1887

Abstract

Two novel strains, LHW50502 and LHW51113, were isolated from marine sponges obtained on Xisha Island, Hainan Province, PR China. Rods and cocci, typical characteristics of the genus , were observed. The strains contained -diaminopimelic acid as the diagnostic diamino acid in the cell-wall hydrolysates and galactose, arabinose, ribose and glucose as the whole-cell sugars. The major fatty acid identified was C. MK-8(H) was the predominat menaquinone of both strains. Stains LHW50502 and LHW51113 had almost identical (99.6 %) 16S rRNA gene sequences but shared relatively low similarities with previously characterized species (well below 98.7 %). The results of phylogenetic analysis supported their closest relationship; however, the average nucleotide identity and digital DNA–DNA hybridization values between these two strains indicated that they belonged to distinct species. Taken together, the results of this study indicate that strains LHW50502 and LHW51113 represent two novel species of the genus , for which the names sp. nov. (type strain LHW50502=DSM 106291=CCTCC AA 2018033) and sp. nov. (type strain LHW51113=DSM 106204=CCTCC AA 2018034) are proposed.

Funding
This study was supported by the:
  • the National Natural Science Foundation of China (Award No. 31600014 and 41506149)
    • Principle Award Recipient: Wei-zhuoTang
  • the Training Program for Excellent Young Innovators of Changsha (Award kq2009024)
    • Principle Award Recipient: Wei-zhuoTang
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.004863
2021-07-23
2024-04-25
Loading full text...

Full text loading...

