Taxonomy browser (Rhodococcus ruber)

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Taxonomy browser (Rhodococcus ruber)

Rhodococcus ruber

Taxonomy ID: 1830 (for references in articles please use NCBI:txid1830)

current name

Rhodococcus ruber (Kruse 1896) Goodfellow and Alderson 1977 (Approved Lists 1980) in [Skerman VBD et al. (1980)]

type strain of Rhodococcus ruber: CIP:104180, DSM :43338, IEGM:70, IFO :15591, NBRC :15591, JCM :3205, BCCM/LMG :5366, KCC:A-0205, VKM:Ac:1021

homotypic synonym:

Rhodococcus ruber (Kruse 1896) Goodfellow and Alderson 1977 emend. Nouioui et al. 2018, emended name¹⁾ in [Nouioui I et al. (2018c)]

Rhodococcus ruber (Kruse 1896) Goodfellow and Alderson 1977 emend. Kusuma et al. 2024, emended name²⁾ in [Kusuma AB et al. (2024)]

NCBI BLAST name: high G+C Gram-positive bacteria
Rank: species
Genetic code: Translation table 11 (Bacterial, Archaeal and Plant Plastid)
Other names:

heterotypic synonym

"Streptothrix rubra" Kruse 1896, effective name³⁾

heterotypic synonym

"Nocardia rubra" (Kruse 1896) Chalmers and Christopherson 1916, effective name⁴⁾

heterotypic synonym

"Proactinomyces rubra" (Casabo) Bald., effective name⁵⁾

heterotypic synonym

Gordona lentifragmenta Tsukamura et al. 1975

heterotypic synonym

Rhodococcus lentifragmentus (Kruse 1896; Tsukamura et al. 1975) Tsukamura 1978

heterotypic synonym

Rhodococcus electrodiphilus Ramaprasad et al. 2018 in [Ramaprasad EVV et al. (2018)]

type strain of Rhodococcus electrodiphilus: personal::JC435, KCTC :39856, BCCM/LMG :29881, MCC:3659

includes:

Rhodococcus sp. JC435

Lineage( full ): cellular organisms; Bacteria; Terrabacteria group; Actinomycetota; Actinomycetes; Mycobacteriales; Nocardiaceae; Rhodococcus

Entrez records
Database name	Subtree links	Direct links	Links from type
Nucleotide	4,327	3,902	466
Protein	90,246	79,558	-
Structure	3	3	-
Genome	1	1	-
Popset	53	53	-
PubMed Central	489	486	-
Gene	31,478	25,952	-
SRA Experiments	71	70	-
Protein Clusters	3,533	3,533	-
Identical Protein Groups	47,280	44,610	-
BioProject	39	35	-
BioSample	93	90	4
Assembly	37	33	2
Taxonomy	5	1	-

Notes:

1) emend. (emendavit): Used when the alteration of the diagnostic characters or of the circumscription of a taxon modifies the nature of the taxon.
2) emend. (emendavit): Used when the alteration of the diagnostic characters or of the circumscription of a taxon modifies the nature of the taxon.
3) This taxonomic name has been effectively published but not validly published under the rules of the International Code of Nomenclature of Prokaryotes (Bacteriological Code).
4) This taxonomic name has been effectively published but not validly published under the rules of the International Code of Nomenclature of Prokaryotes (Bacteriological Code).
5) This taxonomic name has been effectively published but not validly published under the rules of the International Code of Nomenclature of Prokaryotes (Bacteriological Code).

Comments and References:

Skerman VBD et al. (1980)

Skerman, V.B.D., McGowan, V., and Sneath, P.H.A. "Approved Lists of Bacterial Names." Intl. J. Syst. Bacteriol. (1980) 30(1):225-420.

Nouioui I et al. (2018c), doi: 10.3389/fmicb.2018.02007, PubMed: abstract

Nouioui, I., Carro, L., García-López, M., Meier-Kolthoff, J.P., Woyke, T., Kyrpides, N.C., Pukall, R., Klenk, H.-P., Goodfellow, M., and Göker M. "Genome-based taxonomic classification of the phylum Actinobacteria." Front. Microbiol. (2018) 9:2007.

Kusuma AB et al. (2024), PubMed: abstract

Kusuma, A.B., Fenylestari, G., Ammar, F., Nououi, I., and Goodfellow, M. "Rhodococcus indonesiensis sp. nov. a new member of the Rhodococcus ruber lineage isolated from sediment of a neutral hot spring and reclassification of Rhodococcus electrodiphilus (Ramaprasad et al. 2018) as a later heterotypic synonym of Rhodococcus ruber (Kruse 1896) Goodfellow and Alderson 1977 (Approved Lists 1980)." Int. J. Syst. Evol. Microbiol. (2024) 74(1):006236.

