Strain identifier

BacDive ID: 15272

Type strain: Yes

Species: Streptomyces griseoluteus

Strain history: KCC S-0041 <-- Y. Okami (NIHJ 22).

NCBI tax ID(s): 29306 (species)

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General

@ref: 9516

BacDive-ID: 15272

DSM-Number: 40392

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

description: Streptomyces griseoluteus DSM 40392 is a spore-forming, mesophilic, Gram-positive bacterium that builds an aerial mycelium and was isolated from Soil, potato field.

NCBI tax id

  • NCBI tax id: 29306
  • Matching level: species

strain history

@refhistory
9516<- E.B. Shirling, ISP <- S.A. Waksman, IMRU <- H. Umezawa, NIHJ 22
67770KCC S-0041 <-- Y. Okami (NIHJ 22).

doi: 10.13145/bacdive15272.20230509.8.1

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 griseoluteus
  • full scientific name: Streptomyces griseoluteus Umezawa et al. 1950 (Approved Lists 1980)

@ref: 9516

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces griseoluteus

full scientific name: Streptomyces griseoluteus Umezawa et al. 1950

type strain: yes

Morphology

cell morphology

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

colony morphology

@refcolony colorincubation periodmedium used
19449Brown beige10-14 daysISP 2
19449Beige10-14 daysISP 3
19449Beige10-14 daysISP 4
19449Beige10-14 daysISP 5
19449Beige10-14 daysISP 6
19449Beige10-14 daysISP 7

multicellular morphology

@refforms multicellular complexcomplex namecomplex colormedium name
19449yesAerial MyceliumBlack greyISP 2
19449yesAerial MyceliumBlack greyISP 3
19449yesAerial MyceliumBlack greyISP 4
19449noISP 5
19449noISP 6
19449noISP 7

multimedia

  • @ref: 9516
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_40392.jpg
  • caption: Medium 65 28°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
9516GYM 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
19449ISP 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
19449ISP 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:
19449ISP 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
19449ISP 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
19449ISP 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
19449ISP 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
9516ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium84.pdf

culture temp

@refgrowthtypetemperaturerange
19449positiveoptimum28mesophilic
9516positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481yes100
69480yes100

compound production

@refcompound
9516griseolutein B
9516griseoluteins A, B

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1944962968cellulose+
1944916634raffinose-
1944926546rhamnose-
1944928757fructose+
1944929864mannitol+
1944917268myo-inositol-
1944918222xylose-
1944917992sucrose-
1944922599arabinose-
1944917234glucose+
683685291gelatin+hydrolysis
6836827897tryptophan-energy source
6836816199urea+hydrolysis
6836816947citrate+assimilation
6836818257ornithine+degradation
6836825094lysine-degradation
6836829016arginine+hydrolysis

metabolite production

@refmetaboliteproductionChebi-ID
67770griseolutein Ayes
67770griseolutein Byes
68368acetoinyes15688
68368indoleno35581
68368hydrogen sulfideno16136

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
19449+++-+++--+++--+++--

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
19449++-++-+--++

Isolation, sampling and environmental information

isolation

  • @ref: 67770
  • sample type: Soil, potato field
  • geographic location: Mitaka, Tokyo
  • country: Japan
  • origin.country: JPN
  • continent: Asia

taxonmaps

  • @ref: 69479
  • File name: preview.99_1870.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_102;97_109;98_1474;99_1870&stattab=map
  • Last taxonomy: Streptomyces
  • 16S sequence: AB184363
  • Sequence Identity:
  • Total samples: 444
  • soil counts: 348
  • aquatic counts: 22
  • animal counts: 67
  • plant counts: 7

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
95161Risk group (German classification)
194491Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptomyces griseoluteus strain JCM 4765 16S ribosomal RNA gene, partial sequenceAY9997511406ena29306
20218Streptomyces griseoluteus gene for 16S ribosomal RNA, partial sequence, strain: JCM 4765D44344120ena29306
20218Streptomyces griseoluteus gene for 16S rRNA, partial sequence, strain: NBRC 13375AB1843631477ena29306

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Streptomyces griseoluteus JCM 4765GCA_014656035scaffoldncbi29306
66792Streptomyces griseoluteus strain JCM 476529306.8wgspatric29306
66792Streptomyces griseoluteus strain JCM 476529306.7wgspatric29306
67770Streptomyces griseoluteus JCM 4765GCA_004784465scaffoldncbi29306

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileno93.809no
flagellatedno98.324no
gram-positiveyes90.363no
anaerobicno99.03no
aerobicyes92.298no
halophileno95.382no
spore-formingyes94.329no
glucose-utilyes89.665no
thermophileno97.527yes
glucose-fermentno89.61no

External links

@ref: 9516

culture collection no.: DSM 40392, ATCC 12768, CBS 676.72, CCM 3242, DSM 41141, ETH 24459, IFO 13375, IMRU 3729, ISP 5392, JCM 4041, JCM 4765, KCC S-0041, NBRC 13375, NRRL B-1315, PSA 207, RIA 1336, NIHJ 22, BCRC 16229, CBS 112.66, CGMCC 4.1440, HUT 6058, IFM 1055, LMG 19356, VKM Ac-976

straininfo link

  • @ref: 84367
  • straininfo: 14116

literature

  • topic: Phylogeny
  • Pubmed-ID: 31592758
  • title: Streptomyces bauhiniae sp. nov., isolated from tree bark of Bauhinia variegata Linn. in Thailand.
  • authors: Kanchanasin P, Yuki M, Kudo T, Ohkuma M, Kuncharoen N, Phongsopitanun W, Tanasupawat S
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.003743
  • year: 2020
  • mesh: Bacterial Typing Techniques, Base Composition, Bauhinia/*microbiology, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Plant Bark/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Soil Microbiology, Streptomyces/*classification/isolation & purification, Thailand, Vitamin K 2/analogs & derivatives/chemistry
  • topic2: Transcriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
9516Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40392)https://www.dsmz.de/collection/catalogue/details/culture/DSM-40392
19449Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM40392.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
84367Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID14116.1StrainInfo: A central database for resolving microbial strain identifiers