Strain identifier

BacDive ID: 14977

Type strain: Yes

Species: Streptomyces antibioticus

Strain history: KCC S-0620 <-- IFO 12838 <-- SAJ <-- ISP 5234 <-- IMRU 3435.

NCBI tax ID(s): 1306178 (strain), 1890 (species)

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General

@ref: 9395

BacDive-ID: 14977

DSM-Number: 40234

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

description: Streptomyces antibioticus DSM 40234 is a spore-forming, mesophilic, Gram-positive bacterium that produces antibiotic compounds and was isolated from soil.

NCBI tax id

NCBI tax idMatching level
1306178strain
1890species

strain history

@refhistory
9395<- E.B. Shirling, ISP <- IMRU
67770KCC S-0620 <-- IFO 12838 <-- SAJ <-- ISP 5234 <-- IMRU 3435.

doi: 10.13145/bacdive14977.20230509.8.1

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 antibioticus
  • full scientific name: Streptomyces antibioticus (Waksman and Woodruff 1941) Waksman and Henrici 1948 (Approved Lists 1980)

  • synonyms

    • @ref: 20215
    • synonym: Actinomyces antibioticus

@ref: 9395

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces antibioticus

full scientific name: Streptomyces antibioticus (Waksman and Woodruff 1941) Waksman and Henrici 1948 emend. Nouioui et al. 2018

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: positive
  • confidence: 100

multimedia

  • @ref: 9395
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_40234.jpg
  • caption: Medium 65 28°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
9395GYM 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
9395ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium84.pdf

culture temp

@refgrowthtypetemperaturerange
9395positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481yes100
69480yes100

compound production

@refcompound
9395actinomycin B
9395actinomycin X

metabolite production

  • @ref: 67770
  • Chebi-ID: 15369
  • metabolite: actinomycin
  • production: yes

Isolation, sampling and environmental information

isolation

@refsample type
9395soil
67770Bacteria enriched soil

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Soil

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
93951Risk group (German classification)
194281Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptomyces antibioticus gene for 16S ribosomal RNA, partial sequence, strain: JCM 4620D44270120ena1306178
20218Streptomyces antibioticus gene for 16S rRNA, partial sequence, strain: NBRC 12838AB1841841477ena1306178
20218Streptomyces antibioticus strain NRRL B-1701 16S ribosomal RNA gene, partial sequenceAY9997761494ena1890

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Streptomyces antibioticus JCM 4620GCA_001315405contigncbi1306178
66792Streptomyces antibioticus JCM 46201306178.5wgspatric1306178
66792Streptomyces antibioticus strain DSM 402341890.25wgspatric1890
66792Streptomyces antibioticus DSM 402342862328301draftimg1890
66792Streptomyces antibioticus JCM 46202734481986draftimg1306178
67770Streptomyces antibioticus DSM 40234GCA_001514065scaffoldncbi1890

GC content

  • @ref: 67770
  • GC-content: 70.8
  • method: genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileno90.155no
gram-positiveyes89.97no
anaerobicno96.391no
halophileno91.65no
spore-formingyes74.492no
thermophileno97.649yes
glucose-utilyes85.875no
aerobicyes90.759no
flagellatedno98.178no
glucose-fermentno93.692no

External links

@ref: 9395

culture collection no.: DSM 40234, ATCC 23879, ATCC 8663, CBS 659.68, ETH 9875, IFO 12838, IMRU 3435, ISP 5234, NBRC 12838, RIA 1174, JCM 4620, BCRC 12164, BCRC 15104, CBS 478.48, CCM 3159, CECT 3225, IMET 40227, KACC 20096, KCTC 9688, LMG 5966, NBIMCC 1047, NCIMB 8504, NRRL B-1701, NRRL B-2770, VKM Ac-964

straininfo link

  • @ref: 84087
  • straininfo: 5009

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Metabolism20180120Inhibition of oxidative stress-induced amyloid beta formation in NT2 neurons by culture filtrate of a strain of Streptomyces antibioticus.Eftekharzadeh B, Hamedi J, Mohammadipanah F, Khodagholi F, Maghsoudi N, Klenk HPAppl Microbiol Biotechnol10.1007/s00253-010-2456-z2010Amyloid beta-Peptides/*metabolism, Cell Death, Cell Line, Tumor, Enzyme-Linked Immunosorbent Assay, Genes, Bacterial, Genes, rRNA, Humans, Iran, Neurons/cytology/*metabolism, *Oxidative Stress, Peptide Fragments/*metabolism, Phylogeny, Soil Microbiology, Streptomyces antibioticus/classification/genetics/isolation & purification/*metabolismPhylogeny
Phylogeny30782119Purification and characterization of actinomycins from Streptomyces strain M7 active against methicillin resistant Staphylococcus aureus and vancomycin resistant Enterococcus.Sharma M, Manhas RKBMC Microbiol10.1186/s12866-019-1405-y2019Anti-Bacterial Agents/isolation & purification/*pharmacology, Dactinomycin/analogs & derivatives/isolation & purification/pharmacology, Drug Discovery, Drug Resistance, Multiple, Bacterial, Methicillin-Resistant Staphylococcus aureus/*drug effects, Microbial Sensitivity Tests, Phylogeny, RNA, Ribosomal, 16S/genetics, Rhizosphere, Soil Microbiology, Stevia/microbiology, Streptomyces/*chemistry/genetics/isolation & purification, Vancomycin-Resistant Enterococci/*drug effectsEnzymology
Phylogeny34550061Potential antibiotic production of Streptomyces justiciae sp. nov., isolated from the root of Justicia subcoriacea.Phongsopitanun W, Kanchanasin P, Sripreechasak P, Rueangsawang K, Athipornchai A, Supong K, Pittayakhajonwut P, Tanasupawat SInt J Syst Evol Microbiol10.1099/ijsem.0.0050172021Anti-Bacterial Agents, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Justicia, Phospholipids, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Streptomyces/genetics, Vitamin K 2Transcriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
9395Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40234)https://www.dsmz.de/collection/catalogue/details/culture/DSM-40234
19428Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM40234.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
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/
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
84087Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID5009.1StrainInfo: A central database for resolving microbial strain identifiers