Name: Rhodococcus erythropolis djl-6-2
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 11047

Type strain:

Species: Rhodococcus erythropolis

Strain Designation: djl-6-2

Culture col. no.: DSM 45257, CCTCC AB 208292, JCM 16906, CCM 8452

Strain history: DSM 45257 <-- Z. Wang djl-6-2.

NCBI tax ID(s): 334542 (species)

Special Collections

Other strains from Rhodococcus erythropolis

Section

When using BacDive for research please cite our paper

Rhodococcus erythropolis djl-6-2 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from sludge of a carbendazim wastewater treatment facility.

Gram-positive
ovoid-shaped
aerobe
mesophilic
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Actinomycetota*
	Class	*Actinomycetes*
	Order	*Mycobacteriales*
	Family	*Nocardiaceae*
	Genus	*Rhodococcus*
	Species	**Rhodococcus erythropolis**
	Full Scientific Name (LPSN)	Rhodococcus erythropolis (Gray and Thornton 1928) Goodfellow and Alderson 1979 (Approved Lists 1980)

	Synonym	Rhodococcus jialingiae
	Synonym	Rhodococcus enclensis
	Synonym	Rhodococcus degradans
	Synonym	"Mycobacterium* erythropolis"*
	Synonym	Rhodococcus qingshengii
	Synonym	Rhodococcus baikonurensis

Information on morphological and physiological properties Morphology

[Ref.: #29442]	Gram stain	positive

[Ref.: #29442]	Cell shape	ovoid-shaped

[Ref.: #29442]	Motility	no

[Ref.: #29442]

Pigment production

yes

Multimedia content

[Ref.: #16010]

Caption:

Medium 535 28°C

[Ref.: #16010]

Intellectual property rights:

Information on culture and growth conditions Culture and growth conditions

[Ref.: #16010]

Culture medium

TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)

[Ref.: #16010]

Culture medium growth

[Ref.: #16010]

Culture medium link

Medium recipe at MediaDive

[Ref.: #16010]

Culture medium composition

expand / minimize

[Ref.: #16010]

Culture medium

GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)

[Ref.: #16010]

Culture medium growth

[Ref.: #16010]

Culture medium link

Medium recipe at MediaDive

[Ref.: #16010]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #16010]	growth	28 °C
[Ref.: #29442]	growth	04-35 °C
[Ref.: #67770]	growth	28 °C

	pH	Kind of pH		pH
[Ref.: #29442]			growth	04-09

Information on physiology and metabolism Physiology and metabolism

[Ref.: #29442]

Oxygen tolerance

aerobe

[Ref.: #29442]

Ability of spore formation

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #29442]		NaCl		growth	<7	%

[Ref.: #67770]

Observation

quinones: MK-8(H₂)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68369]	adipate ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	arginine ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	-	fermentation	* from API 20NE
[Ref.: #68369]	D-mannitol ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	decanoate ChEBI	-	assimilation	* from API 20NE
[Ref.: #29442]	fructose ChEBI	+	carbon source
[Ref.: #68369]	gelatin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #68369]	gluconate ChEBI	+	assimilation	* from API 20NE
[Ref.: #29442]	L-arabitol ChEBI	+	carbon source
[Ref.: #68369]	malate ChEBI	+	assimilation	* from API 20NE
[Ref.: #29442]	mannitol ChEBI	+	carbon source
[Ref.: #29442]	myo-inositol ChEBI	+	carbon source
[Ref.: #68369]	N-acetylglucosamine ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	nitrate ChEBI	-	reduction	* from API 20NE
[Ref.: #68369]	tryptophan ChEBI	-	energy source	* from API 20NE
[Ref.: #68369]	urea ChEBI	+	hydrolysis	* from API 20NE
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #68369]		indole ChEBI	no	* from API 20NE

	Physiological tests	Metabolite	Indole test
[Ref.: #68369]		indole ChEBI	-	* from API 20NE

