1887

Abstract

Three novel actinobacteria, strains 39, 40 and 41, were isolated from soil collected from Barrientos Island in the Antarctic. The taxonomic status of these strains was determined using a polyphasic approach. Comparison of 16S rRNA gene sequences revealed that strain 39 represented a novel lineage within the family and was most closely related to members of the genera (96.9 % 16S rRNA gene sequence similarity), (95.7 %), (94.4–95.3 %), (94.6 %), (94.3 %), (94.2 %) and (93.1 %). Cells were irregular cocci and short rods. The peptidoglycan type was A4α with an -Lys–-Ser–-Asp interpeptide bridge. The cell-wall sugars were galactose and glucose. The major menaquinone was MK-8(H). The polar lipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol, phosphoglycolipid, two glycolipids and one unknown phospholipid. The acyl type of the cell-wall polysaccharide was -acetyl. The major cellular fatty acids were anteiso-C (41.97 %), anteiso-Cω9 (32.16 %) and iso-C (7.68 %). The DNA G+C content of strain 39 was 68.4 mol%. On the basis of phylogenetic and phenotypic differences from other genera of the family , a novel genus and species, gen. nov., sp. nov., is proposed; the type strain of the type species is 39 ( = CGMCC 4.6864  = DSM 24617).

Funding
This study was supported by the:
  • , Malaysia Antarctic Research Program
  • , Academy of Sciences Malaysia
  • , Universiti Putra Malaysia Research Universiti Grant Scheme , (Award 05-01-11-1219RU)
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2013-01-01
2020-08-04
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References

