1887

Abstract

A Gram-stain-positive actinobacterium, designated as strain 2-36, was isolated from sludge of a sewage outlet in a manganese mine. Phylogenetic analysis of 16S rRNA genes assigned strain 2-36 in a single lineage in the family and closely related to KLBMP 1279 (93.8 % similarity), BC444 (93.1 %) and BMG801 (92.8 %). It contained iso-C, iso-C, Cω6, iso-C and summed feature 3 (Cω6 and/or Cω7) as the major fatty acids (>5 %), with MK-9(H), MK-8(H) and MK-9(H) as the quinones. The cell wall contained -diaminopimelic acid as the diagnostic diamino acid and the DNA G+C content was 70.1 mol%. The polar lipids were diphosphatidylglycerol, phosphatidylmethylethanolamine, phosphatidylethanolamine, phosphatidylinositol, phosphatidylinositol mannoside, an unknown glycolipid, an unknown aminophospholipid and two unknown phospholipids. Compared to closely related strains, strain 2-36 showed distinguishing characteristics, such as the distinct phylogenetic lineage, positive result for phenylacetic acid assimilation and negative result for -glucosidase and having Cω6 and iso-C as the major fatty acids. On the basis of the polyphasic analyses, strain 2-36 represents a novel species of a new genus within the family Geodermatophilaceae, for which the name gen. nov., sp. nov. is proposed. The type strain of ' is 2-36 (=CCTCC AA 2016026=DSM 103787).

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2017-08-01
2024-04-16
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References

  1. Normand P. Geodermatophilaceae fam. nov., a formal description. Int J Syst Evol Microbiol 2006; 56:2277–2278 [View Article][PubMed]
    [Google Scholar]
  2. Parte AC. LPSN-list of prokaryotic names with standing in nomenclature. Nucleic Acids Res 2014; 42:D613–D616 [View Article][PubMed]
    [Google Scholar]
  3. Montero-Calasanz MC, Göker M, Pötter G, Rohde M, Spröer C et al. Geodermatophilus arenarius sp. nov., a xerophilic actinomycete isolated from Saharan desert sand in Chad. Extremophiles 2012; 16:903–909 [View Article][PubMed]
    [Google Scholar]
  4. Montero-Calasanz MC, Göker M, Broughton WJ, Cattaneo A, Favet J et al. Geodermatophilus tzadiensis sp. nov., a UV radiation-resistant bacterium isolated from sand of the Saharan desert. Syst Appl Microbiol 2013; 36:177–182 [View Article][PubMed]
    [Google Scholar]
  5. Montero-Calasanz MC, Göker M, Pötter G, Rohde M, Spröer C et al. Geodermatophilus africanus sp. nov., a halotolerant actinomycete isolated from Saharan desert sand. Antonie van Leeuwenhoek 2013; 104:207–216 [View Article][PubMed]
    [Google Scholar]
  6. Montero-Calasanz MC, Göker M, Pötter G, Rohde M, Spröer C et al. Geodermatophilus normandii sp. nov., isolated from Saharan desert sand. Int J Syst Evol Microbiol 2013; 63:3437–3443 [View Article][PubMed]
    [Google Scholar]
  7. Montero-Calasanz MC, Göker M, Pötter G, Rohde M, Spröer C et al. Geodermatophilus saharensis sp. nov., isolated from sand of the Saharan desert in Chad. Arch Microbiol 2013; 195:153–159 [View Article][PubMed]
    [Google Scholar]
  8. Montero-Calasanz MC, Göker M, Pötter G, Rohde M, Spröer C et al. Geodermatophilus telluris sp. nov., an actinomycete isolated from Saharan desert sand. Int J Syst Evol Microbiol 2013; 63:2254–2259 [View Article][PubMed]
    [Google Scholar]
  9. del Carmen Montero-Calasanz M, Göker M, Rohde M, Schumann P, Pötter G et al. Geodermatophilus siccatus sp. nov., isolated from arid sand of the Saharan desert in Chad. Antonie van Leeuwenhoek 2013; 103:449–456 [View Article][PubMed]
