1887

Abstract

Gram-stain-positive, acid-fast-positive, rapidly growing, rod-shaped bacteria (designated as strains JC290, JC430 and JC431) were isolated from paddy cultivated soils on the Western Ghats of India. Phylogenetic analysis placed the three strains among the rapidly growing mycobacteria, being most closely related to 47503 (98.8 % 16S rRNA gene sequence similarity), MA112/96 (98.8 %) and a few other species. The level of DNA–DNA reassociation of the three strains with DSM 44635 was 23.4±4 % (26.1±3 %, reciprocal analysis) and 21.4±2 % (22.1±4 %, reciprocal analysis). The three novel strains shared >99.9 % 16S rRNA gene sequence similarity and DNA–DNA reassociation values >85 %. Furthermore, phylogenetic analysis based on concatenated sequences (3071 bp) of four housekeeping genes (16S rRNA, , and ) revealed that strain JC290 is clearly distinct from all other species. The three strains had diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylinositol, phosphatidylinositolmannosides, unidentified phospholipids, unidentified glycolipids and an unidentified lipid as polar lipids. The predominant isoprenoid quinone for all three strains was MK-9(H). Fatty acids were Cω7, C, C 9, C 7/C 6 and C 7c/C 6 for all the three strains. On the basis of phenotypic, chemotaxonomic and phylogenetic data, it was concluded that strains JC290, JC430 and JC431 are members of a novel species within the genus and for which the name sp. nov. is proposed. The type strain is JC290 (=KCTC 39560=LMG 28809).

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2016-11-01
2022-01-21
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References

  1. Batoni G., Bottai D., Maisetta G., Pardini M., Boschi A., Florio W., Esin S., Campa M. 2001; Involvement of the Mycobacterium tuberculosis secreted antigen SA-5K in intracellular survival of recombinant Mycobacterium smegmatis. FEMS Microbiol Lett 205:125–129 [View Article][PubMed]
    [Google Scholar]
  2. Brown-Elliott B. A., Wallace R. J. 2002; Clinical and taxonomic status of pathogenic nonpigmented or late-pigmenting rapidly growing mycobacteria. Clin Microbiol Rev 15:716–746 [View Article][PubMed]
    [Google Scholar]
  3. Cassidy P. M., Hedberg K., Saulson A., McNelly E., Winthrop K. L. 2009; Nontuberculous mycobacterial disease prevalence and risk factors: a changing epidemiology. Clin Infect Dis 49:e124129 [View Article][PubMed]
    [Google Scholar]
  4. Castresana J. 2000; Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis. Mol Biol Evol 17:540–552 [View Article][PubMed]
    [Google Scholar]
  5. Chakravarthy S. K., Ramaprasad E. V. V., Shobha E., Sasikala Ch., Ramana Ch. V. 2012; Rhodoplanes piscinae sp. nov. isolated from pond water. Int J Syst Evol Microbiol 62:2828–2834 [View Article][PubMed]
    [Google Scholar]
  6. De Groote M. A., Huitt G. 2006; Infections due to rapidly growing mycobacteria. Clin Infect Dis 42:1756–1763 [View Article][PubMed]
    [Google Scholar]
  7. Devulder G., Pérouse de Montclos M., Flandrois J. P., Montclos M. P. D. 2005; A multigene approach to phylogenetic analysis using the genus Mycobacterium as a model. Int J Syst Evol Microbiol 55:293–302 [View Article][PubMed]
    [Google Scholar]
  8. Falkinham J. O. 2013; Ecology of nontuberculous mycobacteria – where do human infections come from?. Semin Respir Crit Care Med 34:95–102 [View Article][PubMed]
    [Google Scholar]
