Strain identifier

BacDive ID: 16076

Type strain: Yes

Species: Streptomyces rochei

Strain Designation: D-13 = U.C. 2007

Strain history: KCC S-0529 <-- IFO 13099 <-- SAJ <-- ISP 5470 <-- NRRL 2363 <-- Upjohn Co., USA; UC 2007 (=D-13).

NCBI tax ID(s): 67376 (species)

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General

@ref: 9565

BacDive-ID: 16076

DSM-Number: 40470

keywords: genome sequence, 16S sequence, Bacteria, mesophilic, antibiotic compound production

description: Streptomyces rochei D-13 = U.C. 2007 is a mesophilic bacterium that produces antibiotic compounds.

NCBI tax id

  • NCBI tax id: 67376
  • Matching level: species

strain history

@refhistory
9565<- E.B. Shirling, ISP <- NRRL <- Upjohn Co., D-13 = UC 2007
67770KCC S-0529 <-- IFO 13099 <-- SAJ <-- ISP 5470 <-- NRRL 2363 <-- Upjohn Co., USA; UC 2007 (=D-13).

doi: 10.13145/bacdive16076.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Kitasatosporales
  • family: Streptomycetaceae
  • genus: Streptomyces
  • species: Streptomyces rochei
  • full scientific name: Streptomyces rochei Berger et al. 1953 (Approved Lists 1980)

  • synonyms

    @refsynonym
    20215Streptomyces plicatus
    20215Streptomyces enissocaesilis
    20215Streptomyces geysiriensis
    20215Streptomyces vinaceusdrappus

@ref: 9565

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces vinaceusdrappus

full scientific name: Streptomyces vinaceusdrappus Pridham et al. 1958

strain designation: D-13 = U.C. 2007

type strain: yes

Morphology

multimedia

  • @ref: 9565
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_40470.jpg
  • caption: Medium 65 37°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
9565GYM 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
9565ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium84.pdf

culture temp

@refgrowthtypetemperaturerange
9565positivegrowth37mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

compound production

@refcompound
9565amicetin
9565amicetin B
9565amicetin C
9565streptolin

metabolite production

  • @ref: 67770
  • metabolite: amicetin
  • production: yes

Isolation, sampling and environmental information

taxonmaps

  • @ref: 69479
  • File name: preview.99_3171.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_91;97_97;98_106;99_3171&stattab=map
  • Last taxonomy: Streptomyces
  • 16S sequence: AB184311
  • Sequence Identity:
  • Total samples: 28
  • soil counts: 12
  • animal counts: 16

Safety information

risk assessment

  • @ref: 9565
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptomyces vinaceusdrappus gene for 16S ribosomal RNA, partial sequence, strain: JCM 4529D44214121ena67376
20218Streptomyces vinaceusdrappus gene for 16S rRNA, partial sequence, strain: NBRC 13099AB1843111469ena67376
20218Streptomyces vinaceusdrappus strain NRRL 2363 16S ribosomal RNA gene, partial sequenceAY9999291499ena67376

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Streptomyces vinaceusdrappus strain JCM 452967376.3wgspatric67376
66792Streptomyces vinaceusdrappus NRRL 23632582581670draftimg67376
67770Streptomyces vinaceusdrappus JCM 4529GCA_014650215scaffoldncbi67376

GC content

  • @ref: 67770
  • GC-content: 72.5
  • method: genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
gram-positiveyes90.308no
anaerobicno99.227no
halophileno89.172no
spore-formingyes96.544no
glucose-utilyes89.5no
thermophileno98.478yes
flagellatedno98.123no
motileno94.268no
aerobicyes94.179no
glucose-fermentno89.207no

External links

@ref: 9565

culture collection no.: DSM 40470, ATCC 25511, CBS 653.69, IFO 13099, ISP 5470, NBRC 13099, NRRL 2363, RIA 1291, JCM 4529, BCRC 12170, CGMCC 4.1769, NCIMB 12980, NRRL ISP-5470, VKM Ac-1902

literature

  • topic: Enzymology
  • Pubmed-ID: 22267658
  • title: Characterization of the amicetin biosynthesis gene cluster from Streptomyces vinaceusdrappus NRRL 2363 implicates two alternative strategies for amide bond formation.
  • authors: Zhang G, Zhang H, Li S, Xiao J, Zhang G, Zhu Y, Niu S, Ju J, Zhang C
  • journal: Appl Environ Microbiol
  • DOI: 10.1128/AEM.07185-11
  • year: 2012
  • mesh: Amides/*chemistry/metabolism, Anti-Bacterial Agents/biosynthesis, Antiviral Agents/metabolism, Bacterial Proteins/*genetics/*metabolism, Cloning, Molecular, Glycosylation, Molecular Sequence Data, *Multigene Family, Pyrimidine Nucleosides/biosynthesis/chemistry, Sequence Analysis, DNA, Streptomyces/classification/*enzymology/genetics, Streptomyces lividans/enzymology/genetics
  • topic2: Metabolism

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
9565Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40470)https://www.dsmz.de/collection/catalogue/details/culture/DSM-40470
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
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
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.https://microbeatlas.org/MicrobeAtlas 1.0 beta