@article{mbs:/content/journal/ijsem/10.1099/ijsem.0.004126, author = "Lee, Soon Dong and Kim, In Seop and Kim, Young-Ju and Joung, Yochan", title = "Rhodococcus cavernicola sp. nov., isolated from a cave, and Rhodococcus degradans is a later heterosynonym of Rhodococcus qingshengii", journal= "International Journal of Systematic and Evolutionary Microbiology", year = "2020", volume = "70", number = "7", pages = "4409-4415", doi = "https://doi.org/10.1099/ijsem.0.004126", url = "https://www.microbiologyresearch.org/content/journal/ijsem/10.1099/ijsem.0.004126", publisher = "Microbiology Society", issn = "1466-5034", type = "Journal Article", keywords = "cave", keywords = "Rhodococcus cavernicola", keywords = "benzoyl CoA catabolism", keywords = "biosynthesis of secondary metabolite", keywords = "mevalonate pathway", abstract = "A Gram-reaction-positive, strictly aerobic, catalase-positive, oxidase-negative, non-motile actinobacterium, designated C1-24T, was isolated from a soil sample collected inside a natural cave. The organism exhibited a rod–coccus developmental cycle during its growth phase. Results of 16S rRNA gene-based phylogenetic analysis showed that the novel strain belonged to the genus Rhodococcus and formed a distinct sublineage at the base of the radiation including a Rhodococcus enclensis–Rhodococcus kroppenstedtii–Rhodococcus corynebacterioides–Rhodococcus trifoli cluster. In the results of phylogenomic analysis, the novel strain was loosely associated to Rhodococcus corynebacterioides . The closest relatives were Rhodococcus qingshengii (98.01 % 16S rRNA gene sequence similarity) and Rhodococcus degradans (98.01 %). The genome size was 5.66 Mbp and the DNA G+C content was 64.30 mol%. Whole-cell hydrolysates contained meso-diaminopimelic acid, arabinose and galactose as the diagnostic diamino acid and sugars. MK-8(H2) was the predominant menaquinone. The polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, phosphatidylinositol, an unidentified glycolipid and three unidentified phospholipids. Mycolic acids were present. The major fatty acids were C16 : 0, C18 : 1  ω9c, C16 : 1  ω7c and/or C16 : 1  ω6c and 10-methyl C18 : 0. Digital DNA–DNA hybridization and average nucleotide identity values revealed that the novel strain should be assigned to a different species. Based on the combined data obtained here, strain C1-24T (=KACC 19964T=DSM 109484T) represents a new species of the genus Rhodococcus , for which Rhodococcus cavernicola sp. nov. is proposed. Also, it is proposed that R. degradans is a later heterosynonym of R. qingshengii based on analyses of 16S rRNA gene and whole-genome sequences.", }