nesterenko O. A., Kvasnikov E. I., Nogina T. M. ( 1990 ). Nocardioidaceae fam. nov. In Validation of the Publication of New Names and New Combinations Previously Effectively Published Outside the IJSB, List no. 34. . Int J Syst Bacteriol 40, 320321. [View Article]
    [Google Scholar]
  29. O’Donnell A. G., Goodfellow M., Minnikin D. E. ( 1982 ). Lipids in the classification of Nocardioides: reclassification of Arthrobacter simplex (Jensen) lochhead in the genus Nocardioides (Prauser) emend. O’Donnell et al. as Nocardioides simplex comb. nov.. Arch Microbiol 133, 323329. [View Article] [PubMed]
    [Google Scholar]
  30. Park Y. H., Yoon J. H., Shin Y. K., Suzuki K., Kudo T., Seino A., Kim H. J., Lee J. S., Lee S. T. ( 1999 ). Classification of ‘Nocardioides fulvus’ IFO 14399 and Nocardioides sp. ATCC 39419 in Kribbella gen. nov., as Kribbella flavida sp. nov. and Kribbella sandramycini sp. nov.. Int J Syst Bacteriol 49, 743752. [View Article] [PubMed]
    [Google Scholar]
  31. Prauser H. ( 1976 ). Nocardioides, a new genus of the order Actinomycetales . . Int J Syst Bacteriol 26, 5865. [View Article]
    [Google Scholar]
  32. Saitou N., Nei M. ( 1987 ). The neighbor-joining method: a new method for reconstructing phylogenetic trees. . Mol Biol Evol 4, 406425.[PubMed]
    [Google Scholar]
  33. Sasser M. . ( 1990 ). Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101. . Newark, DE:: MIDI Inc;.
    [Google Scholar]
  34. Schleifer K. H. ( 1985 ). Analysis of the chemical composition and primary structure of murein. . Methods Microbiol 18, 123156. [View Article]
    [Google Scholar]
  35. Schleifer K. H., Kandler O. ( 1972 ). Peptidoglycan types of bacterial cell walls and their taxonomic implications. . Bacteriol Rev 36, 407477.[PubMed]
    [Google Scholar]
  36. Schumann P. ( 2011 ). Peptidoglycan structure. . Methods Microbiol 38, 101129. [View Article]
    [Google Scholar]
  37. Shieh W. Y., Chen Y.-W., Chaw S.-M., Chiu H.-H. ( 2003 ). Vibrio ruber sp. nov., a red, facultatively anaerobic, marine bacterium isolated from sea water. . Int J Syst Evol Microbiol 53, 479484. [View Article] [PubMed]
    [Google Scholar]
  38. Shirling E. B., Gottlieb D. ( 1966 ). Methods for characterization of Streptomyces species. . Int J Syst Bacteriol 16, 313340. [View Article]
    [Google Scholar]
  39. Sohn K., Hong S. G., Bae K. S., Chun J. ( 2003 ). Transfer of Hongia koreensis Lee et al. 2000 to the genus Kribbella Park et al. 1999 as Kribbella koreensis comb. nov.. Int J Syst Evol Microbiol 53, 10051007. [View Article] [PubMed]
    [Google Scholar]
  40. Staneck J. L., Roberts G. D. ( 1974 ). Simplified approach to identification of aerobic actinomycetes by thin-layer chromatography. . Appl Microbiol 28, 226231.[PubMed]
    [Google Scholar]
  41. Tamura T., Yokota A. ( 1994 ). Transfer of Nocardioides fastidiosa Collins and Stackebrandt 1989 to the genus Aeromicrobium as Aeromicrobium fastidiosum comb. nov.. Int J Syst Bacteriol 44, 608611. [View Article]
    [Google Scholar]
  42. 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. [View Article] [PubMed]
    [Google Scholar]
  43. 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]
  44. Urzì C., Salamone P., Schumann P., Stackebrandt E. ( 2000 ). Marmoricola aurantiacus gen. nov., sp. nov., a coccoid member of the family Nocardioidaceae isolated from a marble statue. . Int J Syst Evol Microbiol 50, 529536. [View Article] [PubMed]
    [Google Scholar]
  45. Wang Y. M., Zhang Z. S., Xu X. L., Ruan J. S., Wang Y. ( 2001 ). Actinopolymorpha singaporensis gen. nov., sp. nov., a novel actinomycete from the tropical rainforest of Singapore. . Int J Syst Evol Microbiol 51, 467473.[PubMed] [CrossRef]
    [Google Scholar]
  46. Whiton R. S., Lau P., Morgan S. L., Gilbart J., Fox A. ( 1985 ). Modifications in the alditol acetate method for analysis of muramic acid and other neutral and amino sugars by capillary gas chromatography-mass spectrometry with selected ion monitoring. . J Chromatogr A 347, 109120. [View Article] [PubMed]
    [Google Scholar]
  47. Yabe S., Aiba Y., Sakai Y., Hazaka M., Yokota A. ( 2011 ). Thermasporomyces composti gen. nov., sp. nov., a thermophilic actinomycete isolated from compost. . Int J Syst Evol Microbiol 61, 8690. [View Article] [PubMed]
    [Google Scholar]
  48. Zhi X. Y., Li W. J., Stackebrandt E. ( 2009 ). An update of the structure and 16S rRNA gene sequence-based definition of higher ranks of the class Actinobacteria, with the proposal of two new suborders and four new families and emended descriptions of the existing higher taxa. . Int J Syst Evol Microbiol 59, 589608. [View Article] [PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.058701-0
Loading
/content/journal/ijsem/10.1099/ijs.0.058701-0
Loading

Data & Media loading...

Supplements

Supplementary material 1

PDF
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