1887

Abstract

A Gram-stain-positive, heterotrophic, non-spore-forming, rod-shaped strain, designated OAct353, belonging to the genus was isolated from a soil sample collected from a coastal wetland of the Yellow River delta, PR China. The strain was identified using a polyphasic taxonomic approach. The strain grew in the presence of 0–10 % (w/v) NaCl (optimum 2–3 %), at pH 5.0–8.0 (optimum pH 7.0) and 12–36 °C (optimum 28 °C). The isolate contained 2,4-diaminobutyric acid, glutamic acid and glycine in its peptidoglycan. The acyl type of the cell-wall muramic acid was -acetyl. The whole-cell sugars of this novel strain were glucose, xylose and rhamnose. The predominant menaquinones were MK-12 (74 %) and MK-11 (21 %). The major phospholipids were phosphatidylglycerol, one unknown phospholipid, three unknown glycolipids and three unknown polar lipids. The major fatty acids were iso-C, anteiso-C and anteiso-C. The DNA G+C content was 69.6 mol %. DNA-DNA relatedness clearly separated strain OAct353 from its closest relatives. On the basis of phenotypic, phylogenetic and chemotaxonomic data, a novel species, sp. nov., is proposed. The type strain is OAct353 (=CGMCC4.7180=DSM 28305=NRRL B-59115).

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2016-06-10
2020-09-26
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References

  1. Anand S., Bala K., Saxena A., Schumann P., Lal R.. 2012; Microbacterium amylolyticum sp. nov., isolated from soil from an industrial waste site. Int J Syst Evol Microbiol62:2114–2120 [CrossRef][PubMed]
    [Google Scholar]
  2. Chen J., Chen H. M., Zhang Y. Q., Wei Y. Z., Li Q. P., Liu H. Y., Zhang Y. Q., Zhang Y. Q., Yu L. Y.. 2011; Agromyces flavus sp. nov., anA. flavuscete isolated from soil. Int J Syst Evol Microbiol61:1705–1709 [CrossRef][PubMed]
    [Google Scholar]
  3. Cowan S. T., Steel K. J.. 1965; Manual for the Identification of Medical Bacteria London: Cambridge University Press;
    [Google Scholar]
  4. Cui X. L., Mao P. H., Zeng M., Li W. J., Zhang L. P., Xu L. H., Jiang C. L.. 2001; Streptimonospora salina gen. nov., sp. nov., a new member of the family Nocardiopsaceae . Int J Syst Evol Microbiol51:357–363 [CrossRef][PubMed]
    [Google Scholar]
  5. Dastager S. G., Liu Z. Q., Damare S., Tang S. K., Li W. J.. 2012; Agromyces indicus sp. nov., isolated from mangroves sediment in Chorao Island, Goa, India. Antonie Van Leeuwenhoek102:345–352 [CrossRef][PubMed]
    [Google Scholar]
  6. Dorofeeva L. V., Krausova V. I., Evtushenko L. I., Tiedje J. M.. 2003; Agromyces albus sp. nov., isolated from a plant (Androsace sp.). Int J Syst Evol Microbiol53:1435–1438 [CrossRef][PubMed]
    [Google Scholar]
  7. Ezaki T., Hashimoto Y., Yabuuchi E.. 1989; Fluorometric deoxyribonucleic acid-deoxyribonucleic acid hybridization in microdilution wells as an alternative to membrane filter hybridization in which radioisotopes are used to determine genetic relatedness among bacterial strains. Int J Syst Bacteriol39:224–229[CrossRef]
    [Google Scholar]
  8. Felsenstein J.. 1985; Confidence limits on phylogenies: An approach using the bootstrap. Evolution39:783–791[CrossRef]
    [Google Scholar]
  9. Felsenstein J.. 2002; PHYLIP (phylogeny inference package), version 3.6a. Seattle: Department of Genetics, University of Washington, 287 Seattle, WA, USA;
  10. Fitch W. M.. 1971; Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool20:406–416[CrossRef]
    [Google Scholar]
  11. Gledhill W. E., Casida L. E.. 1969; Predominant catalase-negative soil bacteria. III. Agromyces, gen. n., microorganisms intermediary to Actinomyces and Nocardia . Appl Microbiol18:340–349[PubMed]
    [Google Scholar]