  1. Ara I., Yamamura H., Tsetseg B., Daram D., Ando K. ( 2010 ). Luteipulveratus mongoliensis gen. nov., sp. nov., an actinobacterial taxon in the family Dermacoccaceae . . Int J Syst Evol Microbiol 60, 574579. [CrossRef] [PubMed]
    [Google Scholar]
  2. Atlas R. M. ( 1993 ). Handbook of Microbiological Media. Edited by Parks L. C. . Boca Raton:: CRC Press;.
    [Google Scholar]
  3. Cerny G. ( 1978 ). Studies on aminopeptidase for the distinction of Gram-negative from Gram-positive bacteria. . Eur J Appl Microbiol Biotechnol 5, 113122. [CrossRef]
    [Google Scholar]
  4. Cordero M. R., Zumalacárregui J. M. ( 2000 ). Characterization of Micrococcaceae isolated from salt used for Spanish dry-cured ham. . Lett Appl Microbiol 31, 303306. [CrossRef] [PubMed]
    [Google Scholar]
  5. De la Rosa M. C., Mohino M. R., Mohino M., Mosso M. A. ( 1990 ). Characteristics of micrococci and staphylococci isolated from semipreserved meat products. . Food Microbiol 7, 207215. [CrossRef]
    [Google Scholar]
  6. Felsenstein J. ( 1981 ). Evolutionary trees from DNA sequences: a maximum likelihood approach. . J Mol Evol 17, 368376. [CrossRef] [PubMed]
    [Google Scholar]
  7. Felsenstein J. ( 1985 ). Confidence limits on phylogenies: an approach using the bootstrap. . Evolution 39, 783789. [CrossRef]
    [Google Scholar]
  8. Fitch W. M. ( 1971 ). Toward defining the course of evolution: minimum change for a specific tree topology. . Syst Zool 20, 406416. [CrossRef]
    [Google Scholar]
  9. Gordon R. E., Barnett D. A., Handerhan J. E., Pang C. ( 1974 ). Nocardia coeliaca, Nocardia autotrophica, and the nocardin strain. . Int J Syst Bacteriol 24, 5463. [CrossRef]
    [Google Scholar]
  10. Groth I., Schumann P., Rainey F. A., Martin K., Schuetze B., Augsten K. ( 1997 ). Demetria terragena gen. nov., sp. nov., a new genus of actinomycetes isolated from compost soil. . Int J Syst Bacteriol 47, 11291133. [CrossRef] [PubMed]
    [Google Scholar]
  11. 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. [CrossRef] [PubMed]
    [Google Scholar]
  12. Kates M. ( 1986 ). Techniques of Lipidology, , 2nd edn.. Amsterdam:: Elsevier;.
    [Google Scholar]
  13. 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]
  14. 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]
  15. 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]
  16. MacKenzie S. L. ( 1987 ). Gas chromatographic analysis of amino acids as the N-heptafluorobutyryl isobutyl esters. . J Assoc Off Anal Chem 70, 151160.[PubMed]
    [Google Scholar]
  17. 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. [CrossRef]
    [Google Scholar]
  18. Minnikin D. E., O’Donnell A. G., Goodfellow M., Alderson G., Athalye M., Schaal A., Parlett J. K. ( 1984 ). An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. . J Microbiol Methods 2, 233241. [CrossRef]
    [Google Scholar]
  19. Papamanoli E., Kotzekidou P., Tzanetakis N., Litopoulou-Tzanetaki E. ( 2002 ). Characterization of Micrococcaceae isolated from dry fermented sausage. . Food Microbiol 19, 441449. [CrossRef]
    [Google Scholar]
  20. Pathom-Aree W., Nogi Y., Ward A. C., Horikoshi K., Bull A. T., Goodfellow M. ( 2006 ). Dermacoccus barathri sp. nov. and Dermacoccus profundi sp. nov., novel actinomycetes isolated from deep-sea mud of the Mariana Trench. . Int J Syst Evol Microbiol 56, 23032307. [CrossRef] [PubMed]
    [Google Scholar]
  21. Pospiech A., Neumann B. ( 1995 ). A versatile quick-prep of genomic DNA from Gram-positive bacteria. . Trends Genet 11, 217218. [CrossRef] [PubMed]
    [Google Scholar]
  22. Ruckmani A., Kaur I., Schumann P., Klenk H.-P., Mayilraj S. ( 2011 ). Calidifontibacter indicus gen. nov., sp. nov., a member of the family Dermacoccaceae isolated from a hot spring, and emended description of the family Dermacoccaceae . . Int J Syst Evol Microbiol 61, 24192424. [CrossRef] [PubMed]
    [Google Scholar]
  23. Saitou N., Nei M. ( 1987 ). The neighbor-joining method: a new method for reconstructing phylogenetic trees. . Mol Biol Evol 4, 406425.[PubMed]
    [Google Scholar]
  24. Sasser M. ( 1990 ). Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101. Newark, DE: MIDI Inc.
  25. Schleifer K. H. ( 1985 ). Analysis of the chemical composition and primary structure of murein. . Methods Microbiol 18, 123156. [CrossRef]
    [Google Scholar]
  26. Schleifer K. H., Kandler O. ( 1972 ). Peptidoglycan types of bacterial cell walls and their taxonomic implications. . Bacteriol Rev 36, 407477.[PubMed]
    [Google Scholar]
  27. Shirling E. B., Gottlieb D. ( 1966 ). Methods for characterization of Streptomyces species. . Int J Syst Bacteriol 16, 313340. [CrossRef]
    [Google Scholar]
  28. Stackebrandt E., Schumann P. ( 2000 ). Description of Bogoriellaceae fam. nov., Dermacoccaceae fam. nov., Rarobacteraceae fam. nov. and Sanguibacteraceae fam. nov. and emendation of some families of the suborder Micrococcineae . . Int J Syst Evol Microbiol 50, 12791285. [CrossRef] [PubMed]
    [Google Scholar]
  29. Stackebrandt E., Koch C., Gvozdiak O., Schumann P. ( 1995 ). Taxonomic dissection of the genus Micrococcus: Kocuria gen. nov., Nesterenkonia gen. nov., Kytococcus gen. nov., Dermacoccus gen. nov., and Micrococcus Cohn 1872 gen. emend.. Int J Syst Bacteriol 45, 682692. [CrossRef] [PubMed]
    [Google Scholar]
  30. 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]
  31. Sugimoto S., Kato T., Ito M., Sakata N., Tsuchida T., Matsumoto A., Takahashi Y. ( 2011 ). Branchiibius hedensis gen. nov., sp. nov., an actinobacterium isolated from a Japanese codling (Physiculus japonicus). . Int J Syst Evol Microbiol 61, 11951200. [CrossRef] [PubMed]
    [Google Scholar]
  32. Tamura K., Dudley J., Nei M., Kumar S. ( 2007 ). mega4, molecular evolutionary genetics analysis (mega) software version 4.0. . Mol Biol Evol 24, 15961599. [CrossRef] [PubMed]
    [Google Scholar]
  33. Tang S. K., Wu J. Y., Wang Y., Schumann P., Li W. J. ( 2010 ). Yimella lutea gen. nov., sp. nov., a novel actinobacterium of the family Dermacoccaceae . . Int J Syst Evol Microbiol 60, 659663. [CrossRef] [PubMed]
    [Google Scholar]
  34. 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]
  35. Uchida K., Aida A. ( 1977 ). Acyl type of bacterial cell wall: its simple identification by colorimetric method. . J Gen Appl Microbiol 23, 249260. [CrossRef]
    [Google Scholar]
  36. 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. [CrossRef] [PubMed]
    [Google Scholar]
  37. Williams S. T., Goodfellow M., Alderson G., Wellington E. M. H., Sneath P. H. A., Sackin M. J. ( 1983 ). Numerical classification of Streptomyces and related genera. . J Gen Microbiol 129, 17431813.[PubMed]
    [Google Scholar]
  38. Yamada K., Komagata K. ( 1972 ). Taxonomic studies on coryneform bacteria. IV. Morphological, cultural, biochemical, and physiological characteristics. . J Gen Appl Microbiol 18, 399416. [CrossRef]
    [Google Scholar]
  39. 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. [CrossRef] [PubMed]
    [Google Scholar]
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