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Volume 66, Issue 2

gen. nov., sp. nov. isolated from soil, a member of the family Free

Abstract

The taxonomic positions of three Gram-stain-positive, aerobic strains, designated YIM 75722, 75726 and 75728, and isolated from a soil sample collected from Kurnool of Andhra Pradesh province, India, were assessed using a polyphasic approach. Growth was observed at pH 7.0–10.0 (optimum pH 7.0), 15–28 °C (optimum 28 °C) and 0–8 % (w/v) NaCl (grew without NaCl). Strains showed cylindrical spores with straight-chain morphology on aerial mycelium, but did not reveal sporangium-like structures or fragmentation of the substrate mycelium. Whole-cell hydrolysates of all strains contained galactose and ribose as the diagnostic sugars and -diaminopimelic acid as the diamino acid. The predominant menaquinone was MK-9(H); MK-9 (H) and MK-10 (H) were present in smaller amounts. The phospholipid pattern consisted mainly of diphosphatidylglycerol, phosphatidylglycerol and phosphatidylcholine. The major fatty acids were i-C, ai-C, i-C and ai-C. The genomic DNA G+C content was 68.0 mol%. Phylogenetic analysis, based on 16S rRNA gene sequences, revealed that strain YIM 75728 should be placed within the family , in which the strain formed a distinct lineage. The combination of phylogenetic analysis, phenotypic characteristics and chemotaxonomic data support the conclusion that strain YIM 75728 represents a novel species of a novel genus of the family for which the name gen. nov., sp. nov., is proposed. Strain YIM 75728 ( = DSM 45410 = CCTCC AA 209065) is the type strain of . Strain YIM 75728 was considered as the type strain over the other two strains based on the highest sequence read length of the strain.

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2016-02-01
2024-04-23
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References

