Rhodococcus rhodochrous (DSM 43241, ATCC 13808, CIP 104376)

Name: Rhodococcus rhodochrous (DSM 43241, ATCC 13808, CIP 104376)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 10908

Type strain

Strain Designation 372, KMRh

Culture col. no. DSM 43241 ATCC 13808 CIP 104376 IMET 7374 KCC A-0202 23 more

NCBI tax ID(s) 1219024 1829

Special Collections DSMZ CCUG JCM KCTC CIP Wink compendium

Links

Rhodococcus rhodochrous 372 is an aerobe, mesophilic, Gram-positive prokaryote of the family Nocardiaceae.

Gram-positive oval-shaped aerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 4886

LMG 5365,ATCC 13808,DSM 43241,IMET 7374,JCM 3202,NCIB 11147,NCTC 10210,MTCC 265,NRRL B-16536,CIP 104376,NCIMB 11147,NRRL B-2149,VKM Ac-1227,IFO 16069,VKM Ac-1338,IMET 7344,KCTC 9086,CCUG 47165,NBRC 16069,CECT 5749,HAMBI 1959,BCRC 16333,CCRC 16333,IAM 15167,CGMCC 1.2348,CGMCC 4.1815,CGMCC 4.1147

@ref 20215

Last LPSN update 2025-12-16 09:49:27

Domain Bacillati

Phylum Actinomycetota

Class Actinomycetes

Order Mycobacteriales

Family Nocardiaceae

Genus Rhodococcus

Species Rhodococcus rhodochrous

Full scientific name Rhodococcus rhodochrous (Zopf 1891) Tsukamura 1974 (Approved Lists 1980)

Synonyms (2)

"Staphylococcus rhodochrous"
Rhodococcus roseus

BacDive ID	Other strains from **Rhodococcus rhodochrous** (27)	Type strain
10560	R. rhodochrous DSM 43240, NCTC 8139, CIP 104649
10844	R. rhodochrous N814, DSM 43969
10875	R. rhodochrous N56, DSM 43956
10897	R. rhodochrous DSM 363, ATCC 4276, DSM 43202, JCM 20420, ...
10898	R. rhodochrous An117, DSM 6263, IMET 7497
10900	R. rhodochrous S5, DSM 6697
10901	R. rhodochrous OR, DSM 11097
10904	R. rhodochrous DSM 43269, ATCC 4273, CBS 197.57, CCM 3245, ...
10905	R. rhodochrous DSM 43198, NCIB 9701, CIP 104622, IMET 7278, ...
10909	R. rhodochrous DSM 43273, ATCC 9356, NRRL B-1306
10910	R. rhodochrous DSM 43274, ATCC 271, JCM 2156, BCRC 13391, ...
10913	R. rhodochrous N31 R312, W 21, DSM 43334
10916	R. rhodochrous N 1030, DSM 43986, IMV 347
10917	R. rhodochrous N27H, DSM 46022, CCM 278, IMET 7285, NCIB ...
10918	R. rhodochrous Gdf N31, Gordon W21, N31, Overbeck, DSM 46023, ...
10919	R. rhodochrous 40019, Breed He-11, Gdf R10, DSM 46044, ATCC ...
103565	R. rhodochrous STH00245(ZIMET), I-449, HKI 0245
131010	R. rhodochrous PY11, DSM 101666
131917	R. rhodochrous RPK 1, DSM 103064
136316	R. rhodochrous CIP 104635, PCM 909
136329	R. rhodochrous N454, CIP 104638, PCM 2216
139137	R. rhodochrous CIP 104496, ATCC 4004, IAM 12127, JCM 2158
139161	R. rhodochrous CIP 82.104, ATCC 184, NCTC 2682, NCTC 7510
144204	R. rhodochrous CCUG 23576, ATCC 25721
145853	R. rhodochrous CCUG 29792
163232	R. rhodochrous 1652, JCM 2157, ATCC 999, CIP 104495, IAM ...
169282	R. rhodochrous G38GP, DSM 111905

Morphology

Cell morphology

@ref	Gram stain	Cell shape
122225	positive	oval-shaped
125438
125439	positive

Colony morphology

@ref	Colony color	Incubation period	Medium used
19560	Orange red	10-14 days	ISP 2
19560	Rose	10-14 days	ISP 3
19560	Rose	10-14 days	ISP 4
19560	Beige	10-14 days	ISP 5
19560	Beige	10-14 days	ISP 6
19560	Rose	10-14 days	ISP 7

Multicellular morphology

@ref	Forms multicellular complex	Medium name
19560		ISP 2
19560		ISP 3
19560		ISP 4
19560		ISP 5
19560		ISP 6
19560		ISP 7