  9. Ganji R., Dhali S., Rizvi A., Sankati S., Vemula M. H., Mahajan G., Rapole S., Banerjee S. 2016a; Proteomics approach to understand reduced clearance of mycobacteria and high viral titers during HIV-mycobacteria co-infection. Cell Microbiol 18:355–368 [View Article][PubMed]
    [Google Scholar]
  10. Ganji R., Dhali S., Rizvi A., Rapole S., Banerjee S. 2016b; Understanding HIV-Mycobacteria synergism through comparative proteomics of intra-phagosomal mycobacteria during mono- and HIV co-infection. Sci Rep 6:22060 [View Article]
    [Google Scholar]
  11. Iona E., Pardini M., Gagliardi M. C., Colone M., Stringaro A. R., Teloni R., Brunori L., Nisini R., Fattorini L., Giannoni F. 2012; Infection of human THP-1 cells with dormant Mycobacterium tuberculosis. Microbes Infect 14:959–967 [View Article][PubMed]
    [Google Scholar]
  12. Johnson M. M., Odell J. A. 2014; Nontuberculous mycobacterial pulmonary infections. J Thorac Dis 6:210–220 [View Article][PubMed]
    [Google Scholar]
  13. Katoch V. M. 2004; Infections due to non-tuberculous mycobacteria (NTM). Indian J Med Res 120:290–304[PubMed]
    [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. et al. 2012; Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. Int J Syst Evol Microbiol 62:716–721 [View Article][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 16:111–120 [View Article][PubMed]
    [Google Scholar]
  16. Kondo A., Mori K., Iwata J., Tamura M., Yamamoto T., Nakao Y., Maeda M. 2006; Caseous necrotic granuloma in the pituitary stalk due to nontuberculous Mycobacteria (Mycobacterium tokaiense) infection-case report. Neurol Med Chir 46:80–83 [View Article]
    [Google Scholar]
  17. Lehmann K. B., Neumann R. 1896 Atlas Und Grundriss Der Bakteriologie Und Lehrbuch Der Speziellen Bakteriologischen Diagnostik, 1st edn. Munchen: J.F. Lehmann;
    [Google Scholar]
  18. 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 39:159–167 [View Article]
    [Google Scholar]
  19. Padgitt P. J., Moshier S. E. 1987; Mycobacterium poriferae sp. nov., a Scotochromogenic, Rapidly Growing Species Isolated from a Marine Sponge. Int J Syst Bacteriol 37:186–191 [View Article]
    [Google Scholar]
  20. Prevots D. R., Marras T. K. 2015; Epidemiology of human pulmonary infection with nontuberculous mycobacteria: a review. Clin Chest Med 36:13–34 [View Article][PubMed]
    [Google Scholar]
  21. Ramaprasad E. V. V., Sasikala Ch., Ramana Ch. V. 2013; Neurosporene is the major carotenoid accumulated by Rhodobacter viridis JA737. Biotechnol Lett 35:1093–1097 [View Article][PubMed]
    [Google Scholar]
  22. Ramaprasad E. V. V ., Sasikala Ch., Ramana Ch. V. 2015a; Roseomonas oryzae sp. nov., isolated from paddy rhizosphere soil. Int J Syst Evol Microbiol 65:3535–3540 [View Article][PubMed]
    [Google Scholar]
  23. Ramaprasad E. V. V., Sasikala Ch., Ramana. 2015b; Flectobacillus rhizosphaerae sp. nov., isolated from the rhizosphere soil of Oryza sativa (L.), and emended description of the genus Flectobacillus. Int J Syst Evol Microbiol 65:3451–3456 [View Article][PubMed]
    [Google Scholar]
  24. Ramaprasad E. V. V., Sasikala Ch., Ramana. 2015c; Ornithinimicrobium algicola sp. nov., a marine actinobacterium isolated from the green alga of the genus Ulva sp. Int J Syst Evol Microbiol 65:4627–4631 [View Article][PubMed]
    [Google Scholar]
