Strain identifier

BacDive ID: 15146

Type strain: No

Species: Streptomyces griseus

Strain history: CIP <- 1997, IFO, Streptomyces setonii <- 1969, SAJ <- OWU, strain ISP 5395

NCBI tax ID(s): 67263 (subspecies)

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General

@ref: 9519

BacDive-ID: 15146

DSM-Number: 40395

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, spore-forming, mesophilic, Gram-positive, plant pathogen

description: Streptomyces griseus DSM 40395 is an obligate aerobe, spore-forming, mesophilic plant pathogen that was isolated from potato scab.

NCBI tax id

  • NCBI tax id: 67263
  • Matching level: subspecies

strain history

@refhistory
9519<- E.B. Shirling, ISP <- S.A. Waksman, IMRU
67770KCC S-0226 <-- CCM 3096.
122575CIP <- 1997, IFO, Streptomyces setonii <- 1969, SAJ <- OWU, strain ISP 5395

doi: 10.13145/bacdive15146.20230509.8.1

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 griseus
  • full scientific name: Streptomyces griseus (Krainsky 1914) Waksman and Henrici 1948 (Approved Lists 1980)

  • synonyms

    @refsynonym
    20215Actinomyces globisporus subsp. flavofuscus
    20215Actinomyces acrimycini
    20215Actinomyces setonii
    20215Actinomyces fimicarius
    20215Streptomyces setonii
    20215Streptomyces fimicarius
    20215Streptomyces globisporus subsp. flavofuscus
    20215Streptomyces baarnensis
    20215Streptomyces acrimycini
    20215Actinomyces griseus
    20215Streptomyces erumpens
    20215Streptomyces argenteolus
    20215Streptomyces flavofuscus
    20215Streptomyces caviscabies

@ref: 9519

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces griseus subsp. griseus

full scientific name: Streptomyces griseus subsp. griseus (Krainsky 1914) Pridham 1970

type strain: no

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480positive100
122575positiverod-shapedno

colony morphology

  • @ref: 122575

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
9519ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium84.pdf
39245MEDIUM 57 - for Streptomyces, Nocardioides, Lentzea albidocapillata and Streptoverticillium reticulumyesDistilled water make up to (1000.000 ml);Agar (15.000 g);Glucose (4.000g);Yeast extract (4.000 g);Malt extract (10.000 g);Calcium carbonate (2.000 g)
9519GYM 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
122575CIP Medium 57yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=57
122575CIP Medium 236yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=236

culture temp

@refgrowthtypetemperaturerange
22954positivegrowth37mesophilic
39245positivegrowth30mesophilic
9519positivegrowth28mesophilic
67770positivegrowth28mesophilic
122575positivegrowth25-37mesophilic
122575nogrowth10psychrophilic
122575nogrowth41thermophilic
122575nogrowth45thermophilic

culture pH

  • @ref: 22954
  • ability: no
  • type: growth
  • pH: 4 - 5

Physiology and metabolism

oxygen tolerance

  • @ref: 122575
  • oxygen tolerance: obligate aerobe

spore formation

@refspore formationconfidence
69481yes100
69480yes100

halophily

@refsaltgrowthtested relationconcentration
22954NaClpositivegrowth5 %(w/v)
122575NaClpositivegrowth0-4 %
122575NaClnogrowth6 %
122575NaClnogrowth8 %
122575NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2295424741hydroxyproline+growth
2295417368hypoxanthine+hydrolysis
2295415443inulin-growth
2295415971L-histidine+growth
2295416634raffinose-growth
2295417814salicin-growth
2295415318xanthine+hydrolysis
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-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
6837117151xylitol-builds acid from
6837116634raffinose-builds acid from
683716731melezitose-builds acid from
6837115443inulin-builds acid from
6837117992sucrose-builds acid from
6837128053melibiose-builds acid from
6837117716lactose-builds acid from
6837117306maltose-builds acid from
6837117814salicin-builds acid from
683714853esculin+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
6837116813galactitol-builds acid from
6837162345L-rhamnose-builds acid from
6837117266L-sorbose-builds acid from
6837116024D-mannose-builds acid from
6837115824D-fructose+builds acid from
6837174863methyl beta-D-xylopyranoside-builds acid from
6837115963ribitol-builds acid from
6837165328L-xylose-builds acid from
6837165327D-xylose-builds acid from
6837130849L-arabinose-builds acid from
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from
1225754853esculin+hydrolysis
122575606565hippurate-hydrolysis
12257517632nitrate-reduction
12257516301nitrite-reduction
12257517632nitrate-respiration

antibiotic resistance

@refChEBImetaboliteis antibioticis resistantresistance conc.
2295416869oleandomycinyesyes100 µg/mL
229548309polymyxin byesyes15000 µg/mL
2295417076streptomycinyesyes20 µg/mL

metabolite production

  • @ref: 122575
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
12257515688acetoin-
12257517234glucose-

enzymes

@refvalueactivityec
122575oxidase-
122575beta-galactosidase-3.2.1.23
122575alcohol dehydrogenase-1.1.1.1
122575gelatinase-
122575amylase+
122575DNase-
122575caseinase+3.4.21.50
122575catalase+1.11.1.6
122575tween esterase-
122575gamma-glutamyltransferase-2.3.2.2
122575lecithinase-
122575lipase-
122575lysine decarboxylase-4.1.1.18
122575ornithine decarboxylase-4.1.1.17
122575phenylalanine ammonia-lyase-4.3.1.24
122575protease+
122575tryptophan deaminase-
122575urease+3.5.1.5
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

