Strain identifier

BacDive ID: 10894

Type strain: No

Species: Rhodococcus rhodnii

Strain Designation: A1, N 443

Strain history: CIP <- 1995, DSM <- M. Goodfellow: strain N 443 <- P. Hill: strain A1, Nocardia rhodnii

NCBI tax ID(s): 38312 (species)

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General

@ref: 10963

BacDive-ID: 10894

DSM-Number: 43337

keywords: 16S sequence, obligate aerobe, mesophilic, Gram-positive, rod-shaped

description: Rhodococcus rhodnii A1 is an obligate aerobe, mesophilic, Gram-positive prokaryote that was isolated from intestinal tract.

NCBI tax id

  • NCBI tax id: 38312
  • Matching level: species

strain history

@refhistory
10963<- M. Goodfellow, N 443 <- P. Hill, A1 (Nocardia rhodnii)
122221CIP <- 1995, DSM <- M. Goodfellow: strain N 443 <- P. Hill: strain A1, Nocardia rhodnii

doi: 10.13145/bacdive10894.20230509.8.1

Name and taxonomic classification

LPSN

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

@ref: 10963

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Nocardiaceae

genus: Rhodococcus

species: Rhodococcus rhodnii

full scientific name: Rhodococcus rhodnii Goodfellow and Alderson 1979 emend. Nouioui et al. 2018

strain designation: A1, N 443

type strain: no

Morphology

cell morphology

  • @ref: 122221
  • gram stain: positive
  • cell shape: rod-shaped
  • motility: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
10963GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)yeshttps://mediadive.dsmz.de/medium/65Name: 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
41253MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)
122221CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72
122221CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3

culture temp

@refgrowthtypetemperaturerange
10963positivegrowth28mesophilic
41253positivegrowth30mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 122221
  • oxygen tolerance: obligate aerobe

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
12222117632nitrate+reduction
12222116301nitrite-reduction

metabolite production

  • @ref: 122221
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
122221oxidase-
122221catalase+1.11.1.6
122221urease+3.5.1.5
68382alkaline phosphatase-3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382valine arylamidase+
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase-3.2.1.20
68382beta-glucosidase-3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
122221--++-++---++--------

Isolation, sampling and environmental information

isolation

@refsample type
10963intestinal tract
122221Intestinal tract

isolation source categories

  • Cat1: #Host Body-Site
  • Cat2: #Gastrointestinal tract

taxonmaps

  • @ref: 69479
  • File name: preview.99_4925.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_14;97_1541;98_3688;99_4925&stattab=map
  • Last taxonomy: Rhodococcus rhodnii subclade
  • 16S sequence: X80622
  • Sequence Identity:
  • Total samples: 381
  • soil counts: 172
  • aquatic counts: 89
  • animal counts: 101
  • plant counts: 19

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
109631Risk group (German classification)
1222211Risk group (French classification)

Sequence information

16S sequences

  • @ref: 20218
  • description: Rhodococcus rhodnii 16S rRNA gene, strain DSM43337T
  • accession: X80622
  • length: 1478
  • database: ena
  • NCBI tax ID: 38312

External links

@ref: 10963

culture collection no.: DSM 43337, CIP 104627

straininfo link

  • @ref: 80149
  • straininfo: 4882

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
10963Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 43337)https://www.dsmz.de/collection/catalogue/details/culture/DSM-43337
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
41253Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/16557
68382Automatically annotated from API zym
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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
80149Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID4882.1StrainInfo: A central database for resolving microbial strain identifiers
122221Curators of the CIPCollection of Institut Pasteur (CIP 104627)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104627