Multimedia

@ref:	10897
multimedia content:	DSM_43241.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_43241.jpg
caption:	Medium 535 28°C
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
10897	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
10897	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
19560	ISP 2		Name: ISP 2 / Yeast Malt Agar (5265); 5265 Composition Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l Agar 15.0 g/l Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.0 Usage: Maintenance and Taxonomy Organisms: All Actinomycetes
19560	ISP 3		Name: ISP 3; 5315 Composition Dog oat flakes 20.0 g/l Trace element solution (5314) 2.5 ml/l Agar 18.0 g/l Preparation: Oat flakes are cooked for 20 minutes, trace element solution and agar are added (in the case of non rolled oat flakes the suspension has to bee filtrated). Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.8 Usage: Maintenance and taxonomy (e.g. SEM As liquid medium for metabolite production) Organisms: All Actinomycetes Trace element solution 5314 Name: Trace element solution 5314; 5314 Composition CaCl2 x H2O 3.0 g/l Fe-III-citrate 1.0 g/l MnSO4 0.2 g/l ZnCl2 0.1 g/l CuSO4 x 5 H2O 0.025 g/l Sodium tetra borate 0.2 g/l CoCl2 x 6 H2O 0.004 g/l Sodium molybdate 0.01 g/l Preparation: Use double destillated water. Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Trace element solution for different media Organisms:
19560	ISP 4		Name: ISP 4; DSM 547 Solution I: Difco soluble starch, 10.0 g. Make a paste of the starch with a small amount of cold distilled water and bring to a volume of 500 ml. Solution II: CaCO3 2.0 g K2HPO4 (anhydrous) 1.0 g MgSO4 x 7 H2O 1.0 g NaCl 1.0 g (NH4)2SO4 2.0 g Distilled water 500.0 ml Trace salt solution (see below) 1.0 ml The pH should be between 7.0 and 7.4. Do not adjust if it is within this range. Mix solutions I and II together. Add 20.0 g agar. Liquify agar by steaming at 100°C for 10 to 20 min. Trace element solution: FeSO4 x 7 H2O 0.1 g MnCl2 x 4 H2O 0.1 g ZnSO4 x 7 H2O 0.1 g Distilled water 100.0 ml
19560	ISP 5		Name: ISP 5 (5323) Composition L-Asparagine 1.0 g/l Glycerol 10.0 g/l K2HPO4 1.0 g/l Salt solution (see preparation) 1.0 ml/l Agar 20.0 g/l Preparation: Salt solution 1.0 g FeSO4 x 7 H2O 1.0 g MnCl2 x 4 H2O 1.0 g ZNSO4 x 7 H2O in 100 ml water Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.2 Usage: Maintenance and taxonomy Organisms: All Actinomycetes
19560	ISP 6		Name: ISP 6 (5318) Composition Peptone 15.0 g/l Proteose peptose 5.0 g/l Ferric ammonium citrate 0.5 g/l Sodium glycerophosphate 1.0 g/l Sodium thiosulfate 0.08 g/l Yeast extract 1.0 g/l Agar 15.0 g/l Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigments Organisms: All Actinomycetes
19560	ISP 7		Name: ISP 7 (5322) Composition Glycerol 15.0 g/l L-Tyrosine 0.5 g/l L-Asparagine 1.0 g/l K2HPO4 0.5 g/l NaCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Trace element solution 5343 1.0 ml/l Agar 20.0 Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.3 Usage: Production of melanoid pigments Organisms: All Actinomycetes
41148	MEDIUM 29- Brain heart agar		Distilled water make up to (1000.000 ml);Brain heart infusion agar (52.000 g)
122225	CIP Medium 29	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
10897	positive	growth	28	mesophilic
19560	positive	optimum	30	mesophilic
41148	positive	growth	30	mesophilic
57548	positive	growth	20-30
67770	positive	growth	28	mesophilic
122225	positive	growth	25-45
122225	negative	growth	10

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance
57548	aerobe
122225	obligate aerobe
125439	obligate aerobe

Halophily

@ref	Salt	Growth	Tested relation	Concentration
122225	NaCl	positive	growth	0-8 %
122225	NaCl		growth	10 %

