Strain identifier

BacDive ID: 15267

Type strain: Yes

Species: Streptomyces griseoincarnatus

Strain history: KCC S-0381 <-- IFO 12871 <-- SAJ <-- ISP 5274 <-- INA 9673/55.

NCBI tax ID(s): 29305 (species)

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General

@ref: 9425

BacDive-ID: 15267

DSM-Number: 40274

keywords: genome sequence, 16S sequence, Bacteria, mesophilic, motile

description: Streptomyces griseoincarnatus DSM 40274 is a mesophilic, motile bacterium that builds an aerial mycelium and was isolated from soil.

NCBI tax id

  • NCBI tax id: 29305
  • Matching level: species

strain history

@refhistory
9425<- E.B. Shirling, ISP <- G.F. Gautze, INA
67770KCC S-0381 <-- IFO 12871 <-- SAJ <-- ISP 5274 <-- INA 9673/55.

doi: 10.13145/bacdive15267.20230509.8.1

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 griseoincarnatus
  • full scientific name: Streptomyces griseoincarnatus (Preobrazhenskaya et al. 1957) Pridham et al. 1958 (Approved Lists 1980)

  • synonyms

    @refsynonym
    20215Actinomyces variabilis
    20215Streptomyces erythrogriseus
    20215Actinomyces griseoincarnatus
    20215Streptomyces variabilis

@ref: 9425

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces griseoincarnatus

full scientific name: Streptomyces griseoincarnatus (Preobrazhenskaya et al. 1957) Pridham et al. 1958

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480yes96.623
6948099.991negative

colony morphology

@refcolony colorincubation periodmedium used
19430Black red10-14 daysISP 2
19430Black red10-14 daysISP 3
19430Black red10-14 daysISP 4
19430Black red10-14 daysISP 5
19430Black red10-14 daysISP 6
19430Black red10-14 daysISP 7

multicellular morphology

@refforms multicellular complexcomplex namecomplex colormedium name
19430yesAerial MyceliumConcrete greyISP 2
19430yesAerial MyceliumCocrete greyISP 3
19430yesAerial MyceliumConcrete greyISP 4
19430yesAerial MyceliumIvoryISP 5
19430noISP 6
19430yesAerial MyceliumISP 7

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
9425GYM 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
19430ISP 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
19430ISP 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:
19430ISP 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
19430ISP 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
19430ISP 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
19430ISP 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
19430positiveoptimum28mesophilic
9425positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481no100
69480no99.742

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1943062968cellulose-
1943016634raffinose+
1943026546rhamnose+
1943028757fructose+
1943029864mannitol+
1943017268myo-inositol+
1943018222xylose-
1943017992sucrose+
1943022599arabinose+
1943017234glucose+
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
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
19430+++-++-+-+-++-++++-

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
19430+++++-+--++

Isolation, sampling and environmental information

isolation

@refsample typecountrycontinent
9425soilUSSRAsia
67770Soil

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_408.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_91;97_97;98_106;99_408&stattab=map
  • Last taxonomy: Streptomyces
  • 16S sequence: AJ781321
  • Sequence Identity:
  • Total samples: 50
  • soil counts: 30
  • animal counts: 18
  • plant counts: 2

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
94251Risk group (German classification)
194301Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptomyces griseoincarnatus strain JCM 4381 16S ribosomal RNA gene, partial sequenceAY9997491413ena29305
20218Streptomyces griseoincarnatus gene for 16S ribosomal RNA, partial sequence, strain: JCM 4381D44096121ena29305
20218Streptomyces griseoincarnatus 16S rRNA gene, type strain LMG 19316AJ7813211480ena29305
20218Streptomyces griseoincarnatus gene for 16S rRNA, partial sequence, strain: NBRC 12871AB1842071479ena29305

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Streptomyces griseoincarnatus strain JCM 438129305.3wgspatric29305
67770Streptomyces griseoincarnatus JCM 4381GCA_014649575scaffoldncbi29305

GC content

  • @ref: 67770
  • GC-content: 72.1
  • method: genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedno59.805no
gram-positiveno98.147no
anaerobicno94.895no
aerobicyes81.373no
halophileno88.601no
spore-formingno94.173no
thermophileno99.27yes
glucose-utilyes93.658yes
motileyes89.793no
glucose-fermentyes91.79no

External links

@ref: 9425

culture collection no.: DSM 40274, ATCC 23623, ATCC 23917, CBS 838.68, IFO 12871, INA 9673/55, ISP 5274, NBRC 12871, RIA 1192, JCM 4381, BCRC 11481, CGMCC 4.1409, KCTC 19071, LMG 19316, NCIMB 9825, NRRL B-5313, VTT E-022184

straininfo link

  • @ref: 84362
  • straininfo: 14104

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny23355697Streptomyces wuyuanensis sp. nov., an actinomycete from soil.Zhang X, Zhang J, Zheng J, Xin D, Xin Y, Pang HInt J Syst Evol Microbiol10.1099/ijs.0.047050-02013Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Streptomyces/*classification/genetics/isolation & purification, Vitamin K 2/analogs & derivatives/analysisGenetics
Phylogeny24306769Streptomyces tunisiensis sp. nov., a novel Streptomyces species with antibacterial activity.Slama N, Mankai H, Ayed A, Mezhoud K, Rauch C, Lazim H, Barkallah I, Gtari M, Limam FAntonie Van Leeuwenhoek10.1007/s10482-013-0086-z2013*Antibiosis, Bacterial Typing Techniques, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Methicillin-Resistant Staphylococcus aureus/*growth & development, Microscopy, Electron, Scanning, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Soil Microbiology, Spores, Bacterial/cytology, Streptomyces/*classification/genetics/isolation & purification/*physiology, TunisiaGenetics
Phylogeny28174421Streptomyces euryhalinus sp. nov., a new actinomycete isolated from a mangrove forest.Biswas K, Choudhury JD, Mahansaria R, Saha M, Mukherjee JJ Antibiot (Tokyo)10.1038/ja.2017.32017DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/*microbiology, India, Lipids/*chemistry, Phylogeny, RNA, Ribosomal, 16S/*genetics, Random Amplified Polymorphic DNA Technique, Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization, Streptomyces/classification/genetics/*isolation & purification, *WetlandsEnzymology

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
9425Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40274)https://www.dsmz.de/collection/catalogue/details/culture/DSM-40274
19430Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM40274.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
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
84362Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID14104.1StrainInfo: A central database for resolving microbial strain identifiers