Rhodococcus erythropolis (CIP 104500, ATCC 15962, IAM 1494)

Name: Rhodococcus erythropolis (CIP 104500, ATCC 15962, IAM 1494)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 137088

Type strain

Culture col. no. CIP 104500 ATCC 15962 IAM 1494 JCM 2895

NCBI tax ID(s) 1833

Special Collections JCM CIP

Links

Rhodococcus erythropolis CIP 104500 is a mesophilic prokaryote of the family Nocardiaceae.

mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 36599

ATCC 15962,IAM 1494,NRRL B-16533,CIP 104500,JCM 2895

@ref 20215

Last LPSN update 2025-12-16 10:02:44

Domain Bacillati

Phylum Actinomycetota

Class Actinomycetes

Order Mycobacteriales

Family Nocardiaceae

Genus Rhodococcus

Species Rhodococcus erythropolis

Full scientific name Rhodococcus erythropolis (Gray and Thornton 1928) Goodfellow and Alderson 1979 (Approved Lists 1980)

Synonyms (9)

Arthrobacter picolinophilus
Rhodococcus qingshengii
"Nocardia erythropolis"
Rhodococcus enclensis
"Mycobacterium erythropolis"
Rhodococcus baikonurensis
Rhodococcus degradans
Nocardia calcarea
Rhodococcus jialingiae

BacDive ID	Other strains from **Rhodococcus erythropolis** (66)	Type strain
10866	R. erythropolis A-0201, N11, DSM 43066, ATCC 25544, ATCC ... (type strain)
10851	R. erythropolis huber, 2411, DSM 312, ATCC 15591, CCUG 27198
10852	R. erythropolis B-297, DSM 313, ATCC 19140
10853	R. erythropolis DSM 743, ATCC 25544, CCM 277, NCIB 9158
10854	R. erythropolis B-286, DSM 772, DSM 43296
10855	R. erythropolis HA1, DSM 6344
10856	R. erythropolis CAA2, DSM 7337
10857	R. erythropolis MPropP3, DSM 8424
10858	R. erythropolis MP50, DSM 9675
10859	R. erythropolis C3II, DSM 9685
10860	R. erythropolis K2a, DSM 11397
10861	R. erythropolis EK2, DSM 12788
10862	R. erythropolis EK5, DSM 12789
10863	R. erythropolis DSM 20665, ATCC 27854, JCM 11573, CCM 2769, ...
10864	R. erythropolis T-16, DSM 43135, LBG A 3116, NCIB 9409, ETH ...
10865	R. erythropolis No 52, DSM 43060, ATCC 11048, CCM 2595, NCIB ...
10867	R. erythropolis DSM 43188, ATCC 19369, CBS 613.67, CCM 2597, ...
10868	R. erythropolis DSM 43200, DSM 314, NCIB 9905
10869	R. erythropolis A 20-17, Schering 254, DSM 43288, ATCC 14559
10870	R. erythropolis B-286, Schering 270, DSM 43296, ATCC 17895
10871	R. erythropolis B-285, Schering 271, DSM 43297, ATCC 17896
10872	R. erythropolis DSM 43574, CBS 611.67, SN 6400
10873	R. erythropolis TTD-1, DSM 43933
10874	R. erythropolis N63, DSM 43958
10876	R. erythropolis N60, DSM 43957
10877	R. erythropolis DSM 44235
10878	R. erythropolis 404-97, H1aT1, PWD28, DSM 44308
10879	R. erythropolis MAWF, DSM 44522
10880	R. erythropolis DTB, DSM 44534
10914	R. erythropolis 81 N Fr, DSM 43590
103558	R. erythropolis ST033319(HKI),
130481	R. erythropolis DSM 26610, NCIMB 8147
131916	R. erythropolis Stev11, DSM 103048
134648	R. erythropolis TA 57, CIP 107391
137083	R. erythropolis CIP 104497, ATCC 15963, IAM 1399, IFO 12538, ...
137086	R. erythropolis P-8-1, CIP 104499, ATCC 15961, IAM 1484, ...
137854	R. erythropolis IFP 192 P, CIP 101879
138041	R. erythropolis CIP 102573
138089	R. erythropolis CIP 104646, ATCC 21035, IFO 12320
138358	R. erythropolis CIP 106505, NRRL B-16531, ATCC 15960, JCM ...
139251	R. erythropolis CIP 104647, IAM 1414, IFO 12539, JCM 20158, ...
139773	R. erythropolis ACN1, DSM 105063
145711	R. erythropolis CCUG 29360
146519	R. erythropolis CCUG 31366
146583	R. erythropolis CCUG 31495
150997	R. erythropolis CCUG 42976
151111	R. erythropolis CCUG 43294
151622	R. erythropolis CCUG 44470
152104	R. erythropolis CCUG 45793
152657	R. erythropolis CCUG 47303
152710	R. erythropolis CCUG 47441
152741	R. erythropolis CCUG 47521
154681	R. erythropolis CCUG 54830
156842	R. erythropolis CCUG 66020
157817	R. erythropolis BG43, DSM 46869
157818	R. erythropolis Stevenage 150518_C15, DSM 107796
160170	R. erythropolis CCMMB1294, GK12, DSM 102980
162788	R. erythropolis JCM 20154, IAM 1400
162791	R. erythropolis JCM 20161, CIP 104648, IAM 1428, IFO 12540, ...
162792	R. erythropolis JCM 20165, IAM 1440
162796	R. erythropolis JCM 20170, IAM 1452
162803	R. erythropolis JCM 20186, IAM 1503
163709	R. erythropolis JCM 3011, CGMCC 4.1481, IFM 0020
166074	R. erythropolis JCM 9803
166075	R. erythropolis JCM 9804
166076	R. erythropolis JCM 9805

