Strain identifier

BacDive ID: 15135

Type strain: Yes

Species: Streptomyces eurythermus

Strain history: KCC S-0206 <-- J. Nüesch <-- ETH 6677.

NCBI tax ID(s): 42237 (species)

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General

@ref: 9215

BacDive-ID: 15135

DSM-Number: 40014

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

description: Streptomyces eurythermus DSM 40014 is a spore-forming, mesophilic, Gram-positive bacterium that builds an aerial mycelium and produces antibiotic compounds.

NCBI tax id

  • NCBI tax id: 42237
  • Matching level: species

strain history

@refhistory
9215<- E.B. Shirling, ISP <- R. Hütter
67770KCC S-0206 <-- J. Nüesch <-- ETH 6677.

doi: 10.13145/bacdive15135.20230509.8.1

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 eurythermus
  • full scientific name: Streptomyces eurythermus Corbaz et al. 1957 (Approved Lists 1980)

@ref: 9215

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces eurythermus

full scientific name: Streptomyces eurythermus Corbaz et al. 1957

type strain: yes

Morphology

cell morphology

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

colony morphology

@refcolony colorincubation periodmedium used
19386Black red10-14 daysISP 2
19386Nut brown10-14 daysISP 3
19386Khaki grey10-14 daysISP 4
19386Maize yellow10-14 daysISP 5
19386Pale brown10-14 daysISP 6
19386Fawn brown10-14 daysISP 7

multicellular morphology

@refforms multicellular complexcomplex namecomplex colormedium name
19386yesAerial MyceliumLight ivoryISP 2
19386yesAerial MyceliumGrey beigeISP 3
19386yesAerial MyceliumMoos greyISP 4
19386yesAerial MyceliumISP 5
19386yesAerial MyceliumISP 6
19386yesAerial MyceliumMoos greyISP 7

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
9215GYM 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
19386ISP 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
19386ISP 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:
19386ISP 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
19386ISP 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
19386ISP 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
19386ISP 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
9215ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)yeshttps://mediadive.dsmz.de/medium/84Name: ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84) Composition: Agar 20.0 g/l Rolled oats 20.0 g/l ZnSO4 x 7 H2O 0.001 g/l MnCl2 x 4 H2O 0.001 g/l FeSO4 x 7 H2O 0.001 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
19386positiveoptimum28mesophilic
9215positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481yes100
69480yes100

compound production

@refcompound
9215angolamycin
20216Angolamycin

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1938662968cellulose+
1938616634raffinose+
1938626546rhamnose+/-
1938628757fructose+
1938629864mannitol+
1938617268myo-inositol+/-
1938618222xylose+/-
1938617992sucrose+
1938622599arabinose+
1938617234glucose+
683685291gelatin+hydrolysis
6836827897tryptophan+energy source
6836816199urea-hydrolysis
6836816947citrate+assimilation
6836818257ornithine+degradation
6836825094lysine+degradation
6836829016arginine+hydrolysis

metabolite production

@refmetaboliteproductionChebi-ID
67770angolamycinyes
68368acetoinyes15688
68368indoleyes35581
68368hydrogen sulfideyes16136

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
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)-
68382esterase lipase (C 8)+
68382lipase (C 14)-
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-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-mannosidase+3.2.1.24
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- Fucosidase
19386+-+-+++++++++--+++-

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
19386++++++-++++

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentgeographic location
9215soilAngolaAGOAfrica
67770SoilAngolaAGOAfricaCuanza

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_7748.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_91;97_287;98_1422;99_7748&stattab=map
  • Last taxonomy: Streptomyces
  • 16S sequence: AB184127
  • Sequence Identity:
  • Total samples: 72
  • soil counts: 63
  • aquatic counts: 1
  • animal counts: 5
  • plant counts: 3

