1887

Abstract

A Gram-stain-positive, aerobic, non-motile, non-spore-forming and short-rod-shaped actinobacterium, designated strain 1T4Z-3, was isolated from a piece of surface-sterilized branch of collected from the Cotai Ecological Zones in Macao, China. Comparative 16S rRNA gene sequence analysis showed that strain 1T4Z-3 was clearly affiliated to the genus and exhibited 97.9 % gene sequence similarity to JCM 16463, 97.3 % gene sequence similarity to JCM 19015 and less than 96.4 % gene sequence similarities to other genera of the family . Strain 1T4Z-3 had L-2,4-diaminobutyric acid as the diagnostic cell-wall diamino acid. The major fatty acids (>10 % of total fatty acids) were iso-C (46.6 %) and anteiso-C (27.3 %). The predominant menaquinones of strain 1T4Z-3 were MK-11 (81.4 %) and MK-12 (14.1 %). The polar lipids comprised diphosphatidylglycerol, phosphatidylglycerol, six unidentified glycolipids, four unidentified phospholipids and two unidentified lipids. The DNA G+C content of strain 1T4Z-3 was 71.4 mol%. Based on the phylogenetic, phenotypic and chemotaxonomic features, strain 1T4Z-3 is considered to represent a novel species of the genus , for which the name sp. nov. is proposed. The type strain of is 1T4Z-3 (=KCTC 39983=CGMCC 1.16066).

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2018-04-01
2024-11-12
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References

