Strain identifier

BacDive ID: 16447

Type strain: Yes

Species: Streptomyces specialis

Strain Designation: GW 41-1564

Strain history: CCM 7499 <-- P. Kämpfer GW41-1564.

NCBI tax ID(s): 498367 (species)

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

@ref: 15417

BacDive-ID: 16447

DSM-Number: 41924

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

description: Streptomyces specialis GW 41-1564 is an aerobe, spore-forming, mesophilic bacterium that builds an aerial mycelium and was isolated from soil.

NCBI tax id

  • NCBI tax id: 498367
  • Matching level: species

strain history

@refhistory
15417<- P. Kämpfer, Justus-Liebig Univ. Giessen, Germany; GW 41-1564 <- I. Grün-Wollny
67770CCM 7499 <-- P. Kämpfer GW41-1564.

doi: 10.13145/bacdive16447.20230509.8.1

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 specialis
  • full scientific name: Streptomyces specialis Kämpfer et al. 2008

@ref: 15417

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces specialis

full scientific name: Streptomyces specialis Kämpfer et al. 2008 emend. Nouioui et al. 2018

strain designation: GW 41-1564

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotilityconfidence
31199positiverod-shaped
69480no93.509
69480positive100

colony morphology

@refcolony colorincubation periodmedium used
19534Black brown10-14 daysISP 2
19534Sepia brown10-14 daysISP 3
19534Brown beige10-14 daysISP 4
19534Black brown10-14 daysISP 5
19534Black brown10-14 daysISP 6
19534Black brown10-14 daysISP 7

multicellular morphology

@refforms multicellular complexcomplex namecomplex colormedium name
19534yesAerial MyceliumBeigeISP 2
19534yesAerial MyceliumKhaki greyISP 3
19534yesAerial MyceliumISP 4
19534yesAerial MyceliumBeigeISP 5
19534noISP 6
19534yesAerial MyceliumBeigeISP 7

pigmentation

  • @ref: 31199
  • production: yes

multimedia

  • @ref: 15417
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_41924.jpg
  • caption: Medium 65 28°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
15417ROLLED 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
15417GYM 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
19534ISP 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
19534ISP 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:
19534ISP 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
19534ISP 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
19534ISP 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
19534ISP 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

culture temp

@refgrowthtypetemperaturerange
15417positivegrowth28mesophilic
19534positiveoptimum28mesophilic
31199positivegrowth25-30mesophilic
31199positiveoptimum25-30mesophilic
67770positivegrowth28mesophilic

culture pH

@refabilitytypepH
31199positivegrowth7
31199positiveoptimum7

Physiology and metabolism

oxygen tolerance

  • @ref: 31199
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
31199yes
69481yes100
69480yes98.23

observation

@refobservation
31199aggregates in chains
67770quinones: MK-10(H4), MK-10(H6), MK-9(H4)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3119915963ribitol+carbon source
3119918403L-arabitol+carbon source
3119929016arginine+carbon source
3119922653asparagine+carbon source
3119924265gluconate+carbon source
3119917234glucose+carbon source
3119917272propionate+carbon source
3119933942ribose+carbon source
3119930911sorbitol+carbon source
3119917992sucrose+carbon source

enzymes

@refvalueactivityec
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
19534++++---++++----++++

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
15417soilGermanyDEUEurope
60688SoilGermanyDEUEurope
67770Soil

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_409.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_276;97_305;98_339;99_409&stattab=map
  • Last taxonomy: Streptomyces specialis subclade
  • 16S sequence: AM934703
  • Sequence Identity:
  • Total samples: 290
  • soil counts: 212
  • aquatic counts: 25
  • animal counts: 29
  • plant counts: 24

Safety information

risk assessment

  • @ref: 15417
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 15417
  • description: Streptomyces specialis partial 16S rRNA gene, type strain GW41-1564T
  • accession: AM934703
  • length: 1500
  • database: ena
  • NCBI tax ID: 498367

Genome sequences

  • @ref: 67770
  • description: Streptomyces specialis GW41-1564T
  • accession: GCA_001493375
  • assembly level: scaffold
  • database: ncbi
  • NCBI tax ID: 498367

