Skip to main content
Log in

Rhodococcus jostii: a home for Rhodococcus strain RHA1

  • Short Communication
  • Published:
Antonie van Leeuwenhoek Aims and scope Submit manuscript

Abstract

The taxonomic position of Rhodococcus strain RHA1, an effective degrader of polychlorinated biphenyls with a large linear chromosome, was established using a polyphasic approach. The morphological and chemotaxonomic properties of the strain were typical of members of the genus Rhodococcus. The strain shared a high level of 16S rRNA sequence similarity (99.9 %) with the type strain of Rhodococcus jostii, a member of the Rhodococcus erythropolis subclade. The two strains shared a DNA:DNA relatedness value well above the cut-off point recommended for the circumscription of genomic species and had a broad range of phenotypic properties in common. The combination of genomic and phenotypic data show strain RHA1 to be a bona fide member of the species Rhodococcus jostii.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Fig. 1

References

  • Collins MD (1994) Isoprenoid quinones. In: Goodfellow M, O’Donnell AG (eds) Chemical methods in prokaryotic systematics. Wiley, Chichester, pp 265–309

    Google Scholar 

  • Felsenstein J (1981) Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17:368–376

    Article  PubMed  CAS  Google Scholar 

  • Felsenstein J (1985) Confidence limits on phylogenics: an approach using the bootstrap. Evolution 39:783–791

    Article  Google Scholar 

  • Gonzalez JM, Saiz-Jimenez C (2005) A simple fluorimetric method for the estimation of DNA–DNA relatedness between closely related microorganisms by thermal denaturation temperatures. Extremophiles 9:75–79

    Article  PubMed  CAS  Google Scholar 

  • Goodfellow M, Jones AL (2012) Order V. Corynebacteriales ord. nov. In: Goodfellow M, Kämpfer P, Busse H-J, Trujillo ME, Suzuki K-I, Ludwig W, Whitman WB (eds) Bergey’s manual of systematic bacteriology, vol 5, 2nd edn. The Actinobacteria part A, New York, pp 235–243

    Chapter  Google Scholar 

  • Goodfellow M, Thomas EG, Ward AC, Jones AL (1990) Classification and identification of rhodococci. Zentralbl Bakteriol 274:299–315

    Article  PubMed  CAS  Google Scholar 

  • Gordon RE, Mihm JM (1962) Identification of Nocardia caviae (Erikson) comb. nov. Ann NY Acad Sci 98:628–636

    Article  Google Scholar 

  • Jones AL, Goodfellow M (2012) Genus Rhodococcus (Zopf 1891) emend Goodfellow, Alderson and Chun. In: Goodfellow M, Kämpfer P, Busse H-J, Trujillo ME, Suzuki K-I, Ludwig W, Whitman WB (eds) Bergey’s manual of systematic bacteriology, vol 5, 2nd edn., The Actinobacteria part ASpringer, New York, pp 437–464

    Google Scholar 

  • Jones AL, Brown JM, Mishra V, Perry JD, Steigerwalt A, Goodfellow M (2004) Rhodococcus gordoniae sp. nov., an actinomycete isolated from clinical material and phenol contaminated soil. Int J Syst Evol Microbiol 54:407–411

    Article  PubMed  CAS  Google Scholar 

  • Jukes TH, Cantor CR (1969) Evolution of protein molecules. In: Munro HN (ed) Mammalian protein metabolism, vol 3. Academic Press, New York, pp 21–132

    Google Scholar 

  • Kim D, Chun J, Sahin N, Hah YC, Goodfellow M (1996) Analysis of thermophilic clades within the genus Streptomyces in 16S rRNA ribosomal DNA sequence comparisons. Int J Syst Evol Bacteriol 46:581–587

    Article  CAS  Google Scholar 

  • Kimbara K, Hashimoto T, Fukuda M, Koana T, Takagi M, Oshi M, Yano K (1989) Cloning and sequencing of two tandem genes involved in degradation of 2.3 dihydroxybiphenyl to benzoic acid in the polychlorinated biphenyl-degrading soil bacterium Pseudomonas sp. strain KKS 102. J Bacteriol 171:2740–2747

    PubMed  CAS  Google Scholar 

  • Kluge AG, Farris FS (1969) Quantitative phyletics and the evolution of anurans. Syst Zool 18:1–32

    Article  Google Scholar 

  • Kroppenstedt RM (1985) Fatty acid and menaquinone analysis of actinomycetes and related organisms. In: Goodfellow M, Minnikin DE (eds) Chemical methods in bacterial systematics. Academic Press, London pp, pp 173–199

    Google Scholar 

  • Lechevalier MP, Lechevalier H (1970) Chemical composition as a criterion in the classification of aerobic actinomycetes. Int J Syst Bacteriol 20:435–443

