Classification of strain CCM 4446T as Rhodococcus degradans sp. nov.

Pavel Švec, Jitka Černohlávková, Hans-Jürgen Busse, Hana Vojtková, Roman Pantu Ček, Margo Cnockaert, Ivana Mašlaňová, Stanislava Králová, Peter Vandamme, Ivo Sedláček

Journal: International journal of systematic and evolutionary microbiology 2016;65(12):4381-4387

PMID: 26385412

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Abstract

Strain CCM 4446T, with notable biodegradation capabilities, was investigated in this study in order to elucidate its taxonomic position. Chemotaxonomic analyses of quinones, polar lipids, mycolic acids, polyamines and the diamino acid of the cell-wall peptidoglycan corresponded with characteristics of the genus Rhodococcus. Phylogenetic analysis, based on the 16S rRNA gene sequence, assigned strain CCM 4446T to the genus Rhodococcus and placed it in the Rhodococcus erythropolis 16S rRNA gene clade. Further analysis of catA and gyrB gene sequences, automated ribotyping with EcoRI restriction endonuclease, whole-cell protein profiling, DNA-DNA hybridization and extensive biotyping enabled differentiation of strain CCM 4446T from all phylogenetically closely related species, i.e., Rhodococcus baikonurensis, Rhodococcus qingshengii, Rhodococcus erythropolis and Rhodococcus globerulus. The results obtained show that the strain investigated represents a novel species within the genus Rhodococcus, for which the name Rhodococcus degradans sp. nov., is proposed. The type strain is CCM 4446T ( = LMG 28633T).

Address: Czech Collection of Microorganisms, Department of Experimental Biology, Faculty of Science, Masaryk University, Kamenice 5, Bld. A25, 625 00 Brno, Czech Republic.; Institute for Microbiology, Veterinary University Vienna, Veterinärplatz 1, A-1210 Vienna, Austria.; Faculty of Mining and Geology, Institute of Environmental Engineering, VŠB-Technical University of Ostrava, 17. listopadu 15/2172, 708 33 Ostrava-Poruba, Czech Republic.; Division of Genetics and Molecular Biology, Department of Experimental Biology, Faculty of Science, Masaryk University, Kotlářská 2, 611 37 Brno, Czech Republic.; Department of Biochemistry and Microbiology, Faculty of Sciences, Ghent University, K.L. Ledeganckstraat 35, 9000 Ghent, Belgium.

DOI: 10.1099/ijsem.0.000584

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MeSH Terms: Bacterial Typing Techniques, DNA, Bacterial, Diaminopimelic Acid, Fatty Acids, Genes, Bacterial, Molecular Sequence Data, Mycolic Acids, Nucleic Acid Hybridization, Peptidoglycan, Phospholipids, Phylogeny, Polyamines, RNA, Ribosomal, 16S, Rhodococcus, Ribotyping, Sequence Analysis, DNA, Soil Microbiology, Switzerland, Vitamin K 2