  25. Ramaprasad E. V. V., Bharti D., Sasikala C., Ramana. 2015d; Zooshikella marina sp. nov. a cycloprodigiosin- and prodigiosin-producing marine bacterium isolated from beach sand. Int J Syst Evol Microbiol 65:4669–4673 [View Article]
    [Google Scholar]
  26. Ramaprasad E. V. V., Tushar L., Dave B., Sasikala Ch., Ramana Ch. V. 2016; Rhodovulum algae sp. nov., isolated from an algal mat. Int J Syst Evol Microbiol 66:3367–3371 [CrossRef]
    [Google Scholar]
  27. Rhodes M. W., Kator H., McNabb A., Deshayes C., Reyrat J. M., Brown-Elliott B. A., Wallace R., Trott K. A., Parker J. M. et al. 2005; Mycobacterium pseudoshottsii sp. nov., a slowly growing chromogenic species isolated from Chesapeake Bay striped bass (Morone saxatilis). Int J Syst Evol Microbiol 55:1139–1147 [View Article][PubMed]
    [Google Scholar]
  28. Ringuet H., Akoua-Koffi C., Honore S., Varnerot A., Vincent V., Berche P., Gaillard J. L., Pierre-Audigier C. 1999; hsp65 sequencing for identification of rapidly growing mycobacteria. J Clin Microbiol 37:852–857[PubMed]
    [Google Scholar]
  29. Rosselló-Mora R., Amann R. 2001; The species concept for prokaryotes. FEMS Microbiol Rev 25:39–67 [View Article][PubMed]
    [Google Scholar]
  30. Schildberger A., Rossmanith E., Eichhorn T., Strassl K., Weber V. 2013; Monocytes, peripheral blood mononuclear cells, and THP-1 cells exhibit different cytokine expression patterns following stimulation with lipopolysaccharide. Mediators Inflamm 2013:697972 [View Article][PubMed]
    [Google Scholar]
  31. Seldin L., Dubnau D. 1985; Deoxyribonucleic acid homology among Bacillus polymyxa, Bacillus macerans, Bacillus azotofixans, and other nitrogen-fixing bacillus strains. Int J Syst Bacteriol 35:151–154 [View Article]
    [Google Scholar]
  32. Slany M., Svobodova J., Ettlova A., Slana I., Mrlik V., Pavlik I. 2010; Mycobacterium arupense among the isolates of non-tuberculous mycobacteria from human, animal, and environmental samples. Vet Med 55:369–376
    [Google Scholar]
  33. Stackebrandt E., Frederiksen W., Garrity G. M., Grimont P. A., Kämpfer P., Maiden M. C., Nesme X., Rosselló-Mora R., Swings J. et al. 2002; Report of the ad hoc committee for the re-evaluation of the species definition in bacteriology. Int J Syst Evol Microbiol 52:1043–1047 [View Article][PubMed]
    [Google Scholar]
  34. Tamura K., Stecher G., Peterson D., Filipski A., Kumar S. 2013; mega6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 30:2725–2729 [View Article][PubMed]
    [Google Scholar]
  35. Theus S. A., Cave M. D., Eisenach K. D. 2004; Activated THP-1 cells: an attractive model for the assessment of intracellular growth rates of Mycobacterium tuberculosis isolates. Infect Immun 72:1169–1173 [View Article][PubMed]
    [Google Scholar]
  36. Venkateswaran K., Moser D. P., Dollhopf M. E., Lies D. P., Saffarini D. A., MacGregor B. J., Ringelberg D. B., White D. C., Nishijima M. et al. 1999; Polyphasic taxonomy of the genus Shewanella and description of Shewanella oneidensis sp. nov. Int J Syst Bacteriol 49:705–724 [View Article][PubMed]
    [Google Scholar]
  37. Wayne L. G., Colwell R. R., Grimont P. A. D., Krichevsky M. I., Stackebrandt E., Truper H. G., Murray R. G. E., Moore W. E. C., Kandler O. et al. 1987; Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Evol Microbiol 37:463–464 [CrossRef]
    [Google Scholar]
  38. Zope W. 1883 Die Spaltpilze pp. 1–100 Breslau: Edward Trewendt;
    [Google Scholar]
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