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #68382]	alkaline phosphatase	+	3.1.3.1	* from API zym
[Ref.: #68382]	alpha-chymotrypsin	-	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	-	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	+	3.2.1.20	* from API zym
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #68369]	arginine dihydrolase	-	3.5.3.6	* from API 20NE
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym
[Ref.: #68382]	beta-glucosidase	+	3.2.1.21	* from API zym
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #29442]	catalase	+	1.11.1.6
[Ref.: #68369]	gelatinase	-		* from API 20NE
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #29442]	urease	+	3.5.1.5
[Ref.: #68369]	urease	+	3.5.1.5	* from API 20NE
[Ref.: #68382]	valine arylamidase	+		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® 20NE:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Reduction of nitratesNO3	Indole productionTRP	Fermentation of D-glucoseGLU_ Ferm	Arginine dihydrolaseADH (Arg)	Urease/urea hydrolysisURE	Esculin hydrolysis/beta-GlucosidaseESC	Gelatinase/gelatin hydrolysisGEL	beta-GalactosidasePNPG	Assimilation of D-glucoseGLU_ Assim	Assimilation of L-arabinoseARA	Assimilation of D-mannoseMNE	Assimilation of D-mannitolMAN	Assimilation of N-acetyl-glucosamineNAG	Assimilation of maltoseMAL	Assimilation of gluconateGNT	Assimilation of capric acidCAP	Assimilation adipic acidADI	Assimilation of malic acidMLT	Assimilation of citric acidCIT	Assimilation of phenyl-acetic acidPAC	Cytochrome oxidaseOX
[Ref.: #16010]	27690	-	-	-	-	+	+/-	-	+	+/-	+/-	+/-	+	+	+/-	+	-	+	+	+	+	not determinedn.d.

API® zym:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #16010]	14660	-	+	+/-	+/-	+/-	+	+	+/-	-	-	+	+	-	-	-	+	+	-	-	-

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #16010]	Sample type/isolated from	sludge of a carbendazim wastewater treatment facility
[Ref.: #16010]	Geographic location (country and/or sea, region)	Jiangsu Province, Nanjing
[Ref.: #16010]	Country	China
[Ref.: #16010]	Country ISO 3 Code	CHN
[Ref.: #16010]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Sludge of a carbendazim wastewater treatment facility
[Ref.: #67770]	Geographic location (country and/or sea, region)	Jiangsu Province
[Ref.: #67770]	Country	China
[Ref.: #67770]	Country ISO 3 Code	CHN
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Engineered	#Waste	#Water treatment plant
#Environmental	#Terrestrial	#Mud (Sludge)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence DQ185597 (>99% sequence identity) for Nocardiaceae from Microbeatlas

Aquatic Samples	6494
Soil Samples	7777
Animal Samples	11681
Plant Samples	2835
Total Samples	28787

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #16010]

Biosafety level

Risk group (German classification)
According to TRBA 466

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #16010]	Rhodococcus jialingiae strain djl-6-2 16S ribosomal RNA gene, partial sequence	DQ185597	1489	GenBank ENA	334542 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Rhodococcus qingshengii djl-6-2	GCA_002893965	complete	GenBank ENA	334542 tax ID

[Ref.: #16010]	GC-content	60.1 mol%	thermal denaturation, midpoint method (Tm)
[Ref.: #29442]	GC-content	60.1 mol%

Availability in culture collections External links

[Ref.: #16010]

Culture collection no.

DSM 45257, CCTCC AB 208292, JCM 16906, CCM 8452

Literature:

Topic	Title	Authors	Journal	DOI	Year
Metabolism	Biodegradation of carbendazim by a novel actinobacterium Rhodococcus jialingiae djl-6-2.	Wang Z, Wang Y, Gong F, Zhang J, Hong Q, Li S	Chemosphere	10.1016/j.chemosphere.2010.08.040	2010	*

References

#16010

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 45257

#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 )

#29442

Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #25848 (see below)

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#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 .

#25848

IJSEM 378 2010 ( DOI 10.1099/ijs.0.013219-0 , PubMed 19651732 )

* These data were automatically processed and therefore are not curated

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