Strain identifier

BacDive ID: 15160

Type strain: Yes

Species: Streptomyces flavidovirens

Strain history: KCC S-0474 <-- IFO 13039 <-- SAJ <-- ISP 5150 <-- INA 12287.

NCBI tax ID(s): 1123319 (strain), 67298 (species)

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General

@ref: 9350

BacDive-ID: 15160

DSM-Number: 40150

keywords: genome sequence, 16S sequence, Bacteria, aerobe, spore-forming, mesophilic

description: Streptomyces flavidovirens DSM 40150 is an aerobe, spore-forming, mesophilic bacterium that was isolated from soil.

NCBI tax id

NCBI tax idMatching level
67298species
1123319strain

strain history

@refhistory
9350<- E.B. Shirling, ISP <- T.P. Preobrazhenskaya, INA
67770KCC S-0474 <-- IFO 13039 <-- SAJ <-- ISP 5150 <-- INA 12287.

doi: 10.13145/bacdive15160.20250331.9.3

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 flavidovirens
  • full scientific name: Streptomyces flavidovirens (Kudrina 1957) Pridham et al. 1958 (Approved Lists 1980)

  • synonyms

    • @ref: 20215
    • synonym: Actinomyces flavidovirens

@ref: 9350

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces flavidovirens

full scientific name: Streptomyces flavidovirens (Kudrina 1957) Pridham et al. 1958

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
125439no93.1
12543999.8positive

Culture and growth conditions

culture medium

  • @ref: 9350
  • 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

@refgrowthtypetemperature
18548positiveoptimum28
9350positivegrowth28
67770positivegrowth28

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
125438aerobe91.388
125439obligate aerobe99.2

spore formation

@refspore formationconfidence
125438yes93.947
125439yes94.9

halophily

  • @ref: 18548
  • salt: NaCl
  • growth: positive
  • tested relation: maximum
  • concentration: 2.5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1854817234glucose+
1854822599arabinose-
1854817992sucrose-
1854818222xylose-
1854817268myo-inositol-
1854829864mannitol-
1854828757fructose-
1854826546rhamnose-
1854816634raffinose-
1854862968cellulose-
683685291gelatin-hydrolysis
6836827897tryptophan-energy source
6836816199urea-hydrolysis
6836816947citrate-assimilation
6836818257ornithine-degradation
6836825094lysine-degradation
6836829016arginine-hydrolysis

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinno
6836835581indoleno
6836816136hydrogen sulfideno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole test
6836815688acetoin-
6836835581indole-

enzymes

@refvalueactivityec
68368gelatinase-
68368tryptophan deaminase-4.1.99.1
68368urease-3.5.1.5
68368ornithine decarboxylase-4.1.1.17
68368lysine decarboxylase-4.1.1.18
68368arginine dihydrolase-3.5.3.6
68368beta-galactosidase+3.2.1.23

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
18548+----------

Isolation, sampling and environmental information

isolation

@refsample typecountrycontinentorigin.country
9350soilUSSRAsia
67770SoilRussiaRUS

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_834.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_102;97_109;98_662;99_834&stattab=map
  • Last taxonomy: Streptomyces
  • 16S sequence: LC506591
  • Sequence Identity:
  • Total samples: 1611
  • soil counts: 953
  • aquatic counts: 126
  • animal counts: 103
  • plant counts: 429

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
185481German classification
93501Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptomyces flavidovirens strain IFO 13039 16S ribosomal RNA gene, partial sequenceAY9998661434nuccore67298
20218Streptomyces flavidovirens gene for 16S ribosomal RNA, partial sequence, strain: JCM 4474D44169120nuccore67298
20218Streptomyces flavidovirens gene for 16S rRNA, partial sequence, strain: NBRC 13039AB1842701481nuccore67298
67770Streptomyces flavidovirens JCM 4474 gene for 16S rRNA, partial sequenceLC5065911455nuccore67298

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Streptomyces flavidovirens DSM 401501123319.3wgspatric1123319
66792Streptomyces flavidovirens DSM 401502522572192draftimg1123319
67770Streptomyces flavidovirens DSM 40150GCA_000429085scaffoldncbi1123319

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthobligate aerobe99.2
125439BacteriaNetgram_stainReaction to gram-stainingpositive99.8
125439BacteriaNetmotilityAbility to perform movementno93.1
125439BacteriaNetspore_formationAbility to form endo- or exosporesyes94.9
125438gram-positivegram-positivePositive reaction to Gram-stainingyes89.588no
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no96.307no
125438spore-formingspore-formingAbility to form endo- or exosporesyes93.947no
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes91.388no
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno96.491no
125438motile2+flagellatedAbility to perform flagellated movementno88.988no

External links

@ref: 9350

culture collection no.: DSM 40150, AS 4.1374, ATCC 19900, CBS 684.69, ETH 28431, IFO 13039, INA 12287, ISP 5150, NBRC 13039, RIA 1231, JCM 4474, ATCC 25451, BCRC 13761, CGMCC 4.1374, IMET 43744, NRRL B-2708, VKM Ac-1771

straininfo link

  • @ref: 84264
  • straininfo: 389292

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19567563Streptomyces hypolithicus sp. nov., isolated from an Antarctic hypolith community.Le Roes-Hill M, Rohland J, Meyers PR, Cowan DA, Burton SGInt J Syst Evol Microbiol10.1099/ijs.0.007971-02009Antarctic Regions, Bacterial Typing Techniques, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Microscopy, Electron, Scanning, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Streptomyces/*classification/genetics/*isolation & purification/physiologyGenetics
Phylogeny31204968Streptomyces altiplanensis sp. nov., an alkalitolerant species isolated from Chilean Altiplano soil, and emended description of Streptomyces chryseus (Krasil'nikov et al. 1965) Pridham 1970.Cortes-Albayay C, Dorador C, Schumann P, Schniete JK, Herron P, Andrews B, Asenjo J, Nouioui IInt J Syst Evol Microbiol10.1099/ijsem.0.0035252019Alkalies, Altitude, Bacterial Typing Techniques, Base Composition, Chile, DNA, Bacterial/genetics, *Desert Climate, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Hydrogen-Ion Concentration, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Streptomyces/*classification/isolation & purificationTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
9350Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40150)https://www.dsmz.de/collection/catalogue/details/culture/DSM-40150
18548Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM40150.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/
68368Automatically annotated from API 20E
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
84264Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID389292.1StrainInfo: A central database for resolving microbial strain identifiers
125438Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann10.1101/2024.08.12.607695Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets
125439Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardyhttps://github.com/GenomeNet/deepGdeepG: Deep Learning for Genome Sequence Data. R package version 0.3.1