Observation

67770

Observationquinones: MK-8(H₂)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68369	17128 ChEBI	adipate	+	assimilation	from API 20NE
19560	22599 ChEBI	arabinose	-
68369	29016 ChEBI	arginine	-	hydrolysis	from API 20NE
68368	29016 ChEBI	arginine	-	hydrolysis	from API 20E
19560	62968 ChEBI	cellulose	-
68368	16947 ChEBI	citrate	-	assimilation	from API 20E
68379	17634 ChEBI	D-glucose	-	fermentation	from API Coryne
68369	17634 ChEBI	D-glucose	+	assimilation	from API 20NE
68369	17634 ChEBI	D-glucose	-	fermentation	from API 20NE
68379	16899 ChEBI	D-mannitol	-	fermentation	from API Coryne
68369	16899 ChEBI	D-mannitol	+	assimilation	from API 20NE
68379	16988 ChEBI	D-ribose	-	fermentation	from API Coryne
68379	65327 ChEBI	D-xylose	-	fermentation	from API Coryne
68369	27689 ChEBI	decanoate	-	assimilation	from API 20NE
122225	4853 ChEBI	esculin	-	hydrolysis
68379	4853 ChEBI	esculin	+	hydrolysis	from API Coryne
68369	4853 ChEBI	esculin	+	hydrolysis	from API 20NE
19560	28757 ChEBI	fructose	+
68379	5291 ChEBI	gelatin	-	hydrolysis	from API Coryne
68369	5291 ChEBI	gelatin	-	hydrolysis	from API 20NE
68368	5291 ChEBI	gelatin	-	hydrolysis	from API 20E
19560	17234 ChEBI	glucose	+
68379	28087 ChEBI	glycogen	-	fermentation	from API Coryne
68379	17716 ChEBI	lactose	-	fermentation	from API Coryne
68368	25094 ChEBI	lysine	-	degradation	from API 20E
68369	25115 ChEBI	malate	+	assimilation	from API 20NE
68379	17306 ChEBI	maltose	-	fermentation	from API Coryne
68369	17306 ChEBI	maltose	-	assimilation	from API 20NE
19560	29864 ChEBI	mannitol	+
19560	17268 ChEBI	myo-inositol	-
68379	17632 ChEBI	nitrate	+	reduction	from API Coryne
122225	17632 ChEBI	nitrate	+	reduction
122225	17632 ChEBI	nitrate	-	respiration
68369	17632 ChEBI	nitrate	+	reduction	from API 20NE
122225	16301 ChEBI	nitrite	-	reduction
68368	18257 ChEBI	ornithine	-	degradation	from API 20E
19560	16634 ChEBI	raffinose	-
19560	26546 ChEBI	rhamnose	-
19560	17992 ChEBI	sucrose	-
68379	17992 ChEBI	sucrose	-	fermentation	from API Coryne
68369	27897 ChEBI	tryptophan	-	energy source	from API 20NE
68368	27897 ChEBI	tryptophan	-	energy source	from API 20E
68379	16199 ChEBI	urea	-	hydrolysis	from API Coryne
68369	16199 ChEBI	urea	-	hydrolysis	from API 20NE
68368	16199 ChEBI	urea	-	hydrolysis	from API 20E
19560	18222 ChEBI	xylose	-

Metabolite production

@ref	Chebi-ID	Metabolite
68368	15688 ChEBI	acetoin	from API 20E
68368	16136 ChEBI	hydrogen sulfide	from API 20E
122225	35581 ChEBI	indole
68369	35581 ChEBI	indole	from API 20NE
68368	35581 ChEBI	indole	from API 20E

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test
122225	15688 ChEBI	acetoin	-
68368	15688 ChEBI	acetoin	-	from API 20E
122225	17234 ChEBI	glucose
68369	35581 ChEBI	indole		from API 20NE
68368	35581 ChEBI	indole		from API 20E