    [Google Scholar]
  10. Reddy GS, Potrafka RM, Garcia-Pichel F. Modestobacter versicolor sp. nov., an actinobacterium from biological soil crusts that produces melanins under oligotrophy, with emended descriptions of the genus Modestobacter and Modestobacter multiseptatus Mevs et al. 2000. Int J Syst Evol Microbiol 2007; 57:2014–2020 [View Article][PubMed]
    [Google Scholar]
  11. Zhang YQ, Chen J, Liu HY, Zhang YQ, Li WJ et al. Geodermatophilus ruber sp. nov., isolated from rhizosphere soil of a medicinal plant. Int J Syst Evol Microbiol 2011; 61:190–193 [View Article][PubMed]
    [Google Scholar]
  12. Jin L, Lee HG, Kim HS, Ahn CY, Oh HM. Geodermatophilus soli sp. nov. and Geodermatophilus terrae sp. nov., two actinobacteria isolated from grass soil. Int J Syst Evol Microbiol 2013; 63:2625–2629 [View Article][PubMed]
    [Google Scholar]
  13. Xiao J, Luo Y, Xu J, Xie S, Xu J. Modestobacter marinus sp. nov., a psychrotolerant actinobacterium from deep-sea sediment, and emended description of the genus Modestobacter. Int J Syst Evol Microbiol 2011; 61:1710–1714 [View Article][PubMed]
    [Google Scholar]
  14. Qu JH, Hui M, Qu JY, Wang FF, Li HF et al. Geodermatophilus taihuensis sp. nov., isolated from the interfacial sediment of a eutrophic lake. Int J Syst Evol Microbiol 2013; 63:4108–4112 [View Article][PubMed]
    [Google Scholar]
  15. Zhu WY, Zhang JL, Qin YL, Xiong ZJ, Zhang DF et al. Blastococcus endophyticus sp. nov., an actinobacterium isolated from Camptotheca acuminata. Int J Syst Evol Microbiol 2013; 63:3269–3273 [View Article][PubMed]
    [Google Scholar]
  16. Qin S, Bian GK, Zhang YJ, Xing K, Cao CL et al. Modestobacter roseus sp. nov., an endophytic actinomycete isolated from the coastal halophyte Salicornia europaea Linn., and emended description of the genus Modestobacter. Int J Syst Evol Microbiol 2013; 63:2197–2202 [View Article][PubMed]
    [Google Scholar]
  17. Trujillo ME, Goodfellow M, Busarakam K, Riesco R. Modestobacter lapidis sp. nov. and Modestobacter muralis sp. nov., isolated from a deteriorated sandstone historic building in Salamanca, Spain. Antonie van Leeuwenhoek 2015; 108:311–320 [View Article][PubMed]
    [Google Scholar]
  18. Mevs U, Stackebrandt E, Schumann P, Gallikowski CA, Hirsch P. Modestobacter multiseptatus gen. nov., sp. nov., a budding actinomycete from soils of the Asgard Range (Transantarctic mountains). Int J Syst Evol Microbiol 2000; 50 Pt 1:337–346 [View Article][PubMed]
    [Google Scholar]
  19. Sambrook JF, Russell DW. Molecular Cloning: A Laboratory Manual, 3rd ed. Cold Spring Harbor, NY: Cold Spring Harbor Laboratory; 2001
    [Google Scholar]
  20. Fan H, Su C, Wang Y, Yao J, Zhao K et al. Sedimentary arsenite-oxidizing and arsenate-reducing bacteria associated with high arsenic groundwater from Shanyin, Northwestern China. J Appl Microbiol 2008; 105:529–539 [View Article][PubMed]
    [Google Scholar]
  21. Sanger F, Nicklen S, Coulson AR. DNA sequencing with chain-terminating inhibitors. Proc Natl Acad Sci USA 1977; 74:5463–5467 [View Article][PubMed]
    [Google Scholar]
  22. Kim OS, Cho YJ, Lee K, Yoon SH, Kim M et al. Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. Int J Syst Evol Microbiol 2012; 62:716–721 [View Article][PubMed]
    [Google Scholar]
  23. Tamura K, Stecher G, Peterson D, Filipski A, Kumar S. MEGA6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 2013; 30:2725–2729 [View Article][PubMed]
    [Google Scholar]
  24. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 1981; 17:368–376 [View Article][PubMed]