References

  1. Zopf W. ÜBer Ausscheidung Von Fettfarbstoffen (Lipochromen) Seitens Gewisser Spaltpilze 1891 pp 22–28
    [Google Scholar]
  2. McLeod MP, Warren RL, Hsiao WWL, Araki N, Myhre M et al. The complete genome of Rhodococcus sp RHA1 provides insights into a catabolic powerhouse. P Natl Acad Sci USA 2006; 103:15582–15587
    [Google Scholar]
  3. Smith TJ, Lloyd JS, Gallagher SC, Fosdike WLJ, Murrell JC et al. Heterologous expression of alkene monooxygenase from Rhodococcus rhodochrous B-276. Eur J Biochem 1999; 260:446–452 [View Article] [PubMed]
    [Google Scholar]
  4. van der Werf MJ, Overkamp KM, de Bont JA. Limonene-1,2-epoxide hydrolase from Rhodococcus erythropolis DCL14 belongs to a novel class of epoxide hydrolases. J Bacteriol 1998; 180:5052–5057 [View Article] [PubMed]
    [Google Scholar]
  5. Larkin MJ, Allen CCR, Kulakov LA, Lipscomb DA. Purification and characterization of a novel naphthalene dioxygenase from Rhodococcus sp strain NCIMB12038. J Bacteriol 1999; 181:6200–6204 [View Article] [PubMed]
    [Google Scholar]
  6. Misono H, Yonezawa J, Nagata S, Nagasaki S. Purification and characterization of a dimeric phenylalanine dehydrogenase from Rhodococcus maris K-18. J Bacteriol 1989; 171:30–36 [View Article] [PubMed]
    [Google Scholar]
  7. Tischler D, Eulberg D, Lakner S, Kaschabek SR, van Berkel WJH et al. Identification of a novel self-sufficient styrene monooxygenase from Rhodococcus opacus 1CP. J Bacteriol 2009; 191:4996–5009 [View Article]
    [Google Scholar]
  8. Indest KJ, Eberly JO, Hancock DE. Expression and characterization of an N-oxygenase from Rhodococcus jostii RHAI. J Gen Appl Micr 2015; 61:217–223
    [Google Scholar]
  9. Elsayed Y, Refaat J, Abdelmohsen U, Fouad M. The genus Rhodococcus as a source of novel bioactive substances: A review. J Pharmacogn Phytochem 2017; 6:83–92
    [Google Scholar]
  10. Oldfield C, Wood NT, Gilbert SC, Murray FD, Faure FR. Desulphurisation of benzothiophene and dibenzothiophene by actinomycete organisms belonging to the genus Rhodococcus, and related taxa. Antonie van Leeuwenhoek 1998; 74:119–132 [View Article] [PubMed]
    [Google Scholar]
  11. Finkelstein ZI, Baskunov BP, Golovlev EL, Vervoort J, Rietjens I et al. Fluorene transformation by bacteria of the genus Rhodococcus. Micr 2003; 72:660–665
    [Google Scholar]
  12. Inoue D, Tsunoda T, Sawada K, Yamamoto N, Saito Y et al. 1,4-Dioxane degradation potential of members of the genera Pseudonocardia and Rhodococcus. Biodegradation 2016; 27:277–286 [View Article] [PubMed]
    [Google Scholar]
  13. Kim BY, Stach JEM, Weon HY, Kwon SW, Goodfellow M. Dactylosporangium luridum sp nov., Dactylosporangium luteum sp nov and Dactylosporangium salmoneum sp nov., nom. rev., isolated from soil. Int J Syst Evol Micr 2010; 60:1813–1823
    [Google Scholar]
  14. Shirling EB, Gottlieb D. Methods for characterization of Streptomyces species. Int J Syst Bacteriol 1966; 16:313–340 [View Article]
    [Google Scholar]
  15. Kelly KL. Inter-Society Color Council–national Bureau of Standards Color Name Charts Illustrated with Centroid Colors Washington, DC: US Government Printing Office; 1964
    [Google Scholar]
  16. Waksman SA. The Actinomycetes. A Summary of Current Knowledge New York: Ronald Press; 1967
    [Google Scholar]
  17. Xu P, WJ L, 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 Micr 2005; 55:1149–1153
    [Google Scholar]
  18. Teather RM, Wood PJ. Use of Congo red-polysaccharide interactions in enumeration and characterization of cellulolytic bacteria from the bovine rumen. Appl Environ Micr 1982; 43:777–780
    [Google Scholar]
  19. Arai T. Culture Media for Actinomycetes Tokyo: The Society for Actinomycetes Japan; 1975
    [Google Scholar]
  20. Williams ST, Cross T. Actinomycetes. Booth C. editor In Methods in Microbiology Vol 4 London: Academic Press; 1971 pp 295–334
    [Google Scholar]
  21. Guo L, Tuo L, Habden X, Zhang Y, Liu J et al. Allosalinactinospora lopnorensis gen. nov., sp. nov., a new member of the family Nocardiopsaceae isolated from soil. Int J Syst Evol Micr 2015; 65:206–213
    [Google Scholar]
  22. Williams ST, Goodfellow M, Alderson G, Wellington EM, Sneath PH. Numerical classification of Streptomyces and related genera. J Gen Micr 1983; 129:1743–1813
    [Google Scholar]
  23. Kampfer P, Steiof M, Dott W. Microgical characterization of a fuel-oil contaminated site including numerical identification of heterotrophic water and soil bacteria. Microb Ecol 1991; 21:227–251 [View Article] [PubMed]
    [Google Scholar]
  24. Nakajima Y, Kitpreechavanich V, Suzuki K, Kudo T. Microbispora corallina sp. nov., a new species of the genus Microbispora isolated from Thai soil. Int J Syst Evol Microbiol 1999; 49:1761–1767 [View Article]
    [Google Scholar]
  25. Yoon SH, SM H, 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 Micr 2017; 67:1613–1617
    [Google Scholar]
  26. Edgar RC. MUSCLE: a multiple sequence alignment method with reduced time and space complexity. BMC Bioinformatics 2004; 5:113 [View Article] [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 [View Article] [PubMed]
    [Google Scholar]
  28. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 1981; 17:368–376 [View Article] [PubMed]
    [Google Scholar]
  29. Fitch WM. Toward defining the course of evolution: Minimum change for a specific tree topology. Systematic Biology 1971; 20:406–416 [View Article]
    [Google Scholar]
  30. Kumar S, Stecher G, Tamura K. Mega7: Molecular Evolutionary Genetics Analysis version 7.0 for bigger datasets. Mol Biol Evol 2016; 33:1870–1874 [View Article] [PubMed]
    [Google Scholar]
  31. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985; 39:783–791 [View Article] [PubMed]
    [Google Scholar]
  32. Coil D, Jospin G, Darling AE. A5-miseq: an updated pipeline to assemble microbial genomes from Illumina MiSeq data. Bioinformatics 2015; 31:587–589 [View Article] [PubMed]
    [Google Scholar]
  33. Lechevalier MP, Lechevalier HA. The chemotaxonomy of actinomycetes. Dietz A, Thayer D. eds In Actinomycete Taxonomy, Special Publication 6 Arlington VA: Society of Industrial Microgy; 1980 pp 227–291
    [Google Scholar]
  34. 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 Micr Meth 1984; 2:233–241
    [Google Scholar]
  35. Athalye M, Noble WC, Minnikin DE. Analysis of cellular fatty acids by gas chromatography as a tool in the identification of medically important coryneform bacteria. J Appl Bacteriol 1985; 58:507–512 [View Article] [PubMed]
    [Google Scholar]
  36. Chun J, Oren A, Ventosa A, Christensen H, Arahal DR et al. Proposed minimal standards for the use of genome data for the taxonomy of prokaryotes. Int J Syst Evol Microbiol 2018; 68:461 [View Article] [PubMed]
    [Google Scholar]
  37. Meier-Kolthoff JP, Göker M, Spröer C, Klenk H-P et al. When should a DDH experiment be mandatory in microbial taxonomy?. Arch Microbiol 2013; 195:413–418 [View Article]
    [Google Scholar]
  38. Meierkolthoff JP, Klenk H, Goker M. Taxonomic use of DNA G+C content and DNA–DNA hybridization in the genomic age. Int J Syst Evol Micr 2014; 64:352–356
    [Google Scholar]
  39. Wayne LG, Brenner DJ, Colwell RR, Grimont PAD et al. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Evol Micr 1987; 37:463–464 [View Article]
    [Google Scholar]
  40. Richter M, Rossello-Mora R. Shifting the genomic gold standard for the prokaryotic species definition. P Natl Acad Sci USA 2009; 106:19126–19131
    [Google Scholar]
  41. Ma J, Zhang L, Wang G, Zhang S, Zhang X et al. Rhodococcus gannanensis sp. nov., a novel endophytic actinobacterium isolated from root of sunflower (Helianthus annuus L. Antonie van Leeuwenhoek 2017; 110:1113–1120 [View Article] [PubMed]
    [Google Scholar]
  42. Guo QQ, Ming H, Meng XL, Duan YY et al. Rhodococcus agglutinans sp. nov., an actinobacterium isolated from a soil sample. Antonie van Leeuwenhoek 2015; 107:1271–1280 [View Article] [PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.004863
Loading
/content/journal/ijsem/10.1099/ijsem.0.004863
Loading

Data & Media loading...

Supplements

Supplementary material 1

PDF
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