1887

Abstract

A novel actinomycete, designated MI503-A4, was isolated from soil. Comparative analysis of 16S rRNA gene sequences indicated that MI503-A4 was phylogenetically related to members of the family Pseudonocardiaceae . The most closely related genus was Kibdelosporangium (95.7–96.2 % sequence similarity). Substrate mycelia were branched and pale yellow to pale yellowish-brown. Straight- to zigzag-shaped aerial mycelia were observed, but Sporangium-like structures were absent. The whole-cell hydrolysate contained meso-diaminopimelic acid. The muramic acid residues in the peptidoglycan were N-acetylated. Whole-cell sugars were rhamnose, ribose, arabinose and galactose (cell wall chemotype IV). The predominant menaquinone was MK-9(H4). A small amount of MK-8(H4) was also detected. The DNA G+C content was 70.3–71.1 mol%. Polar lipids contained diphosphatidylglycerol, phosphatidylethanolamine and hydroxyl-phosphatidylethanolamine. Cellular fatty acid analysis of MI503-A4 detected predominantly iso-C14 : 0 (11.5 %), iso-C15 : 0 (13.3 %) and iso-C16 : 0 (35.7 %). Phenotypic and phylogenetic characteristics differentiated MI503-A4 from members of all genera within the family Pseudonocardiaceae with validly published names. Therefore, MI503-A4 is proposed to be a representative of a novel species in a novel genus, Actinocrispum wychmicini gen. nov., sp. nov. The type strain of the type species is MI503-A4 (=NBRC 109632=DSM 45934).

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2016-11-01
2019-10-19
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References

  1. Cao Y. R., Chen X., Jiang Y., Wang L. S., Jiang C. L..( 2013;). Allokutzneria multivorans sp. nov., an actinomycete isolated from soil. . Int J Syst Evol Microbiol63:4254–4258. [CrossRef][PubMed]
    [Google Scholar]
  2. Collins M. D., Pirouz T., Goodfellow M., Minnikin D. E..( 1977;). Distribution of menaquinones in actinomycetes and corynebacteria. . J Gen Microbiol100:221–230. [CrossRef][PubMed]
    [Google Scholar]
  3. Duangmal K., Poomthongdee N., Pathom-Aree W., Take A., Thamchaipenet A., Matsumoto A., Takahashi Y..( 2014;). Allokutzneria oryzae sp. nov., isolated from rhizospheric soil of Oryza sativa L. . Int J Syst Evol Microbiol64:3559–3564. [CrossRef][PubMed]
    [Google Scholar]
  4. 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 Microbiol11:44–52. [CrossRef]
    [Google Scholar]
  5. Felsenstein J..( 1981;). Evolutionary trees from DNA sequences: a maximum likelihood approach. . J Mol Evol17:368–376. [CrossRef]
    [Google Scholar]
  6. Felsenstein J..( 1985;). Confidence limits on phylogenies: an approach using the bootstrap. . Evolution39:783–791. [CrossRef]
    [Google Scholar]
  7. Fitch W. M..( 1971;). Toward defining the course of evolution: minimum change for a specific tree topology. . Syst Zool20:406–416. [CrossRef]
    [Google Scholar]
  8. Gordon R. E., Barnett D. A., Handerhan J. E., Pang C. H.-N..( 1974;). Nocardia coeliaca, Nocardia autotrophica, and the Nocardin Strain. . Int J Syst Bacteriol24:54–63. [CrossRef]
    [Google Scholar]
  9. Hall A. T..( 1999;). BioEdit: a user friendly biological sequence alignment editor and analysis program for Windows 95/98/nt. . Nucleic Acid Symposium41:95–98.
    [Google Scholar]
  10. Hasegawa T..( 1988;). Actinokineospora: a new genus of the Actinomycetales. . Actinomycetologica2:31–45. [CrossRef]
    [Google Scholar]
  11. Hasegawa T., Lechevalier M. P., Lechevalier H. A..( 1978;). A new genus of Actinomycetales: Actinosynnema gen. nov. . Int J Syst Bactriol28:304–310. [CrossRef]
    [Google Scholar]
  12. Henssen A..( 1957;). Beiträge zur Morphologie und Systematik der thermophilen Actinomyceten. . Archiv für Mikrobiologie26:373–414. [CrossRef]
    [Google Scholar]
  13. Indananda C., Matsumoto A., Inahashi Y., Takahashi Y., Duangmal K., Thamchaipenet A..( 2010;). Actinophytocola oryzae gen. nov., sp. nov., isolated from the roots of Thai glutinous rice plants, a new member of the family Pseudonocardiaceae. . Int J Syst Evol Microbiol60:1141–1146. [CrossRef][PubMed]
    [Google Scholar]
  14. Intra B., Matsumoto A., Inahashi Y., Omura S., Takahashi Y., Panbangred W..( 2013;). Actinokineospora bangkokensis sp. nov., isolated from rhizospheric soil. . Int J Syst Evol Microbiol63:2655–2660. [CrossRef][PubMed]
    [Google Scholar]
  15. Jiang Y., Wiese J., Tang S. K., Xu L. H., Imhoff J. F., Jiang C. L..( 2008;). Actinomycetospora chiangmaiensis gen. nov., sp. nov., a new member of the family Pseudonocardiaceae. . Int J Syst Evol Microbiol58:408–413. [CrossRef][PubMed]
    [Google Scholar]
  16. Kawamoto I., Oka T., Nara T..( 1981;). Cell wall composition of Micromonospora olivasterospora, Micromonospora sagamiensis, and related organisms. . J Bacteriol146:527–534.
