Phylogenetic Evidence for Transfer of Pentachlorophenol- Mineralizing Rhodococcus chlorophenolicus PCP-IT to the Genus Mycobacterium

References

1. Apajalahti J. H. A., Kärpänoja P., Salkinoja-Salonen M. S. 1986; Rhodococcus chlorophenolicus sp. nov., a chlorophenol-mineralizing actinomycete. Int. J. Syst. Bacteriol. 36:246–251
   [Google Scholar]
2. Apajalahti J. H. A., Salkinoja-Salonen M. S. 1984; Absorption of pentachlorophenol (PCP) by bark chips and its role in microbial PCP degradation. Microb. Ecol. 10:359–367
   [Google Scholar]
3. Apajalahti J. H. A., Salkinoja-Salonen M. S. 1986; Degradation of polychlorinated phenols by Rhodococcus chlorophenolicus. Appl. Microbiol. Biotechnol. 25:62–67
   [Google Scholar]
4. Baylis H. A., Bibb M. J. 1988; Organization of the ribosomal RNA genes in Streptomyces coelicolor A3 (2). Mol. Gen. Genet. 211:191–196
   [Google Scholar]
5. Bercovier H., Kafri O., Sela S. 1986; Mycobacteria possess a surprisingly small number of ribosomal RNA genes in relation to the size of their genome. Biochem. Biophys. Res. Commun. 136:1136–1141
   [Google Scholar]
6. Briglia M., Middeldorp P. J. M., Salkinoja-Salonen M. S. 1994; Mineralization performance of Rhodococcus chlorophenolicus strain PCP-1 in contaminated soil simulating on site conditions. Soil Biol. Biochem. 26:377–385
   [Google Scholar]
7. Briglia M., Nurmiaho-Lassila E.-L., Vallini G., Salkinoja-Salonen M. S. 1990; The survival of the pentachlorophenol-degrading Rhodococcus chlorophenolicus PCP-1 and Flavobacterium sp. in natural soil. Biodegradation 1:273–281
   [Google Scholar]
8. Brosius J., Palmer M. L., Kennedy P. L., Noller H. F. 1978; Complete nucleotide sequence of a 16S ribosomal RNA gene from Escherichia coli. Proc. Natl. Acad. Sci. USA 75:4801–4805
   [Google Scholar]
9. Collins M. D. 1987; Transfer of Arthrobacter variabilis to the genus Corynebacterium, as Corynebacterium variabilis comb. nov. Int. J. Syst. Bacteriol. 37:287–288
   [Google Scholar]
10. Collins M. D., Smida J., Stackebrandt E. 1989; Phylogenetic evidence for the transfer of Caseobacter polymorphus (Crombach) to the genus Corynebacterium. Int. J. Syst. Bacteriol. 39:7–9
    [Google Scholar]
11. Cresswell N., Saunders V. A., Wellington E. M. H. 1991; Detection and quantitation of Streptomyces violaceolatus plasmid DNA in soil. Lett. Appl. Microbiol. 13:193–197
    [Google Scholar]
12. Devereux J., Haeberli P., Smithies O. 1984; A comprehensive set of sequence analysis programs for the VAX. Nucleic Acids Res. 12:387–395
    [Google Scholar]
13. Eggen R. I. L., Geerling A. C. M., De Groot P. W. J., Ludwig W., Vos de W. M. 1992; Methanogenic bacterium Göl: an acetoclastic methanogen that is closely related to Methanosarcina frisia. Syst. Appl. Microbiol. 15:582–586
    [Google Scholar]
14. Embley T. M., Smida J., Stackebrandt E. 1988; Reverse transcriptase sequencing of 16S ribosomal RNA from Faenia rectivirgula, Pseudonocardia thermophila and Saccharopolyspora hirsuta, three wall type IV actinomycetes which lack mycolic acids. J. Gen. Microbiol. 134:961–966
    [Google Scholar]
15. Felsenstein J. 1982; Numerical methods for inferring evolutionary trees. Q. Rev. Biol. 57:379–404
    [Google Scholar]
16. Fox G. E., Stackebrandt E., Hespell R. B., Gibson J., Maniloff J., Dyer T. A., Wolfe R. S., Balch W. E., Tanner R. S., Magrum L. J., Zahlen L. B., Blakemore R., Bonen L., Lewis B. J., Stahl D. A., Luehrsen K. R., Chen K. N., Woese C. R. 1980; The phytogeny of prokaryotes. Science 209:457–463
    [Google Scholar]
