Strain identifier

BacDive ID: 137088

Type strain: No

Species: Rhodococcus erythropolis

Strain history: CIP <- 1995, JCM <- IAM <- H. Lizuka and K. Komagata: strain P-8-2, Corynebacterium hydrocarboclastum

NCBI tax ID(s): 1833 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 8.1 (current version)

General

@ref: 36939

BacDive-ID: 137088

keywords: genome sequence, 16S sequence, mesophilic

description: Rhodococcus erythropolis CIP 104500 is a mesophilic prokaryote.

NCBI tax id

  • NCBI tax id: 1833
  • Matching level: species

strain history

@refhistory
67770IAM 1494 <-- H. Iizuka and K. Komagata P-8-2.
36939CIP <- 1995, JCM <- IAM <- H. Lizuka and K. Komagata: strain P-8-2, Corynebacterium hydrocarboclastum

doi: 10.13145/bacdive137088.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • genus: Rhodococcus
  • species: Rhodococcus erythropolis
  • full scientific name: Rhodococcus erythropolis (Gray and Thornton 1928) Goodfellow and Alderson 1979 (Approved Lists 1980)

  • synonyms

    @refsynonym
    20215Mycobacterium erythropolis
    20215Rhodococcus qingshengii
    20215Rhodococcus baikonurensis
    20215Rhodococcus jialingiae
    20215Rhodococcus enclensis
    20215Rhodococcus degradans

@ref: 36939

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Mycobacteriales

family: Nocardiaceae

genus: Rhodococcus

species: Rhodococcus erythropolis

type strain: no

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
36939MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)
36939CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3

culture temp

@refgrowthtypetemperaturerange
36939positivegrowth30mesophilic
67770positivegrowth28mesophilic

Isolation, sampling and environmental information

isolation

@refcountryorigin.countrycontinentsample type
36939JapanJPNAsia
67770JapanJPNAsiaSoil in petroleum zone
36939JapanJPNAsiaEnvironment, Soil in petroleum zone

taxonmaps

  • @ref: 69479
  • File name: preview.99_1118.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_181;97_585;98_672;99_1118&stattab=map
  • Last taxonomy: Nocardiaceae
  • 16S sequence: AB429538
  • Sequence Identity:
  • Total samples: 28787
  • soil counts: 7777
  • aquatic counts: 6494
  • animal counts: 11681
  • plant counts: 2835

Safety information

risk assessment

  • @ref: 36939
  • biosafety level: 1
  • biosafety level comment: Risk group (French classification)

Sequence information

16S sequences

  • @ref: 67770
  • description: Rhodococcus erythropolis gene for 16S rRNA, partial sequence, strain: JCM 2895
  • accession: AB429538
  • length: 1440
  • database: ena
  • NCBI tax ID: 1833

Genome sequences

  • @ref: 66792
  • description: Rhodococcus erythropolis JCM 2895
  • accession: GCA_024349805
  • assembly level: complete
  • database: ncbi
  • NCBI tax ID: 1833

GC content

  • @ref: 67770
  • GC-content: 60.2
  • method: thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
flagellatedno97.77no
gram-positiveyes85.287no
anaerobicno99.324no
aerobicyes91.287no
halophileno94.464no
spore-formingno65.603no
motileno93.249no
glucose-fermentno89.916no
thermophileno99.555yes
glucose-utilyes89.703no

External links

@ref: 36939

culture collection no.: CIP 104500, ATCC 15962, IAM 1494, JCM 2895

straininfo link

  • @ref: 94061
  • straininfo: 36599

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Enzymology29454586Isolation of two plasmids, pRET1100 and pRET1200, from Rhodococcus erythropolis IAM1400 and construction of a Rhodococcus-Escherichia coli shuttle vector.Yamamura ETJ Biosci Bioeng10.1016/j.jbiosc.2018.01.0012018Cloning, Molecular, DNA, Recombinant/chemical synthesis/genetics, Escherichia coli/*genetics, Genetic Vectors/*chemical synthesis/*genetics, Open Reading Frames, Plasmids/*isolation & purification, Rhodococcus/*genetics/metabolismPhylogeny
Metabolism29980745Identification 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 TJ Antibiot (Tokyo)10.1038/s41429-018-0078-32018Bacteriocins/chemistry/genetics/*metabolism, Gene Expression Regulation, Bacterial/*physiology, Rhodococcus/*metabolism
Genetics36321907Complete Genome Sequence of Rhodococcus erythropolis JCM 2895, an Antibiotic Protein-Producing Strain.Kitagawa W, Hata MMicrobiol Resour Announc10.1128/mra.00682-222022

Reference

@idauthorstitledoi/urlcatalogue
20215Parte, 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 DSMZ10.1099/ijsem.0.004332
36939Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104500Collection of Institut Pasteur (CIP 104500)
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
69479João 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 betahttps://microbeatlas.org/
94061Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID36599.1