Rhodococcus opacus (DSM 46757, VKM Ac-2638, 1CP)

Name: Rhodococcus opacus (DSM 46757, VKM Ac-2638, 1CP)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 160415

Type strain

Strain Designation 1CP

Culture col. no. DSM 46757 VKM Ac-2638 1CP

NCBI tax ID(s) 37919

Special Collections DSMZ

History DSMZ <- D. Tischler, TU Bergakademie Freiberg, Germany; 1CP <- S.N. Gorlatov

Links

Rhodococcus opacus 1CP is a bacterium that was isolated from enrichment culture.

genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 396785

DSM 46757

@ref 20215

Last LPSN update 2026-05-29 08:44:26

Domain Bacteria

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** (28)	Type strain
10998	R. opacus 1b, 18, DSM 43205, ATCC 51881, CIP 104549, ... (type strain)
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
11003	R. opacus S676, 225, DSM 43280, ATCC 4275, IMET 7025, ...
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
136650	R. opacus R7, CIP 107348
173346	R. opacus GK 3, GK3, CIP 110889, CCMM B1295
178948	R. opacus IMET 07029, STI07029

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	positive	95.699
125439		90.975
125438		91.5

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
67321	TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)		Medium recipe at MediaDive	Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
67321	positive	growth	28

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	97.78

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68369	17128 ChEBI	adipate	+	assimilation	from API 20NE
68369	29016 ChEBI	arginine	-	hydrolysis	from API 20NE
68369	17634 ChEBI	D-glucose	-	fermentation	from API 20NE
68369	17634 ChEBI	D-glucose	+	assimilation	from API 20NE
68369	16899 ChEBI	D-mannitol	+	assimilation	from API 20NE
68369	27689 ChEBI	decanoate	-	assimilation	from API 20NE
68369	4853 ChEBI	esculin	-	hydrolysis	from API 20NE
68369	5291 ChEBI	gelatin	-	hydrolysis	from API 20NE
68369	24265 ChEBI	gluconate	+	assimilation	from API 20NE
68369	25115 ChEBI	malate	+	assimilation	from API 20NE
68369	59640 ChEBI	N-acetylglucosamine	+	assimilation	from API 20NE
68369	17632 ChEBI	nitrate	+	reduction	from API 20NE
68369	27897 ChEBI	tryptophan	-	energy source	from API 20NE
68369	16199 ChEBI	urea	-	hydrolysis	from API 20NE

Metabolite production

@ref	Chebi-ID	Metabolite	Production
68369	35581 ChEBI	indole		from API 20NE

Metabolite tests

@ref	Chebi-ID	Metabolite	Indole test
68369	35581 ChEBI	indole	-	from API 20NE

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
68382	alkaline phosphatase	+	3.1.3.1	from API zym
68382	alpha-chymotrypsin	-	3.4.21.1	from API zym
68382	alpha-fucosidase	-	3.2.1.51	from API zym
68382	alpha-glucosidase	+	3.2.1.20	from API zym
68382	alpha-mannosidase	-	3.2.1.24	from API zym
68369	arginine dihydrolase	-	3.5.3.6	from API 20NE
68382	beta-galactosidase	+	3.2.1.23	from API zym
68382	beta-glucosidase	-	3.2.1.21	from API zym
68369	beta-glucosidase	-	3.2.1.21	from API 20NE
68382	beta-glucuronidase	-	3.2.1.31	from API zym
68369	gelatinase	-		from API 20NE
68382	leucine arylamidase	+	3.4.11.1	from API zym
68382	lipase (C 14)	-		from API zym
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
68382	trypsin	-	3.4.21.4	from API zym
68369	urease	-	3.5.1.5	from API 20NE
68382	valine arylamidase	+		from API zym

API zym

@ref	Control	Alkaline phosphatase	Esterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	Lipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	Trypsin	alpha- Chymotrypsin	Acid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	alpha- Galactosidase	beta- Galactosidase	beta- Glucuronidase	alpha- Glucosidase	beta- Glucosidase	N-acetyl-beta- glucosaminidase	alpha- Mannosidase	alpha- Fucosidase
67321	-	+	+/-	+/-	-	+	+	+/-	-	-	+	+/-	+/-	+	-	+	-	-	-	-

API 20NE

@ref	Reduction of nitratesNO3	TRP	GLU_ Ferm	ADH (Arg)	URE	ESC	GEL	PNPG	GLU_ Assim	ARA	MNE	MAN	NAG	MAL	GNT	CAP	ADI	MLT	CIT	PAC	OX
67321	+	-	-	-	-	-	-	+	+	+/-	+/-	+	+	+/-	+	-	+	+	+	+	not determinedn.d.