  12. Hamada M., Iino T., Iwami T., Harayama S., Tamura T., Suzuki K.. 2010; Mobilicoccus pelagius gen. nov., sp. nov. and Piscicoccus intestinalis gen. nov., sp. nov., two new members of the family Dermatophilaceae, and reclassification of Dermatophilus chelonae (Masters et al.,1995) as Austwickia chelonae gen. nov., comb. nov . J Gen Appl Microbiol56:427–436[PubMed][CrossRef]
    [Google Scholar]
  13. Hamada M., Shibata C., Ishida Y., Tamura T., Yamamura H., Hayakawa M., Suzuki K. I.. 2014a; Agromyces iriomotensis sp. nov. and Agromyces subtropicus sp. nov. isolated from soil. Int J Syst Evol Microbiol64:833–838[CrossRef]
    [Google Scholar]
  14. Hamada M., Shibata C., Tamura T., Suzuki K. I.. 2014b; Agromyces marinus sp. nov., a novel actinobacterium isolated from sea sediment. J Antibiot67:703–706 [CrossRef]
    [Google Scholar]
  15. Jurado V., Groth I., Gonzalez J. M., Laiz L., Schuetze B., SaizJimenez C.. 2005b; Agromyces italicus sp. nov., Agromyces humatus sp. nov. and Agromyces lapidis sp. nov., isolated from Roman catacombs. Int J Syst Evol Microbiol55:871–875[CrossRef]
    [Google Scholar]
  16. Kaur C., Pinnaka A. K., Singh N. K., Bala M., Mayilraj S.. 2013; Agromyces arachidis sp. nov. isolated from a Peanut (Arachis hypogaea) crop field. International Journal of Microbiology1155–1161
    [Google Scholar]
  17. Kim O. S., Cho Y. J., Lee K., Yoon S. H., Kim M., Na H., Park S. C., Jeon Y. S., Yi H. et al. 2012; Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. Int J Syst Evol Microbiol62:716–721 [CrossRef][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 Evol16:111–120[PubMed][CrossRef]
    [Google Scholar]
  19. Kroppenstedt R. M.. 2004; Nocardiopsis aegyptia sp. nov., isolated from marine sediment. Int J Syst Evol Microbiol54:453–456 [CrossRef][PubMed]
    [Google Scholar]
  20. Li W. J., Zhang L. P., Xu P., Cui X. L., Xu L. H., Zhang Z., Schumann P., Stackebrandt E., Jiang C. L.. 2003; Agromyces aurantiacus sp. nov., isolated from a Chinese primeval forest. Int J Syst Evol Microbiol53:303–307 [CrossRef][PubMed]
    [Google Scholar]
  21. Marmur J., Doty P.. 1962; Determination of the base composition of deoxyribonucleic acid from its thermal denaturation temperature. J Mol Biol5:109–118[PubMed][CrossRef]
    [Google Scholar]
  22. Marmur J.. 1961; A procedure for the isolation of deoxyribonucleic acid from microorganisms. J Mol Biol3:208–218[CrossRef]
    [Google Scholar]
  23. McCarthy A. J., Cross T.. 1984; A taxonomic study of Thermomonospora and other monosporic actinomycetes. J Gen Microbiol130:5–25 [CrossRef]
    [Google Scholar]
  24. Minnikin D. E., Dobson G., Draper P.. 1984; Characterization of Mycobacterium leprae by lipid analysis. Acta Leprol3:113–120
    [Google Scholar]
  25. Minnikin D. E., O'Donnell A. G., Goodfellow M., Alderson G., Athalye M., Schaal A., Parlett J. H.. 1984; An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods2:233–241[CrossRef]
    [Google Scholar]
  26. Ortiz-Martinez A., Gonzalez J. M., Evtushenko L. I., Jurado V., Laiz L., Groth I., Saiz-Jimenez C.. 2004; Reclassification of Agromyces fucosus subsp. hippuratus as Agromyces hippuratus sp. nov., comb. nov. and emended description of Agromyces fucosus . Int J Syst Evol Microbiol54:1553–1556 [CrossRef][PubMed]
    [Google Scholar]
  27. Rivas R., Trujillo M. E., Mateos P. F., Martínez-Molina E., Velázquez E.. 2004; Agromyces ulmi sp. nov., xylanolytic bacterium isolated from Ulmus nigra in Spain. Int J Syst Evol Microbiol54:1987–1990 [CrossRef][PubMed]
    [Google Scholar]
  28. Saitou N., Nei M.. 1987; The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evo4:406–425
    [Google Scholar]