Enzymes

@ref	Value	Activity	Ec
122225	alcohol dehydrogenase	-	1.1.1.1
68379	alkaline phosphatase	-	3.1.3.1	from API Coryne
68382	alpha-fucosidase	-	3.2.1.51	from API zym
68382	alpha-galactosidase	-	3.2.1.22	from API zym
68379	alpha-glucosidase	+	3.2.1.20	from API Coryne
68382	alpha-mannosidase	-	3.2.1.24	from API zym
122225	amylase	-
68369	arginine dihydrolase	-	3.5.3.6	from API 20NE
68368	arginine dihydrolase	-	3.5.3.6	from API 20E
68382	beta-galactosidase	-	3.2.1.23	from API zym
122225	beta-galactosidase	-	3.2.1.23
68379	beta-galactosidase	-	3.2.1.23	from API Coryne
68368	beta-galactosidase	-	3.2.1.23	from API 20E
68382	beta-glucosidase	+	3.2.1.21	from API zym
68369	beta-glucosidase	+	3.2.1.21	from API 20NE
68379	beta-glucosidase	+	3.2.1.21	from API Coryne
68382	beta-glucuronidase	-	3.2.1.31	from API zym
68379	beta-glucuronidase	-	3.2.1.31	from API Coryne
122225	caseinase	-	3.4.21.50
122225	catalase	+	1.11.1.6
68379	catalase	+	1.11.1.6	from API Coryne
122225	DNase	-
68382	esterase lipase (C 8)	+		from API zym
122225	gamma-glutamyltransferase	-	2.3.2.2
122225	gelatinase	-
68379	gelatinase	-		from API Coryne
68369	gelatinase	-		from API 20NE
68368	gelatinase	-		from API 20E
122225	lecithinase	-
68382	leucine arylamidase	+	3.4.11.1	from API zym
122225	lysine decarboxylase	-	4.1.1.18
68368	lysine decarboxylase	-	4.1.1.18	from API 20E
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
68379	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API Coryne
122225	ornithine decarboxylase	-	4.1.1.17
68368	ornithine decarboxylase	-	4.1.1.17	from API 20E
122225	oxidase	-
122225	phenylalanine ammonia-lyase	+	4.3.1.24
68379	pyrazinamidase	-	3.5.1.B15	from API Coryne
68379	pyrrolidonyl arylamidase	-	3.4.19.3	from API Coryne
122225	tryptophan deaminase	-
68368	tryptophan deaminase	-	4.1.99.1	from API 20E
122225	tween esterase	-
122225	urease	-	3.5.1.5
68379	urease	-	3.5.1.5	from API Coryne
68369	urease	-	3.5.1.5	from API 20NE
68368	urease	-	3.5.1.5	from API 20E

Fatty acid profile

Metadata FA analysis

@ref

57548

Fatty acid	Percentage	ECL
C16:0	36.2	16
C16:1 ω7c/C15:0 ISO 2OH	14.2	15.85
C16:1 ω7c	10.9	15.819
C18:1 ω9c	10.8	17.769
TBSA 10Me18:0	10.2	18.392
C16:0 10-methyl	4.5	16.433
C18:2 ω6,9c/C18:0 ANTE	4.2	17.724
C14:0	2.3	14
C18:0	2	18
C20:0	1.3	20
C17:0	1.1	17
C19:0	0.7	19
C15:0	0.7	15
C16:1 ω9c	0.4	15.774
C17:0 10-methyl	0.4	17.41

API 20E

@ref	ONPG	ADH (Arg)	LDC (Lys)	ODC	CIT	H2S productionH2S	URE	TDA (Trp)	IND	Acetoin production (Voges Proskauer test)VP	GEL	GLU	MAN	INO	Sor	RHA	SAC	MEL	AMY	ARA	OX	Nitrite productionNO2	Reduction to N2N2	MotilityMOB	Growth on MacConkey mediumMAC	OF-O	OF-F
19560	-	-	-	-	-	-	-	-	-	-	-	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.

API coryne

@ref	Reduction of nitrateNIT	PYZ	PYRA	PAL	beta GUR	beta GAL	alpha GLU	beta NAG	ESC	URE	GEL	Control fermentationControl	GLU	RIB	XYL	MAN	MAL	LAC	SAC	GLYG	CAT
57548	+	-	-	-	-	-	+	-	+	-	-	-	-	-	-	-	-	-	-	-	+

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
57548	-	-	+	+	+	+	-	-	-	-	+	+	-	-	-	+	+	-	-	-
10897	-	+/-	-	+	-	+	-	-	-	-	-	-	-	-	-	-	+	-	-	-
122225	-	+	+	+	+	+	+	+	+	+	+	+	-	-	-	-	+	-	-	-

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
10897	+	-	-	-	-	+	-	-	+	+/-	+/-	+	+/-	-	+/-	-	+	+	+	+/-	not determinedn.d.

