Strain identifier

BacDive ID: 16179

Type strain: Yes

Species: Streptomyces decoyicus

Strain history: CIP <- 2000, IFO <- NRRL

NCBI tax ID(s): 249567 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 10291

BacDive-ID: 16179

DSM-Number: 41427

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

description: Streptomyces decoyicus DSM 41427 is an obligate aerobe, spore-forming, mesophilic bacterium that builds an aerial mycelium and produces antibiotic compounds.

NCBI tax id

  • NCBI tax id: 249567
  • Matching level: species

strain history

@refhistory
10291<- NRRL
67770KCC S-0550 <-- NRRL 2666.
118862CIP <- 2000, IFO <- NRRL

doi: 10.13145/bacdive16179.20230509.8.1

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 decoyicus
  • full scientific name: Streptomyces decoyicus (Vavra et al. 1959) Kumar and Goodfellow 2010
  • synonyms

    • @ref: 20215
    • synonym: Streptomyces hygroscopicus subsp. decoyicus

@ref: 10291

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces decoyicus

full scientific name: Streptomyces decoyicus (Vavra et al. 1959) Kumar and Goodfellow 2010

type strain: yes

Morphology

cell morphology

  • @ref: 118862
  • gram stain: positive
  • cell shape: rod-shaped
  • motility: no

colony morphology

@refcolony colorincubation periodmedium used
19818Green brown10-14 daysISP 2
19818Grey yellow10-14 daysISP 3
19818Umber grey10-14 daysISP 4
19818Ivory10-14 daysISP 5
19818Sand yellow10-14 daysISP 6
19818Ivory10-14 daysISP 7
118862

multicellular morphology

@refforms multicellular complexcomplex namecomplex colormedium name
19818yesAerial MyceliumStone grey (7030)ISP 2
19818yesAerial MyceliumStone grey (7030)ISP 3
19818yesAerial MyceliumSepia brown (8014)ISP 4
19818yesAerial MyceliumSignal white (9003)ISP 5
19818noISP 6
19818yesAerial MyceliumSignal white (9003)ISP 7

pigmentation

  • @ref: 29391
  • production: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
10291GYM 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
19818ISP 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
19818ISP 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:
19818ISP 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
19818ISP 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
19818ISP 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
19818ISP 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
39594MEDIUM 128 - for Nocardia brevicatena, Nocardia flavorosea subsp. fusca and Streptomyces ambofaciensyesDistilled water make up to (1000.000 ml);Maltose (10.000 g);Agar (20.000g);Yeast extract (1.000 g);Beef extract (1.000 g);Casamino acids (2.000 g)
118862CIP Medium 129yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=129

culture temp

@refgrowthtypetemperaturerange
29391positivegrowth37mesophilic
10291positivegrowth28mesophilic
19818positiveoptimum28mesophilic
39594positivegrowth30mesophilic
67770positivegrowth28mesophilic
118862positivegrowth25-37mesophilic
118862nogrowth10psychrophilic
118862nogrowth41thermophilic
118862nogrowth45thermophilic

culture pH

  • @ref: 29391
  • ability: positive
  • type: growth
  • pH: 09-10
  • PH range: alkaliphile