  1. Park YH, Suzuki K, Yim DG, Lee KC, Kim E et al. Suprageneric classification of peptidoglycan group B actinomycetes by nucleotide sequencing of 5S ribosomal RNA. Antonie van Leeuwenhoek 1993; 64:307–313 [View Article][PubMed]
    [Google Scholar]
  2. Kim SJ, Lee SS. Amnibacterium kyonggiense gen. nov., sp. nov., a new member of the family Microbacteriaceae. Int J Syst Evol Microbiol 2011; 61:155–159 [View Article][PubMed]
    [Google Scholar]
  3. Jin L, Lee HG, Kim HS, Ahn CY, Oh HM. Amnibacterium soli sp. nov., an actinobacterium isolated from grass soil. Int J Syst Evol Microbiol 2013; 63:4750–4753 [View Article][PubMed]
    [Google Scholar]
  4. Qin S, Wang HB, Chen HH, Zhang YQ, Jiang CL et al. Glycomyces endophyticus sp. nov., an endophytic actinomycete isolated from the root of Carex baccans Nees. Int J Syst Evol Microbiol 2008; 58:2525–2528 [View Article][PubMed]
    [Google Scholar]
  5. Shirling EB, Gottlieb D. Methods for characterization of Streptomyces species. Int J Syst Bacteriol 1966; 16:313–340 [View Article]
    [Google Scholar]
  6. Magee CM, Rodeheaver G, Edgerton MT, Edlich RF. A more reliable gram staining technic for diagnosis of surgical infections. Am J Surg 1975; 130:341–346 [View Article][PubMed]
    [Google Scholar]
  7. Kelly KL. Inter-Society Color Council-National Bureau of Standards Color name Charts illustrated with Centroid Colors Washington, DC: US Government Printing Office; 1964
    [Google Scholar]
  8. Xu P, Li WJ, Tang SK, Zhang YQ, Chen GZ et al. Naxibacter alkalitolerans gen. nov., sp. nov., a novel member of the family 'Oxalobacteraceae' isolated from China. Int J Syst Evol Microbiol 2005; 55:1149–1153 [View Article][PubMed]
    [Google Scholar]
  9. Cappuccino JG, Sherman N. Microbiology: A Laboratory Manual, 6th ed. San Francisco: Benjamin Cummings Pearson Education; 2002
    [Google Scholar]
  10. Gonzalez C, Gutierrez C, Ramirez C. Halobacterium vallismortis sp. nov. an amylolytic and carbohydrate-metabolizing, extremely halophilic bacterium. Can J Microbiol 1978; 24:710–715 [View Article][PubMed]
    [Google Scholar]
  11. Li WJ, Xu P, Schumann P, Zhang YQ, Pukall R et al. 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 2007; 57:1424–1428 [View Article][PubMed]
    [Google Scholar]
  12. Delong EF. Archaea in coastal marine environments. Proc Natl Acad Sci USA 1992; 89:5685–5689 [View Article][PubMed]
    [Google Scholar]
  13. Li FN, Tuo L, Pan Z, Guo M, Lee SM et al. Aureimonas endophytica sp. nov., a novel endophytic bacterium isolated from Aegiceras corniculatum. Int J Syst Evol Microbiol 2017; 67:2934–2940 [View Article][PubMed]
    [Google Scholar]
  14. Swindell SR, Plasterer TN. SEQMAN. Contig assembly. Methods Mol Biol 1997; 70:75–89[PubMed]
    [Google Scholar]
  15. Yoon SH, Ha SM, Kwon S, Lim J, Kim Y et al. Introducing EzBioCloud: a taxonomically united database of 16S rRNA gene sequences and whole-genome assemblies. Int J Syst Evol Microbiol 2017; 67:1613–1617 [View Article][PubMed]
    [Google Scholar]
  16. Tamura K, Peterson D, Peterson N, Stecher G, Nei M et al. MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 2011; 28:2731–2739 [View Article][PubMed]
    [Google Scholar]
  17. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987; 4:406–425 [View Article][PubMed]
    [Google Scholar]
  18. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 1981; 17:368–376 [View Article][PubMed]
    [Google Scholar]
  19. Fitch WM. Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 1971; 20:406–416 [View Article]
    [Google Scholar]
  20. Kimura M. A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 1980; 16:111–120 [View Article][PubMed]
    [Google Scholar]
  21. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985; 39:783–791 [View Article][PubMed]
    [Google Scholar]
  22. Kim M, Oh HS, Park SC, Chun J. Towards a taxonomic coherence between average nucleotide identity and 16S rRNA gene sequence similarity for species demarcation of prokaryotes. Int J Syst Evol Microbiol 2014; 64:346–351 [View Article][PubMed]
    [Google Scholar]
  23. Sasser M. Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids, MIDI Technical Note 101. Newark, DE: MIDI inc; 1990
    [Google Scholar]
  24. Collins MD, Pirouz T, Goodfellow M, Minnikin DE. Distribution of menaquinones in actinomycetes and corynebacteria. J Gen Microbiol 1977; 100:221–230 [View Article][PubMed]
    [Google Scholar]
  25. Guo L, Tuo L, Habden X, Zhang Y, Liu J et al. Allosalinactinospora lopnorensis gen. nov., sp. nov., a new member of the family Nocardiopsaceae isolated from soil. Int J Syst Evol Microbiol 2015; 65:206–213 [View Article][PubMed]
    [Google Scholar]
  26. Minnikin DE, O'Donnell AG, Goodfellow M, Alderson G, Athalye M et al. An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 1984; 2:233–241 [View Article]
    [Google Scholar]
  27. Nozawa Y, Sakai N, Arai K, Kawasaki Y, Harada K. Reliable and sensitive analysis of amino acids in the peptidoglycan of actinomycetes using the advanced Marfey's method. J Microbiol Methods 2007; 70:306–311 [View Article][PubMed]
    [Google Scholar]
  28. Fujii K, Ikai Y, Oka H, Suzuki M, Harada K. A nonempirical method using LC/MS for determination of the absolute configuration of constituent amino acids in a peptide: combination of Marfey's method with mass spectrometry and its practical application. Anal Chem 1997; 69:5146–5151 [View Article]
    [Google Scholar]
  29. Marmur J. A procedure for the isolation of deoxyribonucleic acid from micro-organisms. J Mol Biol 1961; 3:208–IN1 [View Article]
    [Google Scholar]
  30. Mesbah M, Premachandran U, Whitman WB. Precise measurement of the G+C content of deoxyribonucleic acid by high-performance liquid chromatography. Int J Syst Bacteriol 1989; 39:159–167 [View Article]
    [Google Scholar]
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