API biotype100

@ref	ControlQ	D-glucose as carbon sourceGLU	D-fructose as carbon sourceFRU	D-galactose as carbon sourceGAL	D-trehalose as carbon sourceTRE	D-mannose as carbon sourceMNE	L-sorbose as carbon sourceSBE	D-melibiose as carbon sourceMEL	sucrose as carbon sourceSAC	D-raffinose as carbon sourceRAF	maltotriose as carbon sourceMTE	maltose as carbon sourceMAL	lactose as carbon sourceLAC	lactulose as carbon sourceLTE	1-O-methyl-beta-galactopyranoside as carbon sourceMbGa	1-O-methyl-alpha-galactopyranoside as carbon sourceMaGa	D-cellobiose as carbon sourceCEL	gentiobiose as carbon sourceGEN	1-O-methyl-beta-D-glucopyranoside as carbon sourceMbGu	esculin as carbon sourceESC	D-ribose as carbon sourceRIB	L-arabinose as carbon sourceARA	D-xylose as carbon sourceXYL	palatinose as carbon sourcePLE	L-rhamnose as carbon sourceRHA	L-fucose as carbon sourceFUC	D-melezitose as carbon sourceMLZ	D-arabitol as carbon sourceDARL	L-arabitol as carbon sourceLARL	xylitol as carbon sourceXLT	dulcitol as carbon sourceDUL	D-tagatose as carbon sourceTAG	glycerol as carbon sourceGLY	myo-inositol as carbon sourceINO	D-mannitol as carbon sourceMAN	maltitol as carbon sourceMTL	D-turanose as carbon sourceTUR	D-sorbitol as carbon sourceSOR	adonitol as carbon sourceADO	hydroxyquinoline-beta-glucuronide as carbon sourceHBG	D-lyxose as carbon sourceLYX	i-erythritol as carbon sourceERY	1-O-methyl-alpha-D-glucoside as carbon sourceMDG	3-O-methyl-D-glucose as carbon source3MDG	D-saccharate as carbon sourceSAT	mucate as carbon sourceMUC	L-tartrate as carbon sourceLTAT	D-tartrate as carbon sourceDTAT	meso-tartrate as carbon sourceMTAT	D-malate as carbon sourceDMLT	L-malate as carbon sourceLMLT	cis-aconitate as carbon sourceCATE	trans-aconitate as carbon sourceTATE	tricarballylate as carbon sourceTTE	citrate as carbon sourceCIT	D-glucuronate as carbon sourceGRT	D-galacturonate as carbon sourceGAT	2-ketogluconate as carbon source2KG	5-ketogluconate as carbon source5KG	tryptophan as carbon sourceTRY	N-acetyl-D-glucosamine as carbon sourceNAG	D-gluconate as carbon sourceGNT	phenylacetate as carbon sourcePAC	protocatechuate as carbon sourcePAT	4-hydroxybenzoate as carbon sourcepOBE	quinate as carbon sourceQAT	gentisate as carbon sourceGTE	3-hydroxybenzoate as carbon sourcemOBE	benzoate as carbon sourceBAT	3-phenylpropionate as carbon sourcePPAT	m-coumarate as carbon sourceCMT	trigonelline as carbon sourceTGE	betaine as carbon sourceBET	putrescine as carbon sourcePCE	4-aminobutyrate as carbon sourceABT	histamine as carbon sourceHIN	DL-lactate as carbon sourceLAT	caprate as carbon sourceCAP	caprylate as carbon sourceCYT	L-histidine as carbon sourceHIS	succinate as carbon sourceSUC	fumarate as carbon sourceFUM	glutarate as carbon sourceGRE	DL-glycerate as carbon sourceGYT	5-aminovalerate as carbon sourceAVT	ethanolamine as carbon sourceETN	tryptamine as carbon sourceTTN	D-glucosamine as carbon sourceGLN	itaconate as carbon sourceITA	3-hydroxybutyrate as carbon source3OBU	L-aspartate as carbon sourceAPT	L-glutamate as carbon sourceGTT	L-proline as carbon sourcePRO	D-alanine as carbon sourceDALA	L-alanine as carbon sourceLALA	L-serine as carbon sourceSER	malonate as carbon sourceMNT	propionate as carbon sourcePROP	L-tyrosine as carbon sourceTYR	2-ketoglutarate as carbon source2KT
122225	not determinedn.d.	+	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	+	-	-	-	-	-	-	+	-	-	+	-	-	-	-	-	-	-	-	-	-	-	+	+	-	-	-	-	-	-	-	-	-	-	-	-	+	+	+	-	+	+	-	-	-	-	-	-	-	+	-	-	-	+	+	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	+	+

Isolation, sampling and environmental information

Taxonmaps

69479

Global distribution of 16S sequence X81936 (>99% sequence identity) for Rhodococcus from Microbeatlas

Aquatic Samples	660
Soil Samples	1489
Animal Samples	1166
Plant Samples	195
Total Samples	3510

Interaction and safety

Risk assessment

@ref	Pathogenicity human	Biosafety level	Biosafety level comment
10897	yes, in single cases	1	Risk group (German classification) According to TRBA 466
19560		1	Risk group (German classification) According to TRBA 466
122225		1	Risk group (French classification) According to TRBA 466

Phages

@ref	Name	Strain number
124042	Rhodococcus phage N18	DSM 43241

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	52295_G01 assembly for Rhodococcus rhodochrous NCTC10210	complete	GCA_900187265	1829.30	2826464033	1829	99.12
124043	ASM3050660v1 assembly for Rhodococcus rhodochrous CGMCC 1.2348	contig	GCA_030506605	1829.135		1829	65.71
67770	ASM104705v1 assembly for Rhodococcus rhodochrous NBRC 16069	contig	GCA_001047055	1219024.4	2630968521	1219024	62.62
67770	ASM164682v1 assembly for Rhodococcus rhodochrous DSM 43241	scaffold	GCA_001646825	1829.21	2744054617	1829	57.07