Morphology

Cell morphology

@ref	Motility	Confidence	Gram stain
125438		92
125438		90.995	positive

Culture and growth conditions

Culture medium

@ref	Name	Growth	Composition	Medium link
36939	MEDIUM 3 - Columbia agar		Columbia agar (39.000 g);distilled water (1000.000 ml)
36939	CIP Medium 3			Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
36939	positive	growth	30	mesophilic
67770	positive	growth	28	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	92.9

Isolation, sampling and environmental information

Isolation

@ref	Sample type	Country	Country ISO 3 Code	Continent
36939		Japan	JPN	Asia
67770	Soil in petroleum zone	Japan	JPN	Asia
36939	Environment, Soil in petroleum zone	Japan	JPN	Asia

Taxonmaps

69479

Global distribution of 16S sequence AB429538 (>99% sequence identity) for Nocardiaceae from Microbeatlas

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

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
36939	1	Risk group (French classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	NCBI tax ID	Score
66792	ASM2434980v1 assembly for Rhodococcus erythropolis JCM 2895	complete	GCA_024349805	1833.235	1833	96.37

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
67770	Rhodococcus erythropolis gene for 16S rRNA, partial sequence, strain: JCM 2895	AB429538	1440		1833
124043	Rhodococcus erythropolis gene for 16S rRNA, partial sequence, strain: JCM 2895.	AB478992	1440		1833

GC content

@ref	GC-content (mol%)	Method
67770	60.2	thermal denaturation, midpoint method (Tm)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Rhodococcus erythropolis JCM 2895
NCBI: GCA_024349805

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	65.60	no
125439	motility	BacteriaNetⓘ	no	78.90	no
125439	gram_stain	BacteriaNetⓘ	positive	80.80	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	92.90	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Rhodococcus erythropolis JCM 2895
NCBI: GCA_024349805.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	91.00	no
125438	anaerobic	anaerobicⓘ	no	97.98	no
125438	aerobic	aerobicⓘ	yes	83.84	no
125438	spore-forming	spore-formingⓘ	yes	62.59	no
125438	thermophilic	thermophileⓘ	no	97.00	yes
125438	flagellated	motile2+ⓘ	no	92.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Enzymology	Distribution of aldoxime dehydratase in microorganisms.	Kato Y, Ooi R, Asano Y.	Appl Environ Microbiol	10.1128/aem.66.6.2290-2296.2000	2000
Genetics	Development of Efficient Genome-Reduction Tool Based on Cre/loxP System in Rhodococcus erythropolis.	Kitagawa W, Hata M.	Microorganisms	10.3390/microorganisms11020268	2023
Genetics	Biotechnological Key Genes of the Rhodococcus erythropolis MGMM8 Genome: Genes for Bioremediation, Antibiotics, Plant Protection, and Growth Stimulation.	Afordoanyi DM, Akosah YA, Shnakhova L, Saparmyradov K, Diabankana RGC, Validov S.	Microorganisms	10.3390/microorganisms12010088	2023
	Insights into the biodegradation of polycaprolactone through genomic analysis of two plastic-degrading Rhodococcus bacteria.	Zampolli J, Vezzini D, Brocca S, Di Gennaro P.	Front Microbiol	10.3389/fmicb.2023.1284956	2023
	Biotechnology of Rhodococcus for the production of valuable compounds.	Cappelletti M, Presentato A, Piacenza E, Firrincieli A, Turner RJ, Zannoni D.	Appl Microbiol Biotechnol	10.1007/s00253-020-10861-z	2020
Metabolism	Identification of a novel bacteriocin-like protein and structural gene from Rhodococcus erythropolis JCM 2895, using suppression-subtractive hybridization.	Kitagawa W, Mitsuhashi S, Hata M, Tamura T	J Antibiot (Tokyo)	10.1038/s41429-018-0078-3	2018
Enzymology	Isolation of two plasmids, pRET1100 and pRET1200, from Rhodococcus erythropolis IAM1400 and construction of a Rhodococcus-Escherichia coli shuttle vector.	Yamamura ET	J Biosci Bioeng	10.1016/j.jbiosc.2018.01.001	2018
Genetics	Complete Genome Sequence of Rhodococcus erythropolis JCM 2895, an Antibiotic Protein-Producing Strain.	Kitagawa W, Hata M	Microbiol Resour Announc	10.1128/mra.00682-22	2022

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 )
#36939	Collection of Institut Pasteur ; Curators of the CIP; CIP 104500
#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;
#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 .
#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 erythropolis (CIP 104500, ATCC 15962, IAM 1494)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Isolation, sampling and environmental information

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_024349805

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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