  1. Becker B., Gordon R. E., Lechevalier H. A., Lechevalier M. P. 1964; Rapid differentiation between Nocardia and Streptomyces by paper chromatography of whole cell hydrolysates. Appl Microbiol 12:421–423
     [Google Scholar]
  2. Collins M. D., Jones D. 1980; Lipids in the classification and identification of coryneform bacteria containing peptidoglycan based on 2, 4-diaminobutyric acid. J Appl Bacteriol 48:459–470 [View Article]
     [Google Scholar]
  3. Collins M. D., Pirouz T., Goodfellow M., Minnikin D. E. 1977; Distribution of menaquinones in actinomycetes and corynebacteria. J Gen Microbiol 100:221–230 [View Article][PubMed]
     [Google Scholar]
  4. Eck R. V., Dayhoff M. O. 1966 Atlas of Protein Sequence and Structure Silver Springs, MD: National Biomedical Research Foundation;
     [Google Scholar]
  5. Embley M. T., Smida J., Stackebrandt E. 1988; The phylogeny of mycolate-less wall chemotype IV actinomycetes and description of Pseudonocardiaceae fam. nov. Syst Appl Microbiol 11:44–52 [View Article]
     [Google Scholar]
  6. Embley M. T., Smida J., Stackebrandt E. 1989; Pseudonocardiaceae fam. nov. In Validation of the Publication of New Names and New Combinations Previously Effectively Published Outside the IJSB, List 29. Int J Syst Bacteriol 39:205–206 [View Article]
     [Google Scholar]
  7. Euzéby J. P. 1997; List of bacterial names with standing in nomenclature: a folder available on the internet. Int J Syst Bacteriol 47:590–592 [View Article][PubMed]
     [Google Scholar]
  8. Felsenstein J. 1981; Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17:368–376 [View Article][PubMed]
     [Google Scholar]
  9. Felsenstein J. 1985; Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–791 [View Article]
     [Google Scholar]
  10. Gordon R. E., Barnett D. A., Handerhan J. E., Pang C. H. 1974; Nocardia coeliaca, Nocardia autotrophica, and the nocardin strain. Int J Syst Bacteriol 24:54–63 [View Article]
     [Google Scholar]
  11. Groth I., Schumann P., Rajney F. A., Martin K., Schuetze B., Augsten K. 1997a; Bogoriella caseilytica gen. nov., sp. nov., a new alkaliphilic actinomycete from a soda lake in Africa. Int J Syst Bacteriol 47:788–794 [View Article][PubMed]
     [Google Scholar]
  12. Groth I., Schumann P., Rainey F. A., Martin K., Schuetze B., Augsten K. 1997b; Demetria terragena gen. nov., sp. nov., a new genus of actinomycetes isolated from compost soil. Int J Syst Bacteriol 47:1129–1133 [View Article][PubMed]
     [Google Scholar]
  13. Hasegawa T., Lechevalier M. P., Lechevalier H. A. 1978; A new genus of Actinomycetales: Actinosynnema gen. nov. Int J Syst Bacteriol 28:304–310 [View Article]
     [Google Scholar]
  14. Hasegawa T., Takizawa M., Tanida S. 1983; A rapid analysis for chemical grouping of aerobic actinomycetes. J Gen Appl Microbiol 29:319–322 [View Article]
     [Google Scholar]
  15. Jacobson E., Grauville W. C., Fogs C. E. 1958 Color Harmony Manual, 4th edn. Chicago: Container Corporation of America;
     [Google Scholar]
  16. Kämpfer P., Kroppenstedt R. M. 1996; Numerical analysis of fatty acid patterns of coryneform bacteria and related taxa. Can J Microbiol 42:989–1005 [View Article]
     [Google Scholar]
  17. Kataoka M., Ueda K., Kudo T., Seki T., Yoshida T. 1997; Application of the variable region in 16S rDNA to create an index for rapid species identification in the genus Streptomyces . FEMS Microbiol Lett 151:249–255 [View Article][PubMed]
     [Google Scholar]
  18. Kieser Y., Bibb M. J., Buttner M. J., Chater K. F., Hopwood D. A. 2000 Practical Streptomyces Genetics Norwich: The John Innes Foundation;
     [Google Scholar]
  19. 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]
  20. Labeda D. P., Kroppenstedt R. M. 2000; Phylogenetic analysis of Saccharothrix and related taxa: proposal for Actinosynnemataceae fam. nov. Int J Syst Evol Microbiol 50:331–336 [View Article][PubMed]
     [Google Scholar]
  21. Labeda D. P., Kroppenstedt R. M. 2007; Proposal of Umezawaea gen. nov., a new genus of the Actinosynnemataceae related to Saccharothrix, and transfer of Saccharothrix tangerinus Kinoshita et al. 2000 as Umezawaea tangerina gen. nov., comb. nov. Int J Syst Evol Microbiol 57:2758–2761 [View Article][PubMed]
     [Google Scholar]
  22. Labeda D. P., Lechevalier M. P. 1989; Amendment of the genus Saccharothrix Labeda et al. 1984 and descriptions of Saccharothrix espanaensis sp. nov., Saccharothrix cryophilis sp. nov., and Saccharothrix mutabilis comb. nov. Int J Syst Bacteriol 39:420–423 [View Article]
     [Google Scholar]
