Strain identifier

BacDive ID: 15458

Type strain: Yes

Species: Streptomyces parvus

Strain history: KCC S-0069 <-- H. Yonehara <-- MTHU <-- NRRL B-1255.

NCBI tax ID(s): 66428 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 9476

BacDive-ID: 15458

DSM-Number: 40348

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

description: Streptomyces parvus DSM 40348 is a spore-forming, mesophilic bacterium that produces antibiotic compounds and was isolated from garden soil.

NCBI tax id

  • NCBI tax id: 66428
  • Matching level: species

strain history

@refhistory
9476<- E.B. Shirling, ISP <- S.A. Waksman, IMRU
67770KCC S-0069 <-- H. Yonehara <-- MTHU <-- NRRL B-1255.

doi: 10.13145/bacdive15458.20230509.8.1

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 parvus
  • full scientific name: Streptomyces parvus (Krainsky 1914) Waksman and Henrici 1948 (Approved Lists 1980)
  • synonyms

    • @ref: 20215
    • synonym: Actinomyces parvus

@ref: 9476

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces parvus

full scientific name: Streptomyces parvus (Krainsky 1914) Waksman and Henrici 1948

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480no90.839
69480100positive

multimedia

  • @ref: 9476
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_40348.jpg
  • caption: Medium 65 28°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
9476GYM 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
9476ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium84.pdf

culture temp

@refgrowthtypetemperaturerange
9476positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481yes100
69480yes100

compound production

  • @ref: 9476
  • compound: actinomycin C

Isolation, sampling and environmental information

isolation

  • @ref: 9476
  • sample type: garden soil

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Soil
#Engineered#Agriculture#Garden

taxonmaps

  • @ref: 69479
  • File name: preview.99_135.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_102;97_109;98_120;99_135&stattab=map
  • Last taxonomy: Streptomyces
  • 16S sequence: DQ442537
  • Sequence Identity:
  • Total samples: 4030
  • soil counts: 2441
  • aquatic counts: 286
  • animal counts: 1009
  • plant counts: 294

Safety information

risk assessment

  • @ref: 9476
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptomyces parvus gene for 16S ribosomal RNA, partial sequence, strain: JCM 4069D43998120ena66428
20218Streptomyces parvus gene for 16S rRNA, partial sequence, strain: NBRC 14599AB1846031458ena66428
20218Streptomyces parvus gene for 16S rRNA, partial sequence, strain: NBRC 3388AB1847561478ena66428
20218Streptomyces parvus strain NRRL B-1455T 16S ribosomal RNA gene, partial sequenceDQ4425371493ena66428

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Streptomyces parvus JCM 4069GCA_014648875scaffoldncbi66428
66792Streptomyces parvus strain JCM 406966428.6wgspatric66428

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
flagellatedno97.694no
gram-positiveyes92.042no
anaerobicno99.06no
aerobicyes92.595no
halophileno92.401no
spore-formingyes94.348no
thermophileno98.997yes
glucose-utilyes88.642no
motileno94.221no
glucose-fermentno88.389no

External links

@ref: 9476

culture collection no.: DSM 40348, ATCC 12433, CBS 427.61, ETH 12647, IMRU 3686, ISP 5348, NRRL B-1455, JCM 4069, BCRC 15148, CGMCC 4.0610, HAMBI 1018, HUT 6062, IFO 14599, IFO 3388, KCTC 19057, MTCC 322, NBRC 14599, NBRC 3388, NCIMB 9608, NRRL B-1255, RIA 610, VKM Ac-725

straininfo link

  • @ref: 84546
  • straininfo: 389291

literature

  • Pubmed-ID: 34804423
  • title: Potential secondary metabolite from Indonesian Actinobacteria (InaCC A758) against Mycobacterium tuberculosis.
  • authors: Rakhmawatie MD, Wibawa T, Lisdiyanti P, Pratiwi WR, Damayanti E, Mustofa
  • journal: Iran J Basic Med Sci
  • DOI: 10.22038/ijbms.2021.56468.12601
  • year: 2021

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
9476Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40348)https://www.dsmz.de/collection/catalogue/details/culture/DSM-40348
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
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
84546Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID389291.1StrainInfo: A central database for resolving microbial strain identifiers