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
122575-+---+---+-+--------

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
122575+/----+/-----+/-+/-+---------+--+-+/-----+/----+/-+/--+/--------+/---

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
122575+++-+----+++---++-+++--+--+----+-+---------------++--++----+++----------++-+-++++---+-+-++++-++-+--

Isolation, sampling and environmental information

isolation

@refsample type
9519potato scab
122575Potato scab

isolation source categories

Cat1Cat2Cat3
#Host#Plants#Herbaceous plants (Grass,Crops)
#Host Body-Site#Other#Wound
#Host Body-Site#Plant#Root (Rhizome)

taxonmaps

  • @ref: 69479
  • File name: preview.99_135.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_102;97_109;98_120;99_135&stattab=map
  • Last taxonomy: Streptomyces
  • 16S sequence: AB184300
  • Sequence Identity:
  • Total samples: 4030
  • soil counts: 2441
  • aquatic counts: 286
  • animal counts: 1009
  • plant counts: 294

Safety information

risk assessment

@refpathogenicity plantbiosafety levelbiosafety level comment
9519yes1Risk group (German classification)
1225751Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptomyces setonii strain DSM40395 16S-23S intergenic spacer region, partial sequenceAF363495292ena1911
20218Streptomyces griseus gene for 16S ribosomal RNA, partial sequence, strain: JCM 4516D44204120ena1911
9519Streptomyces griseus gene for 16S ribosomal RNA, complete sequenceD638721532ena1911
9519Streptomyces setonii gene for 16S rRNA, partial sequence, strain: NBRC 13085AB1843001454ena1911

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Streptomyces griseus JCM 4516GCA_014655335scaffoldncbi1911
66792Streptomyces griseus strain JCM 45161911.24wgspatric1911

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileno94.052no
flagellatedno97.668no
gram-positiveyes90.522no
anaerobicno99.3no
aerobicyes93.796no
halophileno92.005no
spore-formingyes93.977no
glucose-utilyes88.135no
thermophileno99.319yes
glucose-fermentno84.934no

External links

@ref: 9519

culture collection no.: DSM 40395, ATCC 25497, CBS 105.72, CBS 957.69, ETH 16833, IFO 13085, IMRU 3375, ISP 5395, JCM 4226, JCM 4516, KCTC 9144, NBRC 13085, RIA 1277, BCRC 16231, CBS 105.27, CGMCC 4.1367, CGMCC 4.1774, CIP 105279, ICMP 12543, MTCC 4735, NRRL B-2555, VTT E-072713

straininfo link

  • @ref: 84250
  • straininfo: 386989

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Genetics7770044Carotenoid synthesis in Streptomyces setonii ISP5395 is induced by the gene crtS, whose product is similar to a sigma factor.Kato F, Hino T, Nakaji A, Tanaka M, Koyama YMol Gen Genet10.1007/BF002932071995Amino Acid Sequence, Bacillus subtilis/genetics, *Bacterial Proteins, Base Sequence, Carotenoids/*biosynthesis, *Genes, Bacterial, Molecular Sequence Data, Restriction Mapping, Sequence Homology, Amino Acid, Sigma Factor/*genetics/metabolism, Streptomyces/*genetics/*metabolismMetabolism
Genetics17476988[Anionic polymers of the cell wall of Streptomyces sp. VKM An-2534].Tul'skaia EM, Shashkov AS, Senchenkova SN, Akimov VN, Bueva OV, Stupar' OS, Evtushenko LIBioorg Khim2007Anions/analysis, Carbohydrate Sequence, Cell Wall/*chemistry, Molecular Sequence Data, Nuclear Magnetic Resonance, Biomolecular, Polymers/*analysis, Streptomyces/*chemistry, Teichoic Acids/*analysis, Uronic Acids/*analysis

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
9519Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40395)https://www.dsmz.de/collection/catalogue/details/culture/DSM-40395
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
22954K. Miyajima, F. Tanaka, T. Takeuchi, S. Kuninaga10.1099/00207713-48-2-495Streptomyces turgidiscabies sp. nov.IJSEM 48: 495-502 19989731290
39245Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/17281
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
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
84250Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID386989.1StrainInfo: A central database for resolving microbial strain identifiers
122575Curators of the CIPCollection of Institut Pasteur (CIP 105279)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20105279