Strain identifier

BacDive ID: 16065

Type strain: Yes

Species: Streptomyces varsoviensis

Strain Designation: 13-I

Strain history: KCC S-0523 <-- IFO 13093 <-- SAJ <-- ISP 5346 <-- W. Kury?owicz 13-1.

NCBI tax ID(s): 67373 (species)

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General

@ref: 9474

BacDive-ID: 16065

DSM-Number: 40346

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

description: Streptomyces varsoviensis 13-I is a mesophilic bacterium that produces antibiotic compounds and was isolated from soil.

NCBI tax id

  • NCBI tax id: 67373
  • Matching level: species

strain history

@refhistory
9474<- E.B. Shirling, ISP <- W. Kurylowicz, 13-1
67770KCC S-0523 <-- IFO 13093 <-- SAJ <-- ISP 5346 <-- W. Kury?owicz 13-1.

doi: 10.13145/bacdive16065.20230509.8.1

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 varsoviensis
  • full scientific name: Streptomyces varsoviensis Kurylowicz and Woznicka 1967 (Approved Lists 1980)

@ref: 9474

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces varsoviensis

full scientific name: Streptomyces varsoviensis Kurylowicz and Woznicka 1967 emend. Nouioui et al. 2018

strain designation: 13-I

type strain: yes

Morphology

colony morphology

@refcolony colormedium used
69259Copper brown (8004)ISP 5
69259Brown beige (1011), beige brown (8024)suter with tyrosine
69259Brown beige (1011)ISP 4
69259Brown beige (1011)suter without tyrosine
69259Ochre brown (8001), clay brown (8003)ISP 2
69259Olive brown (8008), nut brown (8011)ISP 6
69259Sand yellow (1002)ISP 3
69259Signal orange (2010)ISP 7

multicellular morphology

@refforms multicellular complexcomplex namemedium name
69259noAerial myceliumISP 2
69259noAerial myceliumISP 3
69259noAerial myceliumISP 4
69259noAerial myceliumISP 5
69259noAerial myceliumISP 6
69259noAerial myceliumISP 7
69259noAerial myceliumsuter with tyrosine
69259noAerial myceliumsuter without tyrosine

pigmentation

@refproductionnamecolor
69259yesMelanin
69259yessoluble pigmentBrown beige (1011), sand yellow (1002), clay brown (8003), ochre brown (8001)

multimedia

@refmultimedia contentcaptionintellectual property rights
9474https://www.dsmz.de/microorganisms/photos/DSM_40346.jpgMedium 65 28°C© Leibniz-Institut DSMZ
69259DSM_40346_image6.jpeg(ISP6, ISP7, SSM+T, SSM-T)Helmholtz-Zentrum für Infektionsforschung GmbH
69259DSM_40346_image8.jpeg(ISP6, ISP7, SSM+T, SSM-T)Helmholtz-Zentrum für Infektionsforschung GmbH

Culture and growth conditions

culture medium

  • @ref: 9474
  • name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/65
  • composition: Name: 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

culture temp

@refgrowthtypetemperaturerange
9474positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

compound production

@refcompound
9474oxytetracycline
20216Oxytetracycline

halophily

  • @ref: 69259
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-7.5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6925922599arabinose+/-growth
6925962968cellulose-growth
6925928757fructose+growth
6925917234glucose+growth
6925917268inositol-growth
6925937684mannose+growth
6925916634raffinose-growth
6925926546rhamnose+/-growth
6925917992sucrose-growth
6925918222xylose-growth
6837917632nitrate-reduction
683794853esculin-hydrolysis
6837916199urea-hydrolysis
683795291gelatin-hydrolysis
6837917634D-glucose-fermentation
6837916988D-ribose-fermentation
6837965327D-xylose-fermentation
6837916899D-mannitol-fermentation
6837917306maltose-fermentation
6837917716lactose-fermentation
6837917992sucrose-fermentation
6837928087glycogen-fermentation

metabolite production

  • @ref: 67770
  • Chebi-ID: 27701
  • metabolite: oxytetracycline
  • production: yes

enzymes

@refvalueactivityec
68379gelatinase-
68379urease-3.5.1.5
68379beta-glucosidase-3.2.1.21
68379N-acetyl-beta-glucosaminidase-3.2.1.52
68379alpha-glucosidase-3.2.1.20
68379beta-galactosidase-3.2.1.23
68379beta-glucuronidase-3.2.1.31
68379alkaline phosphatase+3.1.3.1
68379pyrrolidonyl arylamidase-3.4.19.3
68379pyrazinamidase-3.5.1.B15
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
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-fucosidase-3.2.1.51