    Article  CAS  Google Scholar 

  • Lechevalier MP, De Biévre C, Lechevalier HA (1977) Chemotaxonomy of aerobic actinomycetes: phospholipid composition. Biochem Syst Ecol 5:249–260

    Article  CAS  Google Scholar 

  • Masai E, Yamada A, Healy JM, Hatta T, Kimbara K, Fukuda M, Yano K (1995) Characterization of biphenyl catabolic genes of Gram-positive polychlorinated biphenyl degrader Rhodococcus sp. strain RHA1. Appl Environ Microbiol 61:2079–2085

    PubMed  CAS  Google Scholar 

  • McFarland J (1907) The nephelometer: an instrument for estimating the number of bacteria in suspensions used for calculating the opsonic index and for vaccines. J Am Med Assoc 14:1176–1178

    Article  Google Scholar 

  • McLeod MP, Warren RL, Hsiao WW, Araki N, Myhre M et al (2006) The complete genome of Rhodococcus sp. RHA1 provides insights into a catabolic powerhouse. Proc Natl Acad Sci USA 103:15582–15587

    Article  PubMed  Google Scholar 

  • Minnikin DE, Hutchinson JG, Caldicott AB, Goodfellow M (1980) Thin-layer chromatography of methanolysates of mycolic-acid containing bacteria. J Chromatogr A188:221–233

    Google Scholar 

  • Minnikin DE, O’Donnell AG, Goodfellow M, Alderson G, Athalye M, Schaal A, Parlett JH (1984) An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 2:233–241

    Article  CAS  Google Scholar 

  • Saitou N, Nei M (1987) The Neighbour-joining method: a new method for constructing phylogenetic trees. Mol Biol Evol 4:406–425

    PubMed  CAS  Google Scholar 

  • Schaal KP (1985) Identification of clinically significant actinomycetes and related bacteria using chemical techniques. In: Goodfellow M, Minnikin DE (eds) Chemical methods in bacterial systematics. Wiley, Chichester, pp 359–381

    Google Scholar 

  • Seto M, Kimbara K, Shimura M, Hatta T, Tukuda M, Yano K (1995) A novel transformation of polychlorinated biphenyls by Rhodococcus sp. strain RHA1. Appl Environ Microbiol 61:3353–3358

    PubMed  CAS  Google Scholar 

  • Staneck JL, Roberts GD (1974) Simplified approach to identification of aerobic actinomycetes by thin-layer chromatography. Appl Microbiol 28:226–231

    PubMed  CAS  Google Scholar 

  • Sutcliffe IC (2000) Characterisation of a lipomannan lipoglycan from the mycolic acid containing actinomycete Dietzia maris. Antonie Van Leeuwenhoek 78:195–201

    Article  PubMed  CAS  Google Scholar 

  • Takeuchi M, Hatano K, Sedlácek I, Pácová Z (2002) Rhodococcus jostii sp. nov., isolated from a medieval grave. Int J Syst Evol Microbiol 52:409–413

    PubMed  CAS  Google Scholar 

  • Tamura K, Peterson D, Peterson N, Stecher G, Nei M, Kumar S (2011) MEGA 5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance and maximum-parsimony methods. Mol Biol Ecol 28:2731–2739

    Article  CAS  Google Scholar 

  • Uchida K, Kudo T, Suzuki KI, 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 Microbiol 45:49–56

    Article  PubMed  CAS  Google Scholar 

  • Wayne LG, Brenner DJ, Colwell RR et al (1987) International Committee on Systematic Bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 37:463–464

    Article  Google Scholar 

  • Whitman WB (2011) Intent of the nomenclatural code and recommendations about naming new species based on genomic sequences. The Bulletin of BISMiS 2:135–139

    Google Scholar 

  • Yam KC, Okamoto S, Roberts JN, Ellis LD (2011) Adventures in Rhodococcus: from steroids to explosives. Can J Microbiol 57:155–168

    Article  PubMed  CAS  Google Scholar 

Download references

Acknowledgments

The authors are indebted to Lindsay Eltis and Bill Mohn of the University of British Columbia; Vancouver, for their helpful input into this study.

Author information

Authors and Affiliations

Authors

Corresponding author

Correspondence to Amanda L. Jones.

Additional information

The GenBank accession number for the 16S rRNA gene sequence of Rhodococcus jostii RHA1 is CP 000431.

Rights and permissions

Reprints and permissions

About this article

Cite this article

Jones, A.L., Davies, J., Fukuda, M. et al. Rhodococcus jostii: a home for Rhodococcus strain RHA1. Antonie van Leeuwenhoek 104, 435–440 (2013). https://doi.org/10.1007/s10482-013-9958-5

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s10482-013-9958-5

Keywords

Navigation