  29. Sasser M.. 1990; Identification of bacteria by gas chromatography of cellular fatty acids. USFCC Newsl20:16
    [Google Scholar]
  30. Schumann P.. 2011; Peptidoglycan structure. Methods Microbiol38:101–129[CrossRef]
    [Google Scholar]
  31. Shirling E. B., Gottlieb D.. 1966; Methods for characterization of Streptomyces species. Int J Syst Bacteriol16:313–340[CrossRef]
    [Google Scholar]
  32. Smibert R. M., Krieg N. R.. 1994; Phenotypic characterization. In Methods for General and Molecular Bacteriology, pp607–654 Edited by Gerhardt P., Murray R. G. E., Wood W. A., Krieg N. R.. Washington, DC: American Society for Microbiology;
    [Google Scholar]
  33. Staneck J. L., Roberts G. D.. 1974; Simplified approach to identification of aerobic actinomycetes by thin-layer chromatography. Appl Microbiol28:226–231[PubMed]
    [Google Scholar]
  34. Suzuki K., Sasaki J., Uramoto M., Nakase T., Komagata K.. 1996; Agromyces mediolanus sp. nov., nom. rev., comb. nov., a species for 'Corynebacterium mediolanum' Mamoli 1939 and for some aniline-assimilating bacteria which contain 2,4-diaminobutyric acid in the cell wall peptidoglycan. Int J Syst Bacteriol46:88–93 [CrossRef][PubMed]
    [Google Scholar]
  35. Takeuchi M., Hatano K.. 2001; Agromyces luteolus sp. nov., Agromyces rhizospherae sp. nov. and Agromyces bracchium sp. nov., from the mangrove rhizosphere. Int J Syst Evol Microbiol51:1529–1537 [CrossRef][PubMed]
    [Google Scholar]
  36. Tamura K., Stecher G., Peterson D., Filipski A., Kumar S.. 2013; MEGA6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol30:2725–2729 [CrossRef][PubMed]
    [Google Scholar]
  37. 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 Res25:4876–4882 [CrossRef][PubMed]
    [Google Scholar]
  38. Uchida K., Kudo T., Suzuki K. I., Nakase. 1999; A new rapid method of glycolate test by diethyl ether extraction, which is applicable to a small amount of bacterial cells of less than one milligram. J Gen Appl Microbiol45:49–56[PubMed][CrossRef]
    [Google Scholar]
  39. Verlander C. P.. 1992; Detection of horseradish peroxidase by colorimetry. In Nonisotopic DNA Probe Techniques pp185–201Edited by Kricka L. J.. New York: Academic Press;[CrossRef]
    [Google Scholar]
  40. Wayne L. G., Brenner D. J., Colwell R. R., other authors. 1987; International Committee on Systematic Bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol37:463–464[CrossRef]
    [Google Scholar]
  41. Williams S. T., Goodfellow M., Alderson G.. 1989; Genus Streptomyces Waksman and Henrici 1943, 339AL . In Bergey’s Manual of Systematic Bacteriologyvol. 4 pp.2452–2492 Edited by Williams S. T., Sharpe M. E., Holt J. G.. Baltimore: Williams & Wilkins;
    [Google Scholar]
  42. Xu P., Li W. J., Tang S. K., Zhang Y. Q., Chen G. Z., Chen H. H., Xu L. H., Jiang C. L.. 2005; Naxibacter alkalitolerans gen. nov., sp. nov., a novel member of the family ‘Oxalobacteraceae' isolated from China. Int J Syst Evol Microbiol55:1149–1153 [CrossRef][PubMed]
    [Google Scholar]
  43. Xu S., Yan L., Zhang X., Wang C., Feng G., Li J.. 2014; Nocardiopsis fildesensis sp. nov., an actinomycete isolated from soil. Int J Syst Evol Microbiol64:174–179 [CrossRef][PubMed]
    [Google Scholar]
  44. Zgurskaya H. I., Evtushenko L. I., Akimov V. N., Voyevoda H. V., Dobrovolskaya T. G., Lysak L. V., Kalakoutskii L. V.. 1992; Emended description of the genus Agromyces and description of Agromyces cerinus subsp. cerinus sp. nov., subsp. nov., Agromyces cerinus subsp. nitratus sp. nov., subsp. nov., Agromyces fucosus subsp. fucosus sp. nov., subsp. nov., and Agromyces fucosus subsp. hippuratus sp. nov., subsp. nov. Int J Syst Bacteriol42:635–641[CrossRef]
    [Google Scholar]
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