Genome browser: GCA_900187265

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Rhodococcus erythropolis strain ATCC 13808 16S ribosomal RNA gene, partial sequence	AY281106	971	1833
20218	Rhodococcus rhodochrous strain ATCC 13808 16S ribosomal RNA gene, partial sequence	GQ871830	609	1829
20218	Rhodococcus rhodochrous strain DSM 43241 16S ribosomal RNA gene, partial sequence	FJ468342	1444	1829
20218	Rhodococcus rhodochrous strain DSM 43241 16S ribosomal RNA gene, partial sequence	KF410366	1375	1829
20218	R.rhodochrous (DSM 43241) 16S rRNA gene	X79288	1474	1829
67770	R.rhodochrous 16S rRNA gene (CIP 1759.88T)	X81936	1320	1829

GC content

@ref	GC-content (mol%)	Method
67770	69.5	thermal denaturation, midpoint method (Tm)
67770	62	thermal denaturation, midpoint method (Tm)
67770	68.2	genome sequence analysis
67770	68.1	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Rhodococcus rhodochrous NCTC10210
NCBI: GCA_900187265

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	96.40	no
125439	gram_stain	BacteriaNetⓘ	positive	94.70	no
125439	motility	BacteriaNetⓘ	no	73.20	no
125439	spore_formation	BacteriaNetⓘ	no	76.00	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Rhodococcus rhodochrous NCTC10210
NCBI: GCA_900187265.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	89.89	no
125438	anaerobic	anaerobicⓘ	no	98.97	yes
125438	aerobic	aerobicⓘ	yes	89.49	no
125438	spore-forming	spore-formingⓘ	no	55.27	no
125438	thermophilic	thermophileⓘ	no	95.90	no
125438	flagellated	motile2+ⓘ	no	92.50	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Bioinformatics Analysis of the Genome of Rhodococcus rhodochrous IEGM 1362, an (-)-Isopulegol Biotransformer.	Maltseva PY, Plotnitskaya NA, Krivoruchko AV, Beletskiy AV, Rakitin AL, Mardanov AV, Ivshina IB.	Genes (Basel)	10.3390/genes15080992	2024
Enzymology	Rhodococcus strains as source for ene-reductase activity.	Chen BS, Medici R, van der Helm MP, van Zwet Y, Gjonaj L, van der Geest R, Otten LG, Hanefeld U.	Appl Microbiol Biotechnol	10.1007/s00253-018-8984-7	2018
	Enantioselective Michael addition of water.	Chen BS, Resch V, Otten LG, Hanefeld U.	Chemistry	10.1002/chem.201405579	2015
	Detailed investigation of the microbial community in foaming activated sludge reveals novel foam formers.	Guo F, Wang ZP, Yu K, Zhang T.	Sci Rep	10.1038/srep07637	2015
Pathogenicity	Soil microbial community responses to additions of organic carbon substrates and heavy metals (Pb and Cr).	Nakatsu CH, Carmosini N, Baldwin B, Beasley F, Kourtev P, Konopka A.	Appl Environ Microbiol	10.1128/aem.71.12.7679-7689.2005	2005
Enzymology	Quantitative use of fluorescent in situ hybridization to examine relationships between mycolic acid-containing actinomycetes and foaming in activated sludge plants.	Davenport RJ, Curtis TP, Goodfellow M, Stainsby FM, Bingley M.	Appl Environ Microbiol	10.1128/aem.66.3.1158-1166.2000	2000
Metabolism	Microbial degradation of the multiply branched alkane 2,6,10,15,19, 23-hexamethyltetracosane (Squalane) by Mycobacterium fortuitum and Mycobacterium ratisbonense.	Berekaa MM, Steinbuchel A.	Appl Environ Microbiol	10.1128/aem.66.10.4462-4467.2000	2000
	PCR primers to amplify 16S rRNA genes from cyanobacteria.	Nubel U, Garcia-Pichel F, Muyzer G.	Appl Environ Microbiol	10.1128/aem.63.8.3327-3332.1997	1997
Phylogeny	Flow sorting of microorganisms for molecular analysis.	Wallner G, Fuchs B, Spring S, Beisker W, Amann R.	Appl Environ Microbiol	10.1128/aem.63.11.4223-4231.1997	1997
	Tracking the Response of Burkholderia cepacia G4 5223-PR1 in Aquifer Microcosms.	Winkler J, Timmis KN, Snyder RA.	Appl Environ Microbiol	10.1128/aem.61.2.448-455.1995	1995
	Optimization of Lactic Fermented Beverages: Integrating Trametes Versicolor Mycelium and Pleurotus ostreatus Extract for Enhanced Functional Properties	Hang N, Van Minh V, Munehiro T, Thang B, Toan N, Nhat D, Cuong-Doan C.	Mycobiology