    [Google Scholar]
  17. Kim S. B., Goodfellow M..( 1999;). Reclassification of Amycolatopsis rugosa Lechevalier et al. 1986 as Prauserella rugosa gen. nov., comb. nov. . Int J Syst Bacteriol49:507–512. [CrossRef][PubMed]
    [Google Scholar]
  18. Kinoshita N., Igarashi M., Ikeno S., Hori M., Hamada M..( 1990;). Saccharothrix tangerinus sp. nov., the producer of the new antibiotic formamicin: taxonomic studies. . Actinomycetologica13:20–31. [CrossRef]
    [Google Scholar]
  19. Korn-Wendisch F., Rainey F., Kroppenstedt R. M., Kempf A., Majazza A., Kutzner H. J., Stackebrandt E..( 1995;). Thermocrispum gen. nov., a new genus of the order Actinomycetales, and description of Thermocrispum municipale sp. nov. and Thermocrispum agreste sp. nov. . Int J Syst Bacteriol45:67–77. [CrossRef][PubMed]
    [Google Scholar]
  20. Labeda D. P..( 2001;). Crossiella gen. nov., a new genus related to Streptoalloteichus. . Int J Syst Evol Microbiol51:1575–1579. [CrossRef][PubMed]
    [Google Scholar]
  21. Labeda D. P., Kroppenstedt R. M..( 2006;). Goodfellowia gen. nov., a new genus of the Pseudonocardineae related to Actinoalloteichus, containing Goodfellowia coeruleoviolacea gen. nov., comb. nov. . Int J Syst Evol Microbiol56:1203–1207. [CrossRef][PubMed]
    [Google Scholar]
  22. 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 Microbiol57:2758–2761. [CrossRef][PubMed]
    [Google Scholar]
  23. Labeda D. P., Kroppenstedt R. M..( 2008;). Proposal for the new genus Allokutzneria gen. nov. within the suborder Pseudonocardineae and transfer of Kibdelosporangium albatum Tomita et al. 1993 as Allokutzneria albata comb. nov. . Int J Syst Evol Microbiol58:1472–1475. [CrossRef][PubMed]
    [Google Scholar]
  24. Labeda D. P., Testa R. T., Lechevalier M. P., Lechevalier H. A..( 1984;). Saccharothrix: a new genus of the related to nocardiopsis. . Int J Syst Bacteriol34:426–431. [CrossRef]
    [Google Scholar]
  25. 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 Microbiol51:1045–1050. [CrossRef][PubMed]
    [Google Scholar]
  26. Labeda D. P., Price N. P., Tan G. Y. A., Goodfellow M., Klenk H.-P..( 2010;). Emended description of the genus Actinokineospora Hasegawa 1988 and transfer of Amycolatopsis fastidiosa Henssen et al. 1987 as Actinokineospora fastidiosa comb. nov. . Int J Syst Evol Microbiol60:1444–1449. [CrossRef]
    [Google Scholar]
  27. Lacey J., Goodfellow M..( 1975;). A novel actinomycete from sugar-cane bagasse: Saccharopolyspora hirsuta gen. et. sp. nov. . J Gen Microbiol88:75–85. [CrossRef][PubMed]
    [Google Scholar]
  28. Lai H., Wei X., Jiang Y., Chen X., Li Q., Jiang Y., Jiang C., Gillerman L..( 2014;). Halopolyspora alba gen. nov., sp. nov., isolated from sediment. . Int J Syst Evol Microbiol64:2775–2780. [CrossRef][PubMed]
    [Google Scholar]
  29. Lechevalier M. P., Prauser H., Labeda D. P., Ruan J.-S..( 1986;). Two new genera of nocardioform actinomycetes: Amycolata gen. nov. and Amycolatopsis gen. nov. . Int J Syst Bacteriol36:29–37. [CrossRef]
    [Google Scholar]
  30. Lee S. D..( 2012;). Labedaea rhizosphaerae gen. nov., sp. nov., isolated from rhizosphere soil. . Int J Syst Evol Microbiol62:1772–1778. [CrossRef][PubMed]
    [Google Scholar]
  31. Mao J., Wang J., Dai H. Q., Zhang Z. D., Tang Q. Y., Ren B., Yang N., Goodfellow M., Zhang L. X., Liu Z. H..( 2011;). Yuhushiella deserti gen. nov., sp. nov., a new member of the suborder Pseudonocardineae. . Int J Syst Evol Microbiol61:621–630. [CrossRef][PubMed]
    [Google Scholar]
  32. Mertz F. P., Yao R. C..( 1988;). Kibdelosporangium philippinense sp. nov. isolated from soil. . Int J Syst Bacteriol38:282–286. [CrossRef]