Physiology and metabolism

oxygen tolerance

  • @ref: 118862
  • oxygen tolerance: obligate aerobe

spore formation

  • @ref: 29391
  • spore formation: yes

compound production

@refcompound
10291angustmycin A
10291decoyinin
10291psicofuranine

halophily

@refsaltgrowthtested relationconcentration
29391NaClpositivegrowth13 %
118862NaClpositivegrowth0-10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1981862968cellulose-
1981816634raffinose-
1981826546rhamnose-
1981828757fructose+
1981829864mannitol-
1981817268myo-inositol+
1981818222xylose-
1981817992sucrose+
1981822599arabinose-
1981817234glucose+
2939118403L-arabitol+carbon source
2939117057cellobiose+carbon source
2939123652dextrin+carbon source
2939128757fructose+carbon source
2939133984fucose+carbon source
2939128260galactose+carbon source
2939129987glutamate+carbon source
2939128087glycogen+carbon source
2939125017leucine+carbon source
2939117268myo-inositol+carbon source
2939126271proline+carbon source
2939133942ribose+carbon source
2939118222xylose+carbon source
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
6837124265gluconate-builds acid from
6837118403L-arabitol-builds acid from
6837118333D-arabitol-builds acid from
6837118287L-fucose-builds acid from
6837128847D-fucose-builds acid from
6837116443D-tagatose-builds acid from
6837162318D-lyxose-builds acid from
6837132528turanose-builds acid from
6837128066gentiobiose-builds acid from
6837117151xylitol-builds acid from
6837128087glycogen-builds acid from
6837128017starch-builds acid from
6837116634raffinose-builds acid from
683716731melezitose-builds acid from
6837115443inulin-builds acid from
6837127082trehalose+builds acid from
6837117992sucrose-builds acid from
6837128053melibiose-builds acid from
6837117716lactose-builds acid from
6837117306maltose-builds acid from
6837117057cellobiose-builds acid from
6837117814salicin-builds acid from
6837118305arbutin-builds acid from
6837127613amygdalin-builds acid from
6837159640N-acetylglucosamine+builds acid from
68371320061methyl alpha-D-glucopyranoside-builds acid from
6837143943methyl alpha-D-mannoside-builds acid from
6837117924D-sorbitol+builds acid from
6837116899D-mannitol+builds acid from
6837117268myo-inositol-builds acid from
6837162345L-rhamnose-builds acid from
6837117266L-sorbose-builds acid from
6837116024D-mannose-builds acid from
6837115824D-fructose+builds acid from
6837117634D-glucose+builds acid from
6837112936D-galactose+builds acid from
6837174863methyl beta-D-xylopyranoside-builds acid from
6837115963ribitol+builds acid from
6837165328L-xylose-builds acid from
6837165327D-xylose-builds acid from
6837116988D-ribose+builds acid from
6837130849L-arabinose-builds acid from
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from
11886216947citrate-carbon source
1188624853esculin+hydrolysis
118862606565hippurate-hydrolysis
11886217632nitrate-reduction
11886216301nitrite-reduction
11886217632nitrate-respiration

antibiotic resistance

  • @ref: 118862
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: yes
  • is resistant: no

metabolite production

@refmetaboliteproductionChebi-ID
67770decoyinineyes
67770psicofuranineyes
118862indoleno35581

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
11886215688acetoin-
11886217234glucose-

enzymes

@refvalueactivityec
118862oxidase-
118862beta-galactosidase+3.2.1.23
118862alcohol dehydrogenase-1.1.1.1
118862gelatinase+/-
118862amylase+
118862DNase-
118862caseinase-3.4.21.50
118862catalase+1.11.1.6
118862tween esterase-
118862gamma-glutamyltransferase+2.3.2.2
118862lecithinase-
118862lipase-
118862lysine decarboxylase-4.1.1.18
118862ornithine decarboxylase-4.1.1.17
118862phenylalanine ammonia-lyase-4.3.1.24
118862tryptophan deaminase-
118862urease+3.5.1.5
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382leucine arylamidase+3.4.11.1
68382valine arylamidase+
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-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 zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- FucosidaseControl
19818+++++++++++-----++-
118862+++-+++++++-+---+---

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
118862+/----+--+-+++---+/--++--+--+/-------+-----------------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
118862+++++--+-++-+-----++--+--++-+--+++++++---+-------++--+-----++++---------++-+--+++---+---+++++++--++

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
10291garden soilCalifornia, Verdings CityUSAUSANorth America
67770Garden soilVerdings City, CAUSAUSANorth America
118862Environment, Garden soilsVerdings, CaliforniaUnited States of AmericaUSANorth America

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Soil
#Engineered#Agriculture#Garden

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
102911Risk group (German classification)
1188621Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptomyces decoyicus gene for 16S rRNA, partial sequenceAB122753565ena249567
20218Streptomyces decoyicus gene for 16S rRNA, partial sequence, strain: NBRC 13977AB1845571480ena249567
20218Streptomyces decoyicus strain AS 4.1861 16S ribosomal RNA gene, partial sequenceAY9998831419ena249567
10291Streptomyces decoyicus strain NRRL 2666 16S ribosomal RNA gene, partial sequenceEU1701271451ena249567