    [Google Scholar]
  25. Zhang W, Sun Z. Random local neighbor joining: a new method for reconstructing phylogenetic trees. Mol Phylogenet Evol 2008; 47:117–128 [View Article][PubMed]
    [Google Scholar]
  26. Weng JF, Thomas DA, Mareels I, Parsimony M. Maximum parsimony, substitution model, and probability phylogenetic trees. J Comput Biol 2011; 18:67–80 [View Article][PubMed]
    [Google Scholar]
  27. 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]
  28. Urzì C, Salamone P, Schumann P, Rohde M, Stackebrandt E. Blastococcus saxobsidens sp. nov., and emended descriptions of the genus Blastococcus ahrens and Moll 1970 and Blastococcus aggregatus Ahrens and Moll 1970. Int J Syst Evol Microbiol 2004; 54:253–259 [View Article][PubMed]
    [Google Scholar]
  29. Hezbri K, Ghodhbane-Gtari F, del Carmen Montero-Calasanz M, Sghaier H, Rohde M et al. Geodermatophilus aquaeductus sp. nov., isolated from the ruins of hadrian's aqueduct. Antonie van Leeuwenhoek 2015; 108:41–50 [View Article][PubMed]
    [Google Scholar]
  30. Tamura T, Hayakawa M, Hatano K. Sporichthya brevicatena sp. nov. Int J Syst Bacteriol 1999; 49:1779–1784 [View Article][PubMed]
    [Google Scholar]
  31. Luedemann GM. Geodermatophilus, a new genus of the Dermatophilaceae (Actinomycetales). J Bacteriol 1968; 96:1848–1858[PubMed]
    [Google Scholar]
  32. Larkin MA, Blackshields G, Brown NP, Chenna R, Mcgettigan PA et al. Clustal W and Clustal X version 2.0. Bioinformatics 2007; 23:2947–2948 [View Article][PubMed]
    [Google Scholar]
  33. Tarrand JJ, Gröschel DH. Rapid, modified oxidase test for oxidase-variable bacterial isolates. J Clin Microbiol 1982; 16:772–774[PubMed]
    [Google Scholar]
  34. Mesban M, Premachandran U, Whitman WB. Precise measurement of the G+C content of deoxyribonucleic acid by high-performance liquid chromatography. Int J Syst Evol Microbiol 1989; 39:159–167
    [Google Scholar]
  35. Tindall BJ. A comparative study of the lipid composition of Halobacterium saccharovorum from various sources. Syst Appl Microbiol 1990; 13:128–130 [View Article]
    [Google Scholar]
  36. 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]
  37. Tindall BJ, Sikorski J, Smibert RA, Krieg NR. Phenotypic characterization and the principles of comparative systematics. In Reddy CA. (editor) Methods for General and Molecular Microbiology Washington, DC: ASM Press; 2007 pp. 330–393
    [Google Scholar]
  38. Wu YH, Xamxidin M, Meng FX, Zhang XQ, Wang CS et al. Marinirhabdus gelatinilytica gen. nov., sp. nov., isolated from seawater. Int J Syst Evol Microbiol 2016; 66:3095–3101 [View Article][PubMed]
    [Google Scholar]
  39. Dietz A, Thayer DW. The chemotaxonomy of actinomycetes. In Dietz A, Thayer DW. (editors) Actinomycete Taxonomy Arlington, VA: Society for Industrial Microbiology; 1980 pp. 22–291
    [Google Scholar]
  40. Hasegawa T, Takizawa M, Tanida S. A rapid analysis for chemical grouping of aerobic actinomycetes. J Gen Appl Microbiol 1983; 29:319–322 [View Article]
    [Google Scholar]
  41. Normand P, Orso S, Cournoyer B, Jeannin P, Chapelon C et al. Molecular phylogeny of the genus Frankia and related genera and emendation of the family Frankiaceae. Int J Syst Bacteriol 1996; 46:1–9 [View Article][PubMed]
    [Google Scholar]
  42. Nie GX, Ming H, Li S, Zhou EM, Cheng J et al. Geodermatophilus nigrescens sp. nov., isolated from a dry-hot valley. Antonie van Leeuwenhoek 2012; 101:811–817 [View Article][PubMed]
    [Google Scholar]
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