Strain identifier

BacDive ID: 15040

Type strain: Yes

Species: Streptomyces avidinii

Strain Designation: MA-833

Strain history: KCC S-0726 <-- IFO 13429 <-- SAJ <-- ISP 5526 <-- Merck Sharp & Dohme Res. Labs.; MA-833.

NCBI tax ID(s): 1895 (species)

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General

@ref: 9615

BacDive-ID: 15040

DSM-Number: 40526

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

description: Streptomyces avidinii MA-833 is an aerobe, spore-forming bacterium that builds an aerial mycelium and was isolated from Soil.

NCBI tax id

  • NCBI tax id: 1895
  • Matching level: species

strain history

@refhistory
9615<- E.B. Shirling, ISP <- H.P. Woodruff, Merck Sharp & Dohme, MA-833
67770KCC S-0726 <-- IFO 13429 <-- SAJ <-- ISP 5526 <-- Merck Sharp & Dohme Res. Labs.; MA-833.

doi: 10.13145/bacdive15040.20240916.9.1

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 avidinii
  • full scientific name: Streptomyces avidinii Stapley et al. 1964 (Approved Lists 1980)

@ref: 9615

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces avidinii

full scientific name: Streptomyces avidinii Stapley et al. 1964

strain designation: MA-833

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: positive
  • confidence: 90.03

colony morphology

@refcolony colorincubation periodmedium used
19470Brown10-14 daysISP 2
19470Yellow10-14 daysISP 3
19470Brown10-14 daysISP 4
19470Yellow10-14 daysISP 5
1947010-14 daysISP 6
1947010-14 daysISP 7

multicellular morphology

@refforms multicellular complexcomplex namecomplex colormedium name
19470yesAerial MyceliumPlatinum grey (7036)ISP 2
19470yesAerial MyceliumPlatinum grey (7036)ISP 3
19470yesAerial MyceliumGrayISP 4
19470yesAerial MyceliumGrayISP 5
19470noISP 6
19470yesAerial MyceliumGrayISP 7

multimedia

  • @ref: 9615
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_40526.jpg
  • caption: Medium 65 28°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
9615GYM 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
19470ISP 2yesName: ISP 2 / Yeast Malt Agar (5265); 5265 Composition Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l Agar 15.0 g/l Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.0 Usage: Maintenance and Taxonomy Organisms: All Actinomycetes
19470ISP 3yesName: ISP 3; 5315 Composition Dog oat flakes 20.0 g/l Trace element solution (5314) 2.5 ml/l Agar 18.0 g/l Preparation: Oat flakes are cooked for 20 minutes, trace element solution and agar are added (in the case of non rolled oat flakes the suspension has to bee filtrated). Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.8 Usage: Maintenance and taxonomy (e.g. SEM As liquid medium for metabolite production) Organisms: All Actinomycetes Trace element solution 5314 Name: Trace element solution 5314; 5314 Composition CaCl2 x H2O 3.0 g/l Fe-III-citrate 1.0 g/l MnSO4 0.2 g/l ZnCl2 0.1 g/l CuSO4 x 5 H2O 0.025 g/l Sodium tetra borate 0.2 g/l CoCl2 x 6 H2O 0.004 g/l Sodium molybdate 0.01 g/l Preparation: Use double destillated water. Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Trace element solution for different media Organisms:
19470ISP 4yesName: ISP 4; DSM 547 Solution I: Difco soluble starch, 10.0 g. Make a paste of the starch with a small amount of cold distilled water and bring to a volume of 500 ml. Solution II: CaCO3 2.0 g K2HPO4 (anhydrous) 1.0 g MgSO4 x 7 H2O 1.0 g NaCl 1.0 g (NH4)2SO4 2.0 g Distilled water 500.0 ml Trace salt solution (see below) 1.0 ml The pH should be between 7.0 and 7.4. Do not adjust if it is within this range. Mix solutions I and II together. Add 20.0 g agar. Liquify agar by steaming at 100°C for 10 to 20 min. Trace element solution: FeSO4 x 7 H2O 0.1 g MnCl2 x 4 H2O 0.1 g ZnSO4 x 7 H2O 0.1 g Distilled water 100.0 ml
19470ISP 5yesName: ISP 5 (5323) Composition L-Asparagine 1.0 g/l Glycerol 10.0 g/l K2HPO4 1.0 g/l Salt solution (see preparation) 1.0 ml/l Agar 20.0 g/l Preparation: Salt solution 1.0 g FeSO4 x 7 H2O 1.0 g MnCl2 x 4 H2O 1.0 g ZNSO4 x 7 H2O in 100 ml water Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.2 Usage: Maintenance and taxonomy Organisms: All Actinomycetes
19470ISP 6yesName: ISP 6 (5318) Composition Peptone 15.0 g/l Proteose peptose 5.0 g/l Ferric ammonium citrate 0.5 g/l Sodium glycerophosphate 1.0 g/l Sodium thiosulfate 0.08 g/l Yeast extract 1.0 g/l Agar 15.0 g/l Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigments Organisms: All Actinomycetes
19470ISP 7yesName: ISP 7 (5322) Composition Glycerol 15.0 g/l L-Tyrosine 0.5 g/l L-Asparagine 1.0 g/l K2HPO4 0.5 g/l NaCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Trace element solution 5343 1.0 ml/l Agar 20.0 Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.3 Usage: Production of melanoid pigments Organisms: All Actinomycetes
9615ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium84.pdf