Ramaprasad EVV et al. (2018), PubMed: abstract

Ramaprasad, E.V.V., Mahidhara, G., Sasikala, C., and Ramana, C.V. "Rhodococcus electrodiphilus sp. nov., a marine electro active actinobacterium isolated from coral reef." Int. J. Syst. Evol. Microbiol. (2018) 68(8):2644-2649.

Chalmers AJ & Christopherson JB (1916)

Chalmers, A.J., and Christopherson, J.B. "A Sudanese actinomycosis." Ann. Trop. Med. Parasitol. (1916) 10:223-282. [No PubMed record available.]

Goodfellow M & Alderson G (1977)

Goodfellow, M., and Alderson, G. "The actinomycete-genus Rhodococcus: a home for the 'rhodochrous' complex." J. Gen. Microbiol. (1977) 100:99-122. [No PubMed record available.]

Hill LR et al. (1984) (reference relating to orthographic revision)

Hill, L.R., Skerman, V.B.D., and Sneath, P.H.A. "Corrigenda to the Approved Lists of Bacterial Names edited for the International Committee on Systematic Bacteriology." Int. J. Syst. Bacteriol. (1984) 34(4):508-511. [No PubMed record available.]

Judicial Commission ICSB (1987)

Judicial Commission of the International Committee on Systematic Bacteriology "Minutes of the Meeting, 5 September 1986, Manchester, United Kingdom." Int. J. Syst. Bacteriol. (1987) 37:85-87. [Note: the request of Tsukamura (1985) is not upheld (Minute 20).] [No PubMed record available.]

Kruse W (1896)

Kruse, W. "Systematik der Streptothricheen und Bakterien." In: C. Flugge (ed.), Die Mikroorganismen, 3rd ed., vol.2, Vogel, Leipzig, 1896, pp. 48-66. [No PubMed record available.]

Tsukamura M (1978)

Tsukamura, M. "Numerical classification of Rhodococcus (formerly Gordona) organisms recently isolated from sputa of patients: Description of Rhodococcus sputi Tsukmura sp. nov." Int. J. Syst. Bacteriol. (1978) 28:169-181. [No PubMed record available.]

Tsukamura M (1985)

Tsukamura, M. "Priority of Rhodococcus lentifragmentus (Kruse 1896; Tsukamura et al. 1975) Tsukamura 1978 comb. nov. over Rhodococcus ruber (Kruse 1896) Goodfellow and Alderson 1980. Request for an Opinion." Int. J. Syst. Bacteriol. (1985) 35:124-125. [No PubMed record available.]

Tsukamura M et al. (1975b)

Tsukamura, M., Mizuno, S., and Murata, H. "Numerical taxonomy study of the taxonomic position of Nocardia rubra reclassified as Gordona lentigragmenta Tsukamura nom. nov." Int. J. Syst. Bacteriol. (1975) 25:377-382. [No PubMed record available.]

Wayne LG et al. (1994)

Wayne, L.G. "Actions of the Judicial Commission of the International Committee on Systematic Bacteriology on requests for opinions published between January 1985 and July 1993." Int. J. Syst. Bacteriol. (1994) 44:177-178. [No PubMed record available.]

External Information Resources (NCBI LinkOut)

LinkOut	Subject	LinkOut Provider
Rhodococcus ruber	meta-databases	BacDive
4 records from this provider	organism-specific	BioCyc
Rhodococcus ruber (Kruse 1896) Goodfellow and Alderson 1977 (Approved Lists 1980)	taxonomy/phylogenetic	Encyclopedia of life
5 records from this provider	organism-specific	Genomes On Line Database
Show Biotic Interactions	taxonomy/phylogenetic	Global Biotic Interactions
Rhodococcus ruber	culture/stock collections	Global Catalogue of Microorganisms
Related Immune Epitope Information	gene/protein/disease-specific	Immune Epitope Database and Analysis Resource
9 records from provider	organism-specific	Integrated Microbial Genomes

Notes:: Groups interested in participating in the LinkOut program should visit the LinkOut home page.
A list of our current non-bibliographic LinkOut providers can be found here.

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Disclaimer: The NCBI taxonomy database is not an authoritative source for nomenclature or classification - please consult the relevant scientific literature for the most reliable information.

Reference: How to cite this resource - Schoch CL, et al. NCBI Taxonomy: a comprehensive update on curation, resources and tools. Database (Oxford). 2020: baaa062. PubMed: 32761142 PMC: PMC7408187.

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