	Horizontal Gene Transfer of Genes Encoding Copper-Containing Membrane-Bound Monooxygenase (CuMMO) and Soluble Di-iron Monooxygenase (SDIMO) in Ethane- and Propane-Oxidizing Rhodococcus Bacteria.	Zou B, Huang Y, Zhang PP, Ding XM, Op den Camp HJM, Quan ZX.	Appl Environ Microbiol	10.1128/aem.00227-21	2021
Pathogenicity	Relationships between colony morphotypes and oil tolerance in Rhodococcus rhodochrous.	Iwabuchi N, Sunairi M, Anzai H, Nakajima M, Harayama S.	Appl Environ Microbiol	10.1128/aem.66.11.5073-5077.2000	2000
Enzymology	Distribution of a Nocardia brasiliensis catalase gene fragment in members of the genera Nocardia, Gordona, and Rhodococcus.	Vera-Cabrera L, Johnson WM, Welsh O, Resendiz-Uresti FL, Salinas-Carmona MC.	J Clin Microbiol	10.1128/jcm.37.6.1971-1976.1999	1999
Enzymology	Rapid identification of clinically relevant Nocardia species to genus level by 16S rRNA gene PCR.	Laurent FJ, Provost F, Boiron P.	J Clin Microbiol	10.1128/jcm.37.1.99-102.1999	1999
Metabolism	Large-scale production of coenzyme F420-5,6 by using Mycobacterium smegmatis.	Isabelle D, Simpson DR, Daniels L.	Appl Environ Microbiol	10.1128/aem.68.11.5750-5755.2002	2002
Phylogeny	Identification of Mycobacterium species by secA1 sequences.	Zelazny AM, Calhoun LB, Li L, Shea YR, Fischer SH.	J Clin Microbiol	10.1128/jcm.43.3.1051-1058.2005	2005
	Quantitative PCR assay for Mycobacterium pseudoshottsii and Mycobacterium shottsii and application to environmental samples and fishes from the Chesapeake Bay.	Gauthier DT, Reece KS, Xiao J, Rhodes MW, Kator HI, Latour RJ, Bonzek CF, Hoenig JM, Vogelbein WK.	Appl Environ Microbiol	10.1128/aem.01091-10	2010
Enzymology	Use of PCR and reverse line blot hybridization macroarray based on 16S-23S rRNA gene internal transcribed spacer sequences for rapid identification of 34 mycobacterium species.	Xiong L, Kong F, Yang Y, Cheng J, Gilbert GL.	J Clin Microbiol	10.1128/jcm.00633-06	2006
	Development of a vital fluorescent staining method for monitoring bacterial transport in subsurface environments.	Fuller ME, Streger SH, Rothmel RK, Mailloux BJ, Hall JA, Onstott TC, Fredrickson JK, Balkwill DL, DeFlaun MF.	Appl Environ Microbiol	10.1128/aem.66.10.4486-4496.2000	2000
Metabolism	Cloning of the genes for degradation of the herbicides EPTC (S-ethyl dipropylthiocarbamate) and atrazine from Rhodococcus sp. strain TE1.	Shao ZQ, Behki R.	Appl Environ Microbiol	10.1128/aem.61.5.2061-2065.1995	1995
Enzymology	Group-specific small-subunit rRNA hybridization probes to characterize filamentous foaming in activated sludge systems.	de los Reyes FL, Ritter W, Raskin L.	Appl Environ Microbiol	10.1128/aem.63.3.1107-1117.1997	1997
Phylogeny	Rapid identification of mycolic acid patterns of mycobacteria by high-performance liquid chromatography using pattern recognition software and a Mycobacterium library.	Glickman SE, Kilburn JO, Butler WR, Ramos LS.	J Clin Microbiol	10.1128/jcm.32.3.740-745.1994	1994
	Multiplex strand displacement amplification (SDA) and detection of DNA sequences from Mycobacterium tuberculosis and other mycobacteria.	Walker GT, Nadeau JG, Spears PA, Schram JL, Nycz CM, Shank DD.	Nucleic Acids Res	10.1093/nar/22.13.2670	1994
Phylogeny	High-performance liquid chromatography analysis of mycolic acids as an aid in laboratory identification of Rhodococcus and Nocardia species.	Butler WR, Kilburn JO, Kubica GP.	J Clin Microbiol	10.1128/jcm.25.11.2126-2131.1987	1987
Phylogeny	Comparison of Actinobacteria communities from human-impacted and pristine karst caves.	Buresova-Faitova A, Kopecky J, Sagova-Mareckova M, Alonso L, Vautrin F, Moenne-Loccoz Y, Rodriguez-Nava V.	Microbiologyopen	10.1002/mbo3.1276	2022
