1887

Abstract

The taxonomic position of an actinobacterium, designated CPCC 204380, which was isolated from a rhizosphere soil sample of the plant Calligonum mongolicum collected from Xinjiang Province, China, was established using a polyphasic approach. Vegetative hyphae developed well and globose bodies formed from aged hyphae. Spore chains that differentiated from the vegetative hyphae contained non-motile rod-shaped spores. The peptidoglycan contained meso-diaminopimelic acid and 3-hydroxydiaminopimelic acid as the diagnostic amino acids. The acyl type of the peptidoglycan was glycolyl. Glucose, mannose, ribose and xylose were detected in whole-cell hydrolysates. The predominant menaquinone was MK-10(H8), followed by MK-10(H6) and MK-10(H4). The polar lipid profile consisted of diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylinositol and phosphatidylinositol mannoside. The major fatty acids were iso-C15 : 0, iso-C16 : 0 and C17 : 1ω9c. The genomic G+C content was 64.9 mol%. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain CPCC 204380 should be placed in the family Micromonosporaceae , in which it formed a distinct lineage next to the genera Rhizocola , Catellatospora , Catelliglobosispora , Hamadaea and Allocatelliglobosispora. It shared the highest 16S rRNA gene sequence similarities with Rhizocola hellebori K12-0602 (96.1 %), Catellatospora chokoriensis 2-25/1 (95.9 %), Catelliglobosispora koreensis DSM 44566 (95.9 %), Hamadaea tsunoensis DSM 44101 (95.3 %) and Allocatelliglobosispora scoriae Sco-B14 (94.2 %), and less than 94.0 % sequence similarity with other validly described species. The combination of phylogenetic analysis and phenotypic characteristics supported the proposal of strain CPCC 204380 as representing a novel species of a new genus in the family Micromonosporaceae , for which the name Allorhizocola rhizosphaerae gen. nov., sp. nov. is proposed. CPCC 204380 (=DSM 102292=KCTC 39746 ) is the type strain of the type species.

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.003114
2018-11-16
2019-12-13
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/69/1/109.html?itemId=/content/journal/ijsem/10.1099/ijsem.0.003114&mimeType=html&fmt=ahah