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
92151Risk group (German classification)
193861Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptomyces eurythermus strain DSM40014 16S-23S intergenic spacer region, partial sequenceAF363488295ena42237
20218Streptomyces eurythermus 16S ribosomal RNA, complete sequenceD638701531ena42237
20218Streptomyces eurythermus gene for 16S ribosomal RNA, partial sequence, strain: JCM 4575D44243120ena42237
20218Streptomyces eurythermus strain KCCM 12267 clone ITS 16S-23S ribosomal RNA intergenic spacer, partial sequenceAY296937260ena42237
20218Streptomyces eurythermus strain KCCM 12267 clone ITS12 16S-23S ribosomal RNA intergenic spacer, partial sequenceAY296938262ena42237
20218Streptomyces eurythermus strain KCCM 12267 clone ITS19 16S-23S ribosomal RNA intergenic spacer, partial sequenceAY296939261ena42237
20218Streptomyces eurythermus strain KCCM 12267 clone ITS2 16S-23S ribosomal RNA intergenic spacer, partial sequenceAY296940271ena42237
20218Streptomyces eurythermus strain KCCM 12267 clone ITS4 16S-23S ribosomal RNA intergenic spacer, partial sequenceAY296941272ena42237
20218Streptomyces eurythermus strain KCCM 12267 clone ITS7 16S-23S ribosomal RNA intergenic spacer, partial sequenceAY296942262ena42237
20218Streptomyces eurythermus strain KCCM 12267 clone ITS8 16S-23S ribosomal RNA intergenic spacer, partial sequenceAY296943262ena42237
20218Streptomyces eurythermus strain KCCM 12267 clone ITS9 16S-23S ribosomal RNA intergenic spacer, partial sequenceAY296944263ena42237
20218Streptomyces eurythermus gene for 16S rRNA, partial sequence, strain: NBRC 12764AB1841271459ena42237

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Streptomyces eurythermus JCM 4206GCA_014649115scaffoldncbi42237
66792Streptomyces eurythermus strain JCM 420642237.4wgspatric42237

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
flagellatedno98.152no
gram-positiveyes89.747no
anaerobicno99.284no
aerobicyes95.188no
halophileno95.299no
spore-formingyes95.816no
glucose-utilyes88.752yes
thermophileno97.135no
motileno94.153no
glucose-fermentno89.856no

External links

@ref: 9215

culture collection no.: DSM 40014, ATCC 14975, ATCC 19749, CBS 488.68, IFO 12764, ISP 5014, NBRC 12764, NRRL 2539, RIA 1030, JCM 4206, BCRC 13650, CGMCC 4.1697, IMET 43078, JCM 4575, KCTC 9731, VKM Ac-1729

straininfo link

  • @ref: 84239
  • straininfo: 297085

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny15803384Streptomyces nanningensis sp. nov. a novel Streptomycete from forest soil.Jiang Y, Li WJ, Xu P, Li MG, Wen ML, Du GH, Xu LH, Jiang CLAntonie Van Leeuwenhoek10.1007/s10482-004-3210-22005Bacterial Typing Techniques, Base Sequence, Cell Wall/chemistry, China, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Genes, rRNA, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Streptomyces/*classification/cytology/*isolation & purification/physiology, *TreesGenetics
Phylogeny23291893Streptomyces chilikensis sp. nov., a halophilic streptomycete isolated from brackish water sediment.Ray L, Suar M, Pattnaik AK, Raina VInt J Syst Evol Microbiol10.1099/ijs.0.046284-02013Bacterial Typing Techniques, DNA, Bacterial/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Geologic Sediments/*microbiology, India, Lakes/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Streptomyces/*classification/genetics/isolation & purification, Vitamin K 2/analogs & derivatives/analysisGenetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
9215Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40014)https://www.dsmz.de/collection/catalogue/details/culture/DSM-40014
19386Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM40014.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
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
68382Automatically annotated from API zym
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
84239Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID297085.1StrainInfo: A central database for resolving microbial strain identifiers