culture temp

@refgrowthtypetemperature
19470positiveoptimum28
9615positivegrowth28
60274positivegrowth30
67770positivegrowth28

Physiology and metabolism

oxygen tolerance

  • @ref: 60274
  • oxygen tolerance: aerobe

spore formation

@refspore descriptiontype of sporespore formationconfidence
19470Formation of spore chains (rectiflixibilis), spore surface smoothsporeyes
69480yes91.426
69481yes100

compound production

@refcompound
9615antibiotic MSD-235 complex
20216Streptavidin (MSD-235 complex)
67770Antibiotic MSD-235 (streptavidin)

halophily

  • @ref: 19470
  • salt: NaCl
  • growth: positive
  • tested relation: maximum
  • concentration: 2.5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1947062968cellulose-
1947016634raffinose-
1947026546rhamnose-
1947028757fructose-
1947029864mannitol-
1947017268myo-inositol-
1947018222xylose-
1947017992sucrose-
1947022599arabinose-
1947017234glucose+
683685291gelatin+hydrolysis
6836827897tryptophan-energy source
6836816199urea+hydrolysis
6836816947citrate+assimilation
6836818257ornithine+degradation
6836825094lysine+degradation
6836829016arginine+hydrolysis

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinyes
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
19470-++++-+--++

Isolation, sampling and environmental information

isolation

  • @ref: 67770
  • sample type: Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_163.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_102;97_109;98_144;99_163&stattab=map
  • Last taxonomy: Streptomyces
  • 16S sequence: AY999904
  • Sequence Identity:
  • Total samples: 26399
  • soil counts: 19336
  • aquatic counts: 1680
  • animal counts: 1702
  • plant counts: 3681

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
96151Risk group (German classification)
194701Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptomyces avidinii gene for 16S rRNA, partial sequenceAB122769564nuccore1895
20218Streptomyces avidinii gene for 16S ribosomal RNA, partial sequence, strain: JCM 4726D44313120nuccore1895
20218Streptomyces avidinii gene for 16S rRNA, partial sequence, strain: NBRC 13429AB1843951476nuccore1895
20218Streptomyces avidinii strain NRRL 3077 16S ribosomal RNA gene, partial sequenceAY9999041435nuccore1895

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Streptomyces avidinii JCM 4726GCA_014650695scaffoldncbi1895
66792Streptomyces avidinii DSM 40526GCA_017874515contigncbi1895
66792Streptomyces avidinii strain DSM 405261895.8wgspatric1895
66792Streptomyces avidinii strain JCM 47261895.6wgspatric1895
66792Streptomyces avidinii DSM 405262913541555draftimg1895

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69481spore-formingspore-formingAbility to form endo- or exosporesyes100no
69480gram-positivegram-positivePositive reaction to Gram-stainingyes90.03no
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no96.867yes
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes89.551no
69480spore-formingspore-formingAbility to form endo- or exosporesyes91.426yes
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno96.5no
69480flagellatedmotile2+Ability to perform flagellated movementno87.6no

External links

@ref: 9615

culture collection no.: DSM 40526, ATCC 27419, CBS 730.72, IFO 13429, ISP 5526, NBRC 13429, NRRL 3077, RIA 1390, CCUG 54639, NCIMB 11996, JCM 4726, BCRC 13384, CGMCC 4.1583, IMET 43538, KCTC 9757, MTCC 1808, PCM 2342, VKM Ac-1074

straininfo link

  • @ref: 84146
  • straininfo: 46660

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
9615Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40526)https://www.dsmz.de/collection/catalogue/details/culture/DSM-40526
19470Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM40526.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
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
60274Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 54639)https://www.ccug.se/strain?id=54639
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
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
84146Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID46660.1StrainInfo: A central database for resolving microbial strain identifiers