References

  1. Krasil’nikov NA. Ray fungi and related organisms. In Actinomycetales Moscow: Akademii Nauk SSSR (in Russian); 1938
    [Google Scholar]
  2. Koch C, Kroppenstedt RM, Rainey FA, Stackebrandt E. 16S ribosomal DNA analysis of the genera Micromonospora, Actinoplanes, Catellatospora, Catenuloplanes, Couchioplanes, Dactylosporangium, and Pilimelia and emendation of the family Micromonosporaceae. Int J Syst Bacteriol 1996;46:765–768 [CrossRef][PubMed]
    [Google Scholar]
  3. Stackebrandt E, Rainey FA, Ward-Rainey NL et al. Proposal for a new Hierarchic classification system, Actinobacteria classis nov. Int J Syst Bacteriol 1997;47:479–491 [CrossRef]
    [Google Scholar]
  4. Zhi XY, Li WJ, Stackebrandt E. 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 2009;59:589–608 [CrossRef][PubMed]
    [Google Scholar]
  5. Matsumoto A, Kawaguchi Y, Nakashima T, Iwatsuki M, Ōmura S et al. Rhizocola hellebori gen. nov., sp. nov., an actinomycete of the family Micromonosporaceae containing 3,4-dihydroxydiaminopimelic acid in the cell-wall peptidoglycan. Int J Syst Evol Microbiol 2014;64:2706–2711 [CrossRef][PubMed]
    [Google Scholar]
  6. Lee DW, Lee SD. Allocatelliglobosispora scoriae gen. nov., sp. nov., isolated from volcanic ash. Int J Syst Evol Microbiol 2011;61:264–270 [CrossRef][PubMed]
    [Google Scholar]
  7. Ara I, Bakir MA, Kudo T. Transfer of Catellatospora koreensis Lee et al. 2000 as Catelliglobosispora koreensis gen. nov., comb. nov. and Catellatospora tsunoense Asano et al. 1989 as Hamadaea tsunoensis gen. nov., comb. nov., and emended description of the genus Catellatospora Asano and Kawamoto 1986 emend. Lee and Hah 2002. Int J Syst Evol Microbiol 2008;58:1950–1960 [CrossRef][PubMed]
    [Google Scholar]
  8. Lee SD, Hah YC. Proposal to transfer Catellatospora ferruginea and 'Catellatospora ishikariense' to Asanoa gen. nov. as Asanoa ferruginea comb. nov. and Asanoa ishikariensis sp. nov., with emended description of the genus Catellatospora. Int J Syst Evol Microbiol 2002;52:967–972 [CrossRef][PubMed]
    [Google Scholar]
  9. Fang B, Liu C, Guan X, Song J, Zhao J et al. Two new species of the genus Micromonospora: Micromonospora palomenae sp. nov. and Micromonospora harpali sp. nov. isolated from the insects. Antonie van Leeuwenhoek 2015;108:141–150 [CrossRef][PubMed]
    [Google Scholar]
  10. Shirling EB, Gottlieb D. Methods for characterization of Streptomyces species. Int J Syst Bacteriol 1966;16:313–340 [CrossRef]
    [Google Scholar]
  11. Sun Y, Chen HH, Sun HM, Ai MJ, Su J et al. Naumannella huperziae sp. nov., an endophytic actinobacterium isolated from Huperzia serrata (Thunb.). Int J Syst Evol Microbiol 2017;67:1867–1872 [CrossRef][PubMed]
    [Google Scholar]
  12. Xu P, Li WJ, Tang SK, Zhang YQ, Chen GZ et al. Naxibacter alkalitolerans gen. nov., sp. nov., a novel member of the family 'Oxalobacteraceae' isolated from China. Int J Syst Evol Microbiol 2005;55:1149–1153 [CrossRef][PubMed]
    [Google Scholar]
  13. Magee CM, Rodeheaver G, Edgerton MT, Edlich RF. A more reliable gram staining technic for diagnosis of surgical infections. Am J Surg 1975;130:341–346 [CrossRef][PubMed]
    [Google Scholar]
  14. Yuan LJ, Zhang YQ, Guan Y, Wei YZ, Li QP et al. Saccharopolyspora antimicrobica sp. nov., an actinomycete from soil. Int J Syst Evol Microbiol 2008;58:1180–1185 [CrossRef][PubMed]
    [Google Scholar]
  15. Zhou ZH, Liu ZH, Qian YD, Kim SB, Goodfellow M. Saccharopolyspora spinosporotrichia sp. nov., a novel actinomycete from soil. Int J Syst Bacteriol 1998;48:53–58 [CrossRef][PubMed]
    [Google Scholar]
  16. Komagata K, Suzuki K. Lipid and cell wall analysis in bacterial systematics. Methods Microbiol 1987;19:161–206
    [Google Scholar]
  17. Hasegawa T, Takizawa M, Tanida S. A rapid analysis for chemical grouping of aerobic actinomycetes. J Gen Appl Microbiol 1983;29:319–322 [CrossRef]
    [Google Scholar]
  18. Lechevalier MP, Lechevalier HA. The chemotaxonomy of actinomycetes. In Dietz A, Thayer J. (editors) Actinomycete Taxonomy (Special Publication no.6) Arlington, VA: Society for Industrial Microbiology; 1980; pp.227–291
    [Google Scholar]
  19. 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 [CrossRef]
    [Google Scholar]
  20. Collins MD, Pirouz T, Goodfellow M, Minnikin DE. Distribution of menaquinones in actinomycetes and corynebacteria. J Gen Microbiol 1977;100:221–230 [CrossRef][PubMed]
    [Google Scholar]
  21. Groth I, Schumann P, Rainey FA, Martin K, Schuetze B et al. Demetria terragena gen. nov., sp. nov., a new genus of actinomycetes isolated from compost soil. Int J Syst Bacteriol 1997;47:1129–1133 [CrossRef][PubMed]
    [Google Scholar]
  22. Du HJ, Zhang YQ, Liu HY, Su J, Wei YZ et al. Allonocardiopsis opalescens gen. nov., sp. nov., a new member of the suborder Streptosporangineae, from the surface-sterilized fruit of a medicinal plant. Int J Syst Evol Microbiol 2013;63:900–904 [CrossRef][PubMed]
    [Google Scholar]
  23. Kroppenstedt RM. Fatty acid and menaquinone analysis of actinomycetes and related organisms. In Goodfellow M, Minnikin DE. (editors) Chemical Methods in Bacterial Systematics (Society for Applied Bacteriology Technical Series vol. 20) Manhattan, NY: Academic Press; 1985; pp.173–199
    [Google Scholar]
  24. Li WJ, Xu P, Schumann P, Zhang YQ, Pukall R et al. Georgenia ruanii sp. nov., a novel actinobacterium isolated from forest soil in Yunnan (China), and emended description of the genus Georgenia. Int J Syst Evol Microbiol 2007;57:1424–1428 [CrossRef][PubMed]
    [Google Scholar]
  25. Yoon SH, Ha SM, Kwon S, Lim J, Kim Y et al. Introducing EzBioCloud: a taxonomically united database of 16S rRNA gene sequences and whole-genome assemblies. Int J Syst Evol Microbiol 2017;67:1613–1617 [CrossRef][PubMed]
    [Google Scholar]
  26. Tamura K, Peterson D, Peterson N, Stecher G, Nei M et al. MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 2011;28:2731–2739 [CrossRef][PubMed]
    [Google Scholar]
  27. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987;4:406–425 [CrossRef][PubMed]
    [Google Scholar]
  28. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 1981;17:368–376 [CrossRef][PubMed]
    [Google Scholar]
  29. Kluge AG, Farris JS. Quantitative phyletics and the evolution of anurans. Syst Zool 1969;18:1–32 [CrossRef]
    [Google Scholar]
  30. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985;39:783–791 [CrossRef][PubMed]
    [Google Scholar]
  31. Marmur J, Doty P. Determination of the base composition of deoxyribonucleic acid from its thermal denaturation temperature. J Mol Biol 1962;5:109–118 [CrossRef][PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.003114
Loading
/content/journal/ijsem/10.1099/ijsem.0.003114
Loading

Data & Media loading...

Supplements

Supplementary File 1

PDF

Most Cited This Month

This is a required field
Please enter a valid email address
Approval was a Success
Invalid data
An Error Occurred
Approval was partially successful, following selected items could not be processed due to error