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
69259---+---------------

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
69259+++-++/----++------+/--

Isolation, sampling and environmental information

isolation

  • @ref: 9474
  • sample type: soil

isolation source categories

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

Safety information

risk assessment

  • @ref: 9474
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptomyces varsoviensis gene for 16S ribosomal RNA, partial sequence, strain: JCM 4523D44211121ena67373
20218Streptomyces varsoviensis gene for 16S rRNA, partial sequence, strain: NBRC 13093AB1843061475ena67373
20218Streptomyces varsoviensis strain NRRL B-3589 16S ribosomal RNA gene, partial sequenceDQ0266531499ena67373

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
67770Streptomyces varsoviensis NRRL ISP-5346GCA_000718635contigncbi67373
67770Streptomyces varsoviensis NRRL B-3589GCA_000719255contigncbi67373
67770Streptomyces varsoviensis NRRL B-3589GCA_001270595contigncbi67373

GC content

  • @ref: 67770
  • GC-content: 72.4
  • method: genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno93.835no
flagellatedno98.484no
gram-positiveyes88.926no
anaerobicno98.94no
halophileno90.22no
spore-formingyes95.022no
thermophileno98.464no
glucose-utilyes91.849yes
aerobicyes92.534no
glucose-fermentno90.985yes

External links

@ref: 9474

culture collection no.: DSM 40346, ATCC 14631c, ATCC 25505, CBS 357.64, CBS 647.69, CUB 116, DSM 40677, IFO 13093, ISP 5346, JCM 4303, JCM 4523, NBRC 13093, NCIB 9522, RIA 1285, ETH 32679, KCC S-0303, KCC S-0523, BCRC 12647, CGMCC 4.1431, HAMBI 1046, IMET 43351, LMG 19360, MTCC 1537, NCAIM B.01482, NCIMB 9522, NRRL B-3589, NRRL ISP-5346, VKM Ac-1000, AS 4.1431, CCRC 12647

straininfo link

  • @ref: 85136
  • straininfo: 92753

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Pathogenicity22153873Persipeptides A and B, two cyclic peptides from Streptomyces sp. UTMC 1154.Mohammadipanah F, Matasyoh J, Hamedi J, Klenk HP, Laatsch HBioorg Med Chem10.1016/j.bmc.2011.10.0762011Amino Acid Sequence, Bacteria/drug effects, Fungi/drug effects, Magnetic Resonance Spectroscopy, Microbial Sensitivity Tests, Molecular Conformation, Peptides, Cyclic/*chemistry/isolation & purification/pharmacology, Streptomyces/*metabolismEnzymology
Phylogeny25030519Streptomyces zagrosensis sp. nov., isolated from soil.Mohammadipanah F, Hamedi J, Sproer C, Rohde M, Montero-Calasanz MDC, Klenk HPInt J Syst Evol Microbiol10.1099/ijs.0.064527-02014Bacterial Typing Techniques, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Iran, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, Streptomyces/*classification/genetics/isolation & purificationGenetics
Genetics32474644Draft genome sequence of Streptomyces tunisialbus DSM 105760(T).Ayed A, Wibberg D, Zendah El Euch I, Frese M, Limam F, Sewald NArch Microbiol10.1007/s00203-020-01913-z2020Base Composition, Base Sequence, Genome, Bacterial/*genetics, Streptomyces/*genetics
35882959Phenylacetyl pepstatin inhibitors of aspartyl proteases from Streptomyces varsoviensis.Ye W, Guo ZJ Antibiot (Tokyo)10.1038/s41429-022-00542-62022*Aspartic Acid Proteases/antagonists & inhibitors, Bacterial Proteins, *Pepstatins/pharmacology, Protease Inhibitors, *Streptomyces/chemistry

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
9474Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40346)https://www.dsmz.de/collection/catalogue/details/culture/DSM-40346
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
20216Curators of the HKIhttp://www.leibniz-hki.de/de/Collection Description Leibniz-Institut für Naturstoff-Forschung und Infektionsbiologie e. V. Hans-Knöll-Institut (HKI)
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
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym
69259Wink, J.https://cdn.dsmz.de/wink/DSM%2040346.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
85136Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID92753.1StrainInfo: A central database for resolving microbial strain identifiers