Rhodococcus opacus (DSM 43280, ATCC 4275, IMET 7025)

Name: Rhodococcus opacus (DSM 43280, ATCC 4275, IMET 7025)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 11003

Type strain

Strain Designation S676, 225

Culture col. no. DSM 43280 ATCC 4275 IMET 7025 KCC A-0009 S676 3 more

NCBI tax ID(s) 37919

Special Collections DSMZ JCM

History <- K. Kieslich; Schering 225 (Nocardia convoluta) <- ATCC <- H.J. Conn (Mycobacterium convolutum) <- P. H. H. Gray KCC A-0009 <-- ATCC 4275 <-- H. J. Conn <-- P. H. H. Gray.

Links

Rhodococcus opacus S676 is a mesophilic prokaryote of the family Nocardiaceae.

mesophilic genome sequence

Name and taxonomic classification

SI-ID 34702

ATCC 4275,DSM 43280,IMET 7025,CBS 100.39,JCM 3009,NRRL B-3893

@ref 20215

Last LPSN update 2025-12-16 09:49:28

Domain Bacillati

Phylum Actinomycetota

Class Actinomycetes

Order Mycobacteriales

Family Nocardiaceae

Genus Rhodococcus

Species Rhodococcus opacus

Full scientific name Rhodococcus opacus Klatte et al. 1995

Synonyms (2)

Rhodococcus percolatus
Rhodococcus imtechensis

BacDive ID	Other strains from **Rhodococcus opacus** (29)	Type strain
10998	R. opacus 1b, 18, DSM 43205, ATCC 51881, CIP 104549, ... (type strain)
10996	R. opacus DSM 1069
10997	R. opacus C125, DSM 8531
10999	R. opacus DSM 43206, ATCC 21499, DSM 441, CIP 104550, ...
11000	R. opacus DSM 43250, ATCC 51882
11001	R. opacus DSM 43251
11002	R. opacus Pellegrino 327, DSM 43252, CIP 104626
11004	R. opacus 691-19, DSM 43943, IMET 7363
11005	R. opacus DSM 44072, CBS 330.61
11006	R. opacus DSM 44236
11007	R. opacus MoAcy1, DSM 44186
11008	R. opacus Tue Acy 1, DSM 44188
11010	R. opacus 305-97, L2aT3, PWD5, DSM 44304
11011	R. opacus 307-97, PWD7, S2aT5, S₂aT5, DSM ...
11012	R. opacus 310-97, L1aT1, PWD10, DSM 44307
11013	R. opacus GW-86a, DSM 44311
11014	R. opacus Bie-17, DSM 44312
11015	R. opacus 304-97, H1aT2, PWD4, DSM 44313
11016	R. opacus 315-97, PWD15, S1aT1, DSM 44314
11017	R. opacus 97-319, H3aT3, PWD19, DSM 44315
11018	R. opacus ISO-5, DSM 44600
11019	R. opacus ROL1, DSM 44853
11020	R. opacus ROL2, DSM 44854
11021	R. opacus R1L6, DSM 44855
11022	R. opacus DSM 46027, IMET 7365, NCIB 9702
103557	R. opacus ST033313(HKI),
136650	R. opacus R7, CIP 107348
160415	R. opacus 1CP, DSM 46757, VKM Ac-2638
173346	R. opacus GK 3, GK3, CIP 110889, CCMM B1295

Morphology

Cell morphology

@ref	Motility	Confidence	Gram stain
125438		94.5
125439		98.5	positive

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
10923	GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)		Medium recipe at MediaDive	Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
10923	positive	growth	28	mesophilic
67770	positive	growth	28	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	99.5

Compound production

67770

Compound3-Keto-δ-1,4 steroids (US Pat. 3,010,876)

Isolation, sampling and environmental information

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
10923	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID
66792	ASM131350v1 assembly for Rhodococcus sp. JCM 3009	contig	GCA_001313505	1303684.3	2734481949	1303684

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Rhodococcus sp. JCM 3009
NCBI: GCA_001313505

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	68.30	no
125439	motility	BacteriaNetⓘ	no	84.80	no
125439	gram_stain	BacteriaNetⓘ	positive	98.50	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.50	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Rhodococcus sp. JCM 3009
PATRIC: 1303684.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	79.96	no
125438	anaerobic	anaerobicⓘ	no	96.86	no
125438	spore-forming	spore-formingⓘ	yes	53.44	no
125438	aerobic	aerobicⓘ	yes	89.39	no
125438	thermophilic	thermophileⓘ	no	96.85	yes
125438	flagellated	motile2+ⓘ	no	94.50	no

Literature

References

#10923	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 43280
#20215	Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.: List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ. IJSEM ( DOI 10.1099/ijsem.0.004332 )
#66792	Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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