  23. Labeda D. P., Hatano K., Kroppenstedt R. M., Tamura T. 2001; Revival of the genus Lentzea and proposal for Lechevalieria gen. nov. Int J Syst Evol Microbiol 51:1045–1050 [View Article][PubMed]
     [Google Scholar]
  24. Labeda D. P., Goodfellow M., Chun J., Zhi X. Y., Li W. J. 2011; Reassessment of the systematics of the suborder Pseudonocardineae: transfer of the genera within the family Actinosynnemataceae Labeda and Kroppenstedt 2000 emend. Zhi et al. 2009 into an emended family Pseudonocardiaceae Embley et al. 1989 emend. Zhi et al. 2009. Int J Syst Evol Microbiol 61:1259–1264 [CrossRef]
     [Google Scholar]
  25. Larkin M. A., Blackshields G., Brown N. P., Chenna R., McGettigan P. A., McWilliam H., Valentin F., Wallace I. M., Wilm A., other authors. 2007; clustal w clustal x version 2.0. Bioinformatics 23:2947–2948 [View Article][PubMed]
     [Google Scholar]
  26. Martínez-Murcia A. J., Rodríguez-Valera F. 1994; The use of arbitrarily primed PCR (AP-PCR) to develop taxa specific DNA probes of known sequence. FEMS Microbiol Lett 124:265–269 [View Article][PubMed]
     [Google Scholar]
  27. 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]
  28. Minnikin D. E., Collins M. D., Goodfellow M. 1979; Fatty acid and polar lipid composition in the classification of Cellulomonas, Oerskovia and related taxa. J Appl Bacteriol 47:87–95 [View Article]
     [Google Scholar]
  29. Saitou N., Nei M. 1987; The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425
     [Google Scholar]
  30. Sasser M. 1990 Identification of bacteria by gas chromatography of cellular fatty acids MIDI Technical Note 101 Newark, DE: MIDI Inc;
     [Google Scholar]
  31. Shirling E. B., Gottlieb D. 1966; Methods for characterization of Streptomyces species. Int J Syst Bacteriol 16:313–340 [View Article]
     [Google Scholar]
  32. Stackebrandt E., Kroppenstedt R. M., Jahnke K.-D., Kemmerling C., Gürtler H. 1994; Transfer of Streptosporangium viridogriseum (Okuda et al., 1966), Streptosporangium viridogriseum subsp. kofuense (Nonomura and Ohara 1969), and Streptosporangium albidum (Furumai et al. 1968) to Kutzneria gen. nov. as Kutzneria viridogrisea comb. nov., Kutzneria kofuensis comb. nov., and Kutzneria albida comb. nov., respectively, and emendation of the genus Streptosporangium . Int J Syst Bacteriol 44:265–269 [View Article]
     [Google Scholar]
  33. Stackebrandt E., Rainey F. A., Ward-Rainey N. L. 1997; Proposal for a new hierarchic classification system, Actinobacteria classis nov. Int J Syst Bacteriol 47:479–491 [View Article]
     [Google Scholar]
  34. Suriyachadkun C., Ngaemthao W., Chunhametha S., Tamura T., Sanglier J. J. 2013; Kutzneria buriramensis sp. nov., isolated from soil, and emended description of the genus Kutzneria . Int J Syst Evol Microbiol 63:47–52 [View Article][PubMed]
     [Google Scholar]
  35. 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]
  36. Tomiyasu I., Yano I. 1984; Separation and analysis of novel polyunsaturated mycolic acids from a psychrophilic, acid-fast bacterium, Gordona aurantiaca . Eur J Biochem 139:173–180 [View Article][PubMed]
     [Google Scholar]
  37. Warwick S., Bowen T., McVeigh H., Embley T. M. 1994; A phylogenetic analysis of the family Pseudonocardiaceae and the genera Actinokineospora and Saccharothrix with 16S rRNA sequences and a proposal to combine the genera Amycolata and Pseudonocardia in an emended genus Pseudonocardia . Int J Syst Bacteriol 44:293–299 [View Article][PubMed]
     [Google Scholar]
  38. Yassin A. F., Rainey F. A., Brzezinka H., Jahnke K. D., Weissbrodt H., Budzikiewicz H., Stackebrandt E., Schaal K. P. 1995; Lentzea gen. nov., a new genus of the order Actinomycetales . Int J Syst Bacteriol 45:357–363 [View Article][PubMed]
     [Google Scholar]
  39. Yuan L. J., Zhang Y. Q., Guan Y., Wei Y. Z., Li Q. P., Yu L. Y., Li W. J., Zhang Y. Q. 2008; Saccharopolyspora antimicrobica sp. nov., an actinomycete from soil. Int J Syst Evol Microbiol 58:1180–1185 [View Article][PubMed]
     [Google Scholar]
  40. 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 59:589–608 [View Article][PubMed]
     [Google Scholar]
  41. Zhou Z.-H., Liu Z.-H., Qian Y.-D., Kim S. B., Goodfellow M. 1998; Saccharopolyspora spinosporotrichia sp. nov., a novel actinomycete from soil. Int J Syst Bacteriol 48:53–58 [View Article][PubMed]
     [Google Scholar]
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Actinorectispora indica gen. nov., sp. nov. isolated from soil, a member of the family Pseudonocardiaceae
Int J Syst Evol Microbiol 66, 939 (2016); https://doi.org/10.1099/ijsem.0.000814
/content/journal/ijsem/10.1099/ijsem.0.000814
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