    [Google Scholar]
  33. Minnikin D. E., Patel P. V., Alshamaony L., Goodfellow M..( 1977;). Polar lipid composition in the classification of Nocardia and related bacteria. . Int J Syst Bacteriol27:104–117. [CrossRef]
    [Google Scholar]
  34. Minnikin D. E., Hutchinson I. G., Caldicott A. B., Goodfellow M..( 1980;). Thin-layer chromatography of methanolysates of mycolic acid-containing bacteria. . J Chromatogra188:221–233. [CrossRef]
    [Google Scholar]
  35. Noguchi T., Kumagai M., Kuninaka A..( 1988;). Analysis of base composition of sequenced DNA’s by high performance liquid chromatography of their nuclease P1 hydrolysate. . Agric Biol Chem52:2355–2356.
    [Google Scholar]
  36. Nonomura H., Ohara Y..( 1971;). Distribution of actinomycetes in soil. X. new genus and species of monosporic actinomycetes in soil. . J Ferment Technol49:895–903.
    [Google Scholar]
  37. Nozawa Y., Sakai N., Arai K., Kawasaki Y., Harada K..( 2007;). Reliable and sensitive analysis of amino acids in the peptidoglycan of actinomycetes using the advanced Marfey's method. . J Microbiol Methods70:306–311. [CrossRef]
    [Google Scholar]
  38. Otoguro M., Hayakawa M., Yamazaki T., Tamura T., Hatano K., Iimura Y..( 2001;). Numerical phenetic and phylogenetic analyses of Actinokineospora isolates, with a description of Actinokineospora auranticolor sp. nov. and Actinokineospora enzanensis sp. nov. . Actinomycetologica15:30–39. [CrossRef]
    [Google Scholar]
  39. Qin S., Bai J. L., Wang Y., Feng W. W., Yuan B., Sun Y., Cao C. L., Ju X. Y., Huang Y., Jiang J. H..( 2015;). Tamaricihabitans halophyticus gen. nov., sp. nov., an endophytic actinomycete of the family Pseudonocardiaceae. . Int J Syst Evol Microbiol65:4662–4668. [CrossRef][PubMed]
    [Google Scholar]
  40. Quadri S. R., Tian X. P., Zhang J., Al Ruwaili J., Hozzein W. N., Agser D., Li W. J..( 2016;). Actinorectispora indica gen. nov., sp. nov., a novel member of the family Pseudonocardiaceae isolated from soil. . Int J Syst Evol Microbiol66:939–945.[CrossRef]
    [Google Scholar]
  41. Saitou N., Nei M..( 1987;). The neighbor-joining method: a new method for reconstructing phylogenetic trees. . Mol Biol Evol4:406–425.[PubMed]
    [Google Scholar]
  42. Shearer M. C., Colman P. M., Nash C. H..( 1983;). Nocardiopsis mutabilis, a new species of nocardioform bacteria isolated from soil. . Int J Syst Bacteriol33:369–374. [CrossRef]
    [Google Scholar]
  43. Shearer M. C., Colman P. M., Ferrin R. M., Nisbet L. J., Nash C. H..( 1986a;). New genus of the Actinomycetales: Kibdelosporangium aridum gen. nov., sp. nov. . Int J Syst Bacteriol36:47–54. [CrossRef]
    [Google Scholar]
  44. Shearer M. C., Giovenella A. J., Grappel S. F., Hedde R. D., Mehta R. J., Oh Y. K., Pan C. H., Pitkin D. H., Nisbet L. J..( 1986b;). Kibdelins, novel glycopeptide antibiotics. I Discovery, production, and biological evaluation. . J Antibiot39:1386–1394. [CrossRef]
    [Google Scholar]
  45. Shirling E. B., Gottlieb D..( 1966;). Methods for characterization of Streptomyces species. . Int J Syst Bacteriol16:313–340. [CrossRef]
    [Google Scholar]
  46. Stackebrandt E., Kroppenstedt R. M., Jahnke K. D., Kemmerling C., Gurtler 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 Bacteriol44:265–269.[CrossRef]
    [Google Scholar]
  47. Stackebrandt E., Rainey F. A., Ward-Rainey N. L..( 1997;). Proposal for a new hierarchic classification system, Actinobacteria classis nov. . Int J Syst Bacteriol47:479–491. [CrossRef]
    [Google Scholar]
  48. Stanek J. L., Roberts G. D..( 1974;). Simplified approach to identification of aerobic actinomycetes by thin-layer chromatography. . Appli Microbiol28:226–231.