Genetics	Genome Annotation and Catalytic Profile of Rhodococcus rhodochrous IEGM 107, Mono- and Diterpenoid Biotransformer.	Plotnitskaya NA, Maltseva PY, Ivshina IB.	Genes (Basel)	10.3390/genes16070739	2025
	Catabolism of Alkylphenols in Rhodococcus via a Meta-Cleavage Pathway Associated With Genomic Islands.	Levy-Booth DJ, Fetherolf MM, Stewart GR, Liu J, Eltis LD, Mohn WW.	Front Microbiol	10.3389/fmicb.2019.01862	2019
	Acknowledging the use of botanicals to treat diabetic foot ulcer during the 21^st century: A systematic review.	Narzary I, Swarnakar A, Kalita M, Middha SK, Usha T, Babu D, Mochahary B, Brahma S, Basumatary J, Goyal AK.	World J Clin Cases	10.12998/wjcc.v11.i17.4035	2023
Pathogenicity	An Updated Review on the Synthesis and Antibacterial Activity of Molecular Hybrids and Conjugates Bearing Imidazole Moiety.	Rossi R, Ciofalo M.	Molecules	10.3390/molecules25215133	2020
Enzymology	Purification and characterization of a novel nitrilase of Rhodococcus rhodochrous K22 that acts on aliphatic nitriles.	Kobayashi M, Yanaka N, Nagasawa T, Yamada H.	J Bacteriol	10.1128/jb.172.9.4807-4815.1990	1990
Phylogeny	Distribution and phylogenetic analysis of family 19 chitinases in Actinobacteria.	Kawase T, Saito A, Sato T, Kanai R, Fujii T, Nikaidou N, Miyashita K, Watanabe T.	Appl Environ Microbiol	10.1128/aem.70.2.1135-1144.2004	2004
	One-Step Microbial Conversion of a Racemic Mixture of Pantoyl Lactone to Optically Active d-(-)-Pantoyl Lactone.	Shimizu S, Hattori S, Hata H, Yamada H.	Appl Environ Microbiol	10.1128/aem.53.3.519-522.1987	1987
Genetics	Analysis of the genomic sequences and metabolites of Serratia surfactantfaciens sp. nov. YD25^T that simultaneously produces prodigiosin and serrawettin W2.	Su C, Xiang Z, Liu Y, Zhao X, Sun Y, Li Z, Li L, Chang F, Chen T, Wen X, Zhou Y, Zhao F.	BMC Genomics	10.1186/s12864-016-3171-7	2016
Phylogeny	Rhodococcus lactis sp. nov., an actinobacterium isolated from sludge of a dairy waste treatment plant.	Singh PK, Kumari A, Chawla N, Pinnaka AK, Korpole S	Int J Syst Evol Microbiol	10.1099/ijsem.0.000565	2015
Phylogeny	Rhodococcus artemisiae sp. nov., an endophytic actinobacterium isolated from the pharmaceutical plant Artemisia annua L.	Zhao GZ, Li J, Zhu WY, Tian SZ, Zhao LX, Yang LL, Xu LH, Li WJ	Int J Syst Evol Microbiol	10.1099/ijs.0.031930-0	2011
Phylogeny	Rhodococcus yananensis sp. nov., a novel denitrification actinobacterium isolated from microbial fermentation bed material from a pig farm.	Jiang Y, Zheng C, Yu T, Li J, Ai J, Li M, Liu X, Deng Z	Int J Syst Evol Microbiol	10.1099/ijsem.0.005426	2022

References

#10897	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 43241
#19560	Wink, J.: Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig .
#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 )
#20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )
#41148	; Curators of the CIP;
#57548	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 47165
#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;
#68368	Automatically annotated from API 20E .
#68369	Automatically annotated from API 20NE .
#68379	Automatically annotated from API Coryne .
#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 .
#122225	Collection of Institut Pasteur ; Curators of the CIP; CIP 104376
#124042	Johannes Wittmann, Clara Rolland, Lorenz Reimer, Joaquim Sardà: PhageDive .
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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 rhodochrous (DSM 43241, ATCC 13808, CIP 104376)

Name and taxonomic classification

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API 20E

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Genome browser: GCA_900187265

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