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Streptomyces decoyicus NRRL 2666GCA_019880305completencbi249567
66792Streptomyces decoyicus strain NRRL 2666249567.6wgspatric249567
66792Streptomyces decoyicus strain NRRL 2666249567.7completepatric249567
66792Streptomyces decoyicus NRRL 26662765236007draftimg249567
67770Streptomyces decoyicus NRRL ISP-5087GCA_000715775scaffoldncbi249567
67770Streptomyces decoyicus NRRL 2666GCA_001270575contigncbi249567
66792Streptomyces decoyicus strain NRRL 2666249567.10completepatric249567
66792Streptomyces decoyicus strain NRRL 2666249567.9completepatric249567
66792Streptomyces decoyicus strain NRRL 2666249567.8completepatric249567

GC content

  • @ref: 10291
  • GC-content: 71.2

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
flagellatedno98.279no
gram-positiveyes90.423no
anaerobicno99.138no
aerobicyes93.081no
halophileno88.419yes
spore-formingyes96.158yes
motileno93.727no
thermophileno98.236no
glucose-utilyes91.507yes
glucose-fermentno91.338no

External links

@ref: 10291

culture collection no.: DSM 41427, AS 4.1861, IFO 13977, JCM 4550, KCC S-0550, NBRC 13977, NCIB 9752, NRRL 2666, CGMCC 4.1861, CGMCC 4.1915, CIP 106836, NCIMB 10502, NCIMB 9752, NRRL ISP-5087

straininfo link

  • @ref: 85242
  • straininfo: 49994

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19656929Reclassification of Streptomyces hygroscopicus strains as Streptomyces aldersoniae sp. nov., Streptomyces angustmyceticus sp. nov., comb. nov., Streptomyces ascomycinicus sp. nov., Streptomyces decoyicus sp. nov., comb. nov., Streptomyces milbemycinicus sp. nov. and Streptomyces wellingtoniae sp. nov.Kumar Y, Goodfellow MInt J Syst Evol Microbiol10.1099/ijs.0.012161-02009Bacterial Typing Techniques, DNA, Bacterial/analysis/genetics, DNA, Ribosomal/analysis, Genes, rRNA, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S, Sequence Analysis, DNA, Soil Microbiology, Species Specificity, Streptomyces/*classification/genetics/metabolism/physiologyGenetics
Phylogeny29111972Streptomyces capitiformicae sp. nov., a novel actinomycete producing angucyclinone antibiotics isolated from the head of Camponotus japonicus Mayr.Jiang S, Piao C, Yu Y, Cao P, Li C, Yang F, Li M, Xiang W, Liu CInt J Syst Evol Microbiol10.1099/ijsem.0.0024682017Animals, Anthraquinones/*metabolism, Anti-Bacterial Agents/biosynthesis, Ants/*microbiology, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Streptomyces/*classification/genetics/isolation & purificationTranscriptome
Enzymology31516066GABA enzymatic assay kit.Nishiyama T, Sulistyaningdyah WT, Ueda K, Kusakabe HBiosci Biotechnol Biochem10.1080/09168451.2019.166176820194-Aminobutyrate Transaminase/*chemistry, Amino Acid Oxidoreductases/*chemistry, Ampyrone/chemistry, Ascorbate Oxidase/chemistry, Catalase/chemistry, Chromatography, Liquid, Colorimetry/*methods, Enzyme Assays/economics/*methods, Ferric Compounds/chemistry, Glutamic Acid/chemistry, Hydrogen Peroxide/chemistry, Lycopersicon esculentum/chemistry, Oxidative Coupling, Peroxidase/*chemistry, Recombinant Proteins, Streptomyces/enzymology, Tandem Mass Spectrometry, gamma-Aminobutyric Acid/*analysisProteome

Reference

@idauthorscataloguedoi/urltitlejournalpubmedID_cross_reference
10291Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 41427)https://www.dsmz.de/collection/catalogue/details/culture/DSM-41427
19818Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM41427.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
29391Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2877604125798
39594Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/19010
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/
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
85242Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID49994.1StrainInfo: A central database for resolving microbial strain identifiers
118862Curators of the CIPCollection of Institut Pasteur (CIP 106836)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106836