Isolation, sampling and environmental information

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
67321	enrichment culture	Moscow Region	Russia	RUS	Europe

Taxonmaps

69479

Global distribution of 16S sequence Y11893 (>99% sequence identity) for Rhodococcus from Microbeatlas

Aquatic Samples	116
Soil Samples	425
Animal Samples	152
Plant Samples	113
Total Samples	806

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
67321	1	Risk group (German classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	IMG accession	NCBI tax ID	Score
66792	ASM168560v1 assembly for Rhodococcus opacus 1CP	complete	GCA_001685605	2856586077	37919	97.22

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
67321	R.opacus 16S rRNA gene, strain 1CP	Y11893	1485		37919

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM168560v1 assembly for Rhodococcus opacus 1CP
NCBI: GCA_001685605

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	gram_stain	BacteriaNetⓘ	positive	95.70	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	97.78	no
125439	motility	BacteriaNetⓘ	no	90.98	no
125439	spore_formation	BacteriaNetⓘ	yes	58.69	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Rhodococcus opacus 1CP
NCBI: GCA_001685605.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	86.01	no
125438	anaerobic	anaerobicⓘ	no	97.22	no
125438	aerobic	aerobicⓘ	yes	89.14	no
125438	spore-forming	spore-formingⓘ	yes	57.88	no
125438	thermophilic	thermophileⓘ	no	96.50	yes
125438	flagellated	motile2+ⓘ	no	91.50	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Enzymology	Microbial Biosensor for Characterization of a Microorganism: A Review focusing on the Biochemical Activity of Microbial Cells.	Emelyanova E.	Micromachines (Basel)	10.3390/mi14040733	2023
	Removal of Phenol by Rhodococcus opacus 1CP after Dormancy: Insight into Enzymes' Induction, Specificity, and Cells Viability.	Egozarian NS, Emelyanova EV, Suzina NE, Sazonova OI, Polivtseva VN, Anokhina TO, Wu Y, Solyanikova IP.	Microorganisms	10.3390/microorganisms12030597	2024
Metabolism	Evaluation of 3-Chlorobenzoate 1,2-Dioxygenase Inhibition by 2- and 4-Chlorobenzoate with a Cell-Based Technique.	Emelyanova EV, Solyanikova IP.	Biosensors (Basel)	10.3390/bios9030106	2019
	Catalytic and hydrodynamic properties of styrene monooxygenases from Rhodococcus opacus 1CP are modulated by cofactor binding.	Riedel A, Heine T, Westphal AH, Conrad C, Rathsack P, van Berkel WJ, Tischler D.	AMB Express	10.1186/s13568-015-0112-9	2015
	Screening for Microbial Metal-Chelating Siderophores for the Removal of Metal Ions from Solutions.	Hofmann M, Heine T, Malik L, Hofmann S, Joffroy K, Senges CHR, Bandow JE, Tischler D.	Microorganisms	10.3390/microorganisms9010111	2021
Enzymology	Biochemical Characterization of Phenylacetaldehyde Dehydrogenases from Styrene-degrading Soil Bacteria.	Zimmerling J, Oelschlagel M, Grossmann C, Voitel M, Schlomann M, Tischler D.	Appl Biochem Biotechnol	10.1007/s12010-020-03421-8	2021
	Co-metabolic formation of substituted phenylacetic acids by styrene-degrading bacteria.	Oelschlagel M, Kaschabek SR, Zimmerling J, Schlomann M, Tischler D.	Biotechnol Rep (Amst)	10.1016/j.btre.2015.01.003	2015

References

#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) .
#67321	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 46757
#68369	Automatically annotated from API 20NE .
#68382	Automatically annotated from API zym .
#69479	João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.: MicrobeAtlas 1.0 beta .
#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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Rhodococcus opacus (DSM 46757, VKM Ac-2638, 1CP)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

API zym

API 20NE

Isolation, sampling and environmental information

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_001685605

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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