17. Gibson T. J. 1984 Studies on the Epstein-Barr virus genome Cambridge University; Cambridge: Ph.D. thesis.
    [Google Scholar]
18. Goodfellow M., Alderson G. 1977; The actinomycete genus Rhodococcus: a home for the “rhodochrous” complex. J. Gen. Microbiol. 100:99–122
    [Google Scholar]
19. Häggblom M. M., Nohynek L. J., Palleroni N. J., Kronqvist K., Nurmiaho-Lassila E.-L., Salkinoja-Salonen M. S., Klatte S., Kroppenstedt R. M. 1994; Transfer of polychlorophenol-degrading Rhodococcus chlorophenolicus (Apajalahti et al. 1986) to the genus Mycobacterium as Mycobacterium chlorophenolicum comb, nov. Int. J. Syst. Bacteriol. 44:485–493
    [Google Scholar]
20. Hamid M. E., Minnikin D. E., Goodfellow M. 1993; A simple chemical test to distinguish mycobacteria from other mycolic-acid-containing actinomycetes. J. Gen. Microbiol. 139:2203–2213
    [Google Scholar]
21. Lindhai L., Zengel J. M. 1986; Ribosomal genes in Escherichia coli. Annu. Rev. Genet. 20:297–326
    [Google Scholar]
22. Ludwig W., Kirchof G., Weizenegger M., Weiss M. 1992; Phylogenetic evidence for the transfer of Eubacterium suis to the genus Actinomyces as Actinomyces suis comb. nov. Int. J. Syst. Bacteriol. 42:161–165
    [Google Scholar]
23. Middeldorp P. J. M., Briglia M., Salkinoja-Salonen M. S. 1990; Biodégradation of pentachlorophenol in natural polluted soil by inoculated Rhodococcus chlorophenolicus. Microb. Ecol. 20:123–139
    [Google Scholar]
24. Nomura N., Gourse R., Baughman G. 1984; Regulation of the synthesis of ribosomes and ribosomal components. Annu. Rev. Biochem. 53:75–117
    [Google Scholar]
25. Pitulle C., Dorsch M., Kazda J., Stackebrandt E. 1992; Phytogeny of rapidly growing members of the genus Mycobacterium. Int. J. Syst. Bacteriol. 42:337–343
    [Google Scholar]
26. Rogall T., Wolters J., Flohr T., Böttger E. C. 1990; Towards a phytogeny and definition of species at the molecular level within the genus Mycobacterium. Int. J. Syst. Bacteriol. 40:323–330
    [Google Scholar]
27. Saiki R. K., Scharf S., Faloona F., Mullis K. B., Horn G. T., Erlich H. A., Arnheim N. 1985; Enzymatic amplification of β-globin genomic sequences and restriction site analysis for diagnosis of sickle cell anemia. Science 230:1350–1354
    [Google Scholar]
28. Saitou N., Nei M. 1987; The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4:406–425
    [Google Scholar]
29. Salkinoja-Salonen M., Middeldorp P. J. M., Briglia M., Valo R., Häggblom M., McBain A. 1989; Cleanup of old industrial sites. Adv. Appl. Biotechnol. 4:344–367
    [Google Scholar]
30. Sambrook J., Fritsch E. F., Maniatis T. 1989 Molecular cloning: a laboratory manual, 2nd ed.. Cold Spring Harbor Laboratory; Cold Spring Harbor, N.Y.:
    [Google Scholar]
31. Sanger F., Fritsch E. F., Maniatis T. 1977; DNA sequencing with chain-terminating inhibitors. Proc. Natl. Acad. Sci. USA 74:5463–5467
    [Google Scholar]
32. Stackebrandt E., Smida J. 1988; The phytogeny of the genus Mycobacterium as determined by 16S rRNA sequences, and development of DNA probes. 244–250 Biology of actinomycetes Japan Scientific Societies Press; Tokyo:
    [Google Scholar]
33. Stackebrandt E., Smida J., Collins M. D. 1988; Evidence of phylogenetic heterogeneity within the genus Rhodococcus: revival of the genus Gordona (Tsukamura). J. Gen. Appl. Microbiol. 34:341–348
    [Google Scholar]
34. Stahl D. A., Urbance J. W. 1990; The division between fast-and slow-growing species corresponds to natural relationships among the mycobacteria. J. Bacteriol. 172:116–124
    [Google Scholar]
35. Suzuki Y., Yoshinaga K., Ono Y., Nagata A., Yamada T. 1987; Organization of rRNA genes in Mycobacterium bovis BCG. J. Bacteriol. 169:839–843
    [Google Scholar]
36. Valo R., Häggblom M., Salkinoja-Salonen M. S. 1990; Bioremediation of chlorophenol containing simulated ground water by immobilized bacteria. Water Res. 24:253–258
    [Google Scholar]
37. Valo R., Salkinoja-Salonen M. S. 1986; Bioreclamation of chlorophenol contaminated soil by composting. Appl. Microbiol. Biotechnol. 25:68–75
    [Google Scholar]
38. Woese C. R. 1987; Bacterial evolution. Microbiol. Rev. 51:221–271
    [Google Scholar]
39. Woese C. R., Guteil R., Gupta R., Noller H. F. 1983; Detailed analysis of the higher-order structure of 16S-like ribosomal ribonucleic acids. Microbiol. Rev. 47:621–669
    [Google Scholar]
40. Yanisch-Perron C., Vieira J., Messing J. 1985; Improved M13 phage cloning vectors and host strains: nucleotide sequences of the M13mpl8 and pUC19 vectors. Gene 33:103–119
    [Google Scholar]