Strain identifier

BacDive ID: 14991

Type strain: No

Species: Streptomyces antimycoticus

Strain history: KCC S-0228 <-- Y. Okami <-- ISP 5284 <-- NRRL 2421.

NCBI tax ID(s): 68175 (species)

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General

@ref: 9435

BacDive-ID: 14991

DSM-Number: 40284

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

description: Streptomyces antimycoticus DSM 40284 is a spore-forming, mesophilic, Gram-positive bacterium that builds an aerial mycelium and produces antibiotic compounds.

NCBI tax id

  • NCBI tax id: 68175
  • Matching level: species

strain history

@refhistory
9435<- E.B. Shirling, ISP <- NRRL
67770KCC S-0228 <-- Y. Okami <-- ISP 5284 <-- NRRL 2421.

doi: 10.13145/bacdive14991.20230509.8.1

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 antimycoticus
  • full scientific name: Streptomyces antimycoticus Waksman 1957 (Approved Lists 1980)

  • synonyms

    • @ref: 20215
    • synonym: Streptomyces sporoclivatus

@ref: 9435

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces castelarensis

full scientific name: Streptomyces castelarensis (Cercós 1954) Kumar and Goodfellow 2008

type strain: no

Morphology

cell morphology

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

colony morphology

@refcolony colorincubation periodmedium used
19432Yellow10-14 daysISP 2
19432Yellow10-14 daysISP 3
19432Yellow10-14 daysISP 4
19432Yellow10-14 daysISP 5
19432Yellow10-14 daysISP 6
19432Yellow10-14 daysISP 7

multicellular morphology

@refforms multicellular complexcomplex namecomplex colormedium name
19432yesAerial MyceliumGreyISP 2
19432yesAerial MyceliumGreyISP 3
19432yesAerial MyceliumGreyISP 4
19432yesAerial MyceliumGreyISP 5
19432yesAerial MyceliumGreyISP 6
19432yesAerial MyceliumGreyISP 7

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
9435GYM 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
19432ISP 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
19432ISP 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:
19432ISP 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
19432ISP 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
19432ISP 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
19432ISP 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
9435ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium84.pdf

culture temp

@refgrowthtypetemperaturerange
19432positiveoptimum28mesophilic
9435positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

spore formation

@refspore descriptionspore formationconfidence
19432Formation of spore chains: spira, spore surface: wartyyes
69481yes100
69480yes100

compound production

@refcompound
9435endomycin complex (=helixin)
9435helixin

halophily

  • @ref: 19432
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1943262968cellulose+
1943216634raffinose+
1943226546rhamnose+
1943228757fructose+
1943229864mannitol+
1943217268myo-inositol+
1943218222xylose-
1943217992sucrose+
1943222599arabinose+
1943217234glucose+
683685291gelatin+hydrolysis
6836827897tryptophan-energy source
6836816199urea+hydrolysis
6836816947citrate-assimilation
6836818257ornithine-degradation
6836825094lysine-degradation
6836829016arginine-hydrolysis

metabolite production

@refChebi-IDmetaboliteproduction
6777069370helixinyes
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
19432------++-++

Isolation, sampling and environmental information

isolation

@refsample type
9435composted soil
67770Composted soil

isolation source categories

Cat1Cat2Cat3
#Engineered#Biodegradation#Composting
#Environmental#Terrestrial#Soil

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
94351Risk group (German classification)
194321Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptomyces antimycoticus strain CGMCC 4.1591 16S ribosomal RNA gene, partial sequenceHQ2444481381ena68175
20218Streptomyces antimycoticus gene for 16S rRNA, partial sequenceAB122752565ena68175
20218Streptomyces antimycoticus gene for 16S ribosomal RNA, partial sequence, strain: JCM 4228D44034121ena68175
20218Streptomyces antimycoticus strain KCTC 9694 16S ribosomal RNA gene, partial sequenceAY9998311423ena68175
20218Streptomyces antimycoticus gene for 16S rRNA, partial sequence, strain: NBRC 12839AB1841851478ena68175

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Streptomyces antimycoticus strain NBRC 1283968175.3wgspatric68175
67770Streptomyces antimycoticus NBRC 12839GCA_005405925contigncbi68175

GC content

  • @ref: 67770
  • GC-content: 71
  • method: genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
gram-positiveyes85.834no
anaerobicno99.113no
halophileno92.12yes
spore-formingyes93.872no
glucose-utilyes90.655yes
thermophileno97.835yes
flagellatedno97.95no
motileno92.948no
aerobicyes93.041no
glucose-fermentno89.299no

External links

@ref: 9435

culture collection no.: DSM 40284, ATCC 23880, CBS 660.68, IFO 12839, ISP 5284, JCM 4228, NBRC 12839, NRRL 2421, RIA 1198, BCRC 15131, CGMCC 4.1591, JCM 4621, KCCM 40184, KCTC 9694, KCTC 9775, NBIMCC 1034, VKM Ac-1824

straininfo link

  • @ref: 84099
  • straininfo: 38280

literature

  • topic: Phylogeny
  • Pubmed-ID: 31909704
  • title: Reclassification of Streptomyces castelarensis and Streptomyces sporoclivatus as later heterotypic synonyms of Streptomyces antimycoticus.
  • authors: Komaki H, Tamura T
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.003882
  • year: 2020
  • mesh: Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Multilocus Sequence Typing, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Streptomyces/*classification
  • topic2: Transcriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
9435Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40284)https://www.dsmz.de/collection/catalogue/details/culture/DSM-40284
19432Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM40284.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
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
84099Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID38280.1StrainInfo: A central database for resolving microbial strain identifiers