GC content

  • @ref: 67770
  • GC-content: 72.7
  • method: genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
flagellatedno98.49no
gram-positiveyes92.468no
anaerobicno98.99yes
aerobicyes88.126yes
halophileno87.759no
spore-formingyes93.163yes
glucose-utilyes90.047yes
motileno94.458no
thermophileno94.006yes
glucose-fermentno93.056no

External links

@ref: 15417

culture collection no.: DSM 41924, CCM 7499, CCUG 55648, JCM 16611

straininfo link

  • @ref: 85484
  • straininfo: 403201

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny18984700Streptomyces specialis sp. nov.Kampfer P, Huber B, Buczolits S, Thummes K, Grun-Wollny I, Busse HJInt J Syst Evol Microbiol10.1099/ijs.0.2008/001008-02008Bacterial Typing Techniques, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fatty Acids/analysis, Genes, rRNA, Molecular Sequence Data, Phenotype, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Species Specificity, Streptomyces/*classification/genetics/isolation & purification/physiologyGenetics
Phylogeny24243968Streptomyces hoynatensis sp. nov., isolated from deep marine sediment.Veyisoglu A, Sahin NInt J Syst Evol Microbiol10.1099/ijs.0.055640-02013Bacterial Typing Techniques, Black Sea, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/microbiology, Sequence Analysis, DNA, Streptomyces/*classification/genetics, Turkey, Vitamin K 2/chemistry, *Water MicrobiologyGenetics
Phylogeny25373841Streptomyces klenkii sp. nov., isolated from deep marine sediment.Veyisoglu A, Sahin NAntonie Van Leeuwenhoek10.1007/s10482-014-0325-y2014Bacterial Typing Techniques, Base Composition, Carbohydrates/analysis, Cell Wall/chemistry, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Geologic Sediments/*microbiology, Glycolipids/analysis, Microscopy, Electron, Scanning, Molecular Sequence Data, Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Streptomyces/*classification/genetics/*isolation & purification/physiology, Turkey, Vitamin K 2/analysisGenetics
Genetics28360168Draft Genome Sequence of Streptomyces specialis Type Strain GW41-1564 (DSM 41924).Loucif L, Michelle C, Terras J, Rolain JM, Raoult D, Fournier PEGenome Announc10.1128/genomeA.00101-172017
Phylogeny29079877Streptomyces sediminis sp. nov. isolated from crater lake sediment.Ay H, Nouioui I, Del Carmen Montero-Calasanz M, Klenk HP, Isik K, Cetin D, Sahin NAntonie Van Leeuwenhoek10.1007/s10482-017-0970-z2017Carbohydrate Metabolism, Cell Wall/chemistry, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Geologic Sediments/*microbiology, Glucose/analysis, Glycolipids/analysis, Lakes/microbiology, Nitrogen/metabolism, Phospholipids/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Ribose/analysis, Species Specificity, Streptomyces/chemistry/*classification/metabolism, Temperature, TurkeyMetabolism
Phylogeny29648527Streptomyces manganisoli sp. nov., a novel actinomycete isolated from manganese-contaminated soil.Mo P, Zhao J, Li K, Tang X, Gao JInt J Syst Evol Microbiol10.1099/ijsem.0.0027622018Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Manganese, Mining, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Soil Pollutants, Streptomyces/*classification/genetics/isolation & purification, Vitamin K 2/chemistryTranscriptome
Phylogeny35572650Streptomyces marincola sp. nov., a Novel Marine Actinomycete, and Its Biosynthetic Potential of Bioactive Natural Products.Shi S, Cui L, Zhang K, Zeng Q, Li Q, Ma L, Long L, Tian XFront Microbiol10.3389/fmicb.2022.8603082022

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
15417Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 41924)https://www.dsmz.de/collection/catalogue/details/culture/DSM-41924
19534Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM41924.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
31199Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2752628776041
60688Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 55648)https://www.ccug.se/strain?id=55648
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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
85484Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID403201.1StrainInfo: A central database for resolving microbial strain identifiers