    [Google Scholar]
  49. Tajima F., Nei M..( 1984;). Estimation of evolutionary distance between nucleotide sequences. . Mol Biol Evol1:269–285.[PubMed]
    [Google Scholar]
  50. Tamura T., Zhiheng L., Yamei Z., Hatano K..( 2000;). Actinoalloteichus cyanogriseus gen. nov., sp. nov. . Int J Syst Evol Microbiol50:1435–1440. [CrossRef]
    [Google Scholar]
  51. Tamura K., Peterson D., Peterson N., Stecher G., Nei M., Kumar S..( 2011;). mega5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. . Mol Biol Evol28:2731–2739. [CrossRef]
    [Google Scholar]
  52. Tang S. K., Wang Y., Zhang H., Lee J. C., Lou K., Kim C. J., Li W. J..( 2010;). Haloechinothrix alba gen. nov., sp. nov., a halophilic, filamentous actinomycete of the suborder Pseudonocardineae. . Int J Syst Evol Microbiol60:2154–2158. [CrossRef][PubMed]
    [Google Scholar]
  53. Tang X., Zhou Y., Zhang J., Ming H., Nie G. X., Yang L. L., Tang S. K., Li W. J..( 2012;). Actinokineospora soli sp. nov., a thermotolerant actinomycete isolated from soil, and emended description of the genus Actinokineospora. . Int J Syst Evol Microbiol62:1845–1849. [CrossRef][PubMed]
    [Google Scholar]
  54. Thompson J. D., Higgins D. G., Gibson T. J..( 1994;). clustal w: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. . Nucleic Acids Res22:4673–4680. [CrossRef]
    [Google Scholar]
  55. Tian X. P., Zhi X. Y., Qiu Y. Q., Zhang Y. Q., Tang S. K., Xu L. H., Zhang S., Li W. J..( 2009;). Sciscionella marina gen. nov., sp. nov., a marine actinomycete isolated from a sediment in the northern South China Sea. . Int J Syst Evol Microbiol59:222–228. [CrossRef][PubMed]
    [Google Scholar]
  56. Tomita K., Nakakita Y., Hoshino Y., Numata K., Kawaguchi H..( 1987;). New genus of the Actinomycetales: Streptoalloteichus hindustanus gen. nov., nom. rev.; sp. nov., nom. rev. . Int J Syst Bacteriol37:211–213. [CrossRef]
    [Google Scholar]
  57. Uchida K., Kudo T., Suzuki K. I., Nakase T..( 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. [CrossRef][PubMed]
    [Google Scholar]
  58. Wu H., Lian Y., Liu B., Ren Y., Qin P., Huang F..( 2014;). Thermotunica guangxiensis gen. nov., sp. nov., isolated from mushroom residue compost. . Int J Syst Evol Microbiol64:1593–1599. [CrossRef][PubMed]
    [Google Scholar]
  59. Xia Z. F., Guan T. W., Ruan J. S., Huang Y., Zhang L. L..( 2013;). Longimycelium tulufanense gen. nov., sp. nov., a filamentous actinomycete of the family Pseudonocardiaceae. . Int J Syst Evol Microbiol63:2813–2818. [CrossRef][PubMed]
    [Google Scholar]
  60. Xing K., Bian G. K., Qin S., Klenk H. P., Yuan B., Zhang Y. J., Li W. J., Jiang J. H..( 2012;). Kibdelosporangium phytohabitans sp. nov., a novel endophytic actinomycete isolated from oil-seed plant Jatropha curcas L. containing 1-aminocyclopropane-1-carboxylic acid deaminase. . Antonie van Leeuwenhoek101:433–441. [CrossRef][PubMed]
    [Google Scholar]
  61. 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 Bacteriol45:357–363. [CrossRef][PubMed]
    [Google Scholar]
  62. Yuan L. J., Zhang Y. Q., Yu L. Y., Liu H. Y., Guan Y., Lee J. C., Kim C. J., Zhang Y. Q..( 2010;). Alloactinosynnema album gen. nov., sp. nov., a member of the family Actinosynnemataceae isolated from soil. . Int J Syst Evol Microbiol60:39–43. [CrossRef][PubMed]
    [Google Scholar]
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