Strain identifier

BacDive ID: 15136

Type strain: Yes

Species: Streptomyces exfoliatus

Strain history: CIP <- 2004, CCUG <- 1981, M. Ridell, Göteborg Univ., Göteborg, Sweden <- S.T. Williams, Liverpool, UK

NCBI tax ID(s): 1905 (species)

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General

@ref: 9242

BacDive-ID: 15136

DSM-Number: 40060

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, mesophilic, Gram-positive, filament-shaped

description: Streptomyces exfoliatus DSM 40060 is an obligate aerobe, mesophilic, Gram-positive bacterium that was isolated from soil.

NCBI tax id

  • NCBI tax id: 1905
  • Matching level: species

strain history

@refhistory
9242<- E.B. Shirling, ISP <- S.A. Waksman, IMRU
67770KCC S-0366 <-- IFO 13191 <-- SAJ <-- ISP 5060 <-- IMRU 3316.
119152CIP <- 2004, CCUG <- 1981, M. Ridell, Göteborg Univ., Göteborg, Sweden <- S.T. Williams, Liverpool, UK

doi: 10.13145/bacdive15136.20230509.8.1

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 exfoliatus
  • full scientific name: Streptomyces exfoliatus (Waksman and Curtis 1916) Waksman and Henrici 1948 (Approved Lists 1980)

  • synonyms

    • @ref: 20215
    • synonym: Actinomyces exfoliatus

@ref: 9242

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces exfoliatus

full scientific name: Streptomyces exfoliatus (Waksman and Curtis 1916) Waksman and Henrici 1948 emend. Nouioui et al. 2018

type strain: yes

Morphology

cell morphology

  • @ref: 119152
  • gram stain: positive
  • cell shape: filament-shaped
  • motility: no

colony morphology

  • @ref: 119152
  • hemolysis ability: 1

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
9242GYM 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
33214MEDIUM 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)
9242ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium84.pdf
119152CIP Medium 57yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=57

culture temp

@refgrowthtypetemperaturerange
9242positivegrowth28mesophilic
33214positivegrowth30mesophilic
67770positivegrowth28mesophilic
119152positivegrowth10-37
119152nogrowth41thermophilic
119152nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 119152
  • oxygen tolerance: obligate aerobe

halophily

@refsaltgrowthtested relationconcentration
119152NaClpositivegrowth0-6 %
119152NaClnogrowth8 %
119152NaClnogrowth10 %

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
68371gluconate-builds acid from24265
68371L-arabitol-builds acid from18403
68371D-arabitol-builds acid from18333
68371L-fucose-builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose-builds acid from16443
68371D-lyxose-builds acid from62318
68371turanose-builds acid from32528
68371gentiobiose-builds acid from28066
68371xylitol-builds acid from17151
68371raffinose-builds acid from16634
68371melezitose-builds acid from6731
68371inulin-builds acid from15443
68371trehalose-builds acid from27082
68371melibiose-builds acid from28053
68371lactose-builds acid from17716
68371esculin+builds acid from4853
68371amygdalin-builds acid from27613
68371methyl alpha-D-glucopyranoside-builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol-builds acid from17924
68371D-mannitol-builds acid from16899
68371myo-inositol-builds acid from17268
68371galactitol-builds acid from16813
68371L-rhamnose-builds acid from62345
68371L-sorbose-builds acid from17266
68371D-mannose-builds acid from16024
68371D-galactose-builds acid from12936
68371methyl beta-D-xylopyranoside-builds acid from74863
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
68371D-xylose-builds acid from65327
68371D-ribose-builds acid from16988
68371L-arabinose-builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
68371glycerol-builds acid from17754
119152citrate-carbon source16947
119152esculin+hydrolysis4853
119152hippurate-hydrolysis606565
119152nitrate+reduction17632
119152nitrite-reduction16301
119152nitrate-respiration17632

antibiotic resistance

  • @ref: 119152
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

  • @ref: 119152
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
11915215688acetoin-
11915217234glucose-

enzymes

@refvalueactivityec
119152oxidase-
119152beta-galactosidase-3.2.1.23
119152alcohol dehydrogenase-1.1.1.1
119152gelatinase+/-
119152amylase+
119152DNase-
119152caseinase+3.4.21.50
119152catalase+1.11.1.6
119152tween esterase+
119152gamma-glutamyltransferase+2.3.2.2
119152lecithinase+
119152lipase-
119152lysine decarboxylase-4.1.1.18
119152ornithine decarboxylase-4.1.1.17
119152phenylalanine ammonia-lyase-4.3.1.24
119152protease+
119152tryptophan deaminase-
119152urease+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
119152-++++++++-++-+-+++--

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
119152----------+/-+/----------+/--+/-++/-+/-+/---+/-----+/-+/-------------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
119152+++-+--+-+++---+++++++-+-------+-----------------++--+-----+++++--------++---+-+++--+-+-+++++++-+++

Isolation, sampling and environmental information

isolation

@refsample type
9242soil
119152Environment, Soil

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_490.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_102;97_109;98_403;99_490&stattab=map
  • Last taxonomy: Streptomyces
  • 16S sequence: AY999796
  • Sequence Identity:
  • Total samples: 9252
  • soil counts: 6254
  • aquatic counts: 336
  • animal counts: 471
  • plant counts: 2191

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
92421Risk group (German classification)
1191521Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptomyces exfoliatus gene for 16S ribosomal RNA, partial sequence, strain: JCM 4366D44083120ena1905
20218Streptomyces exfoliatus gene for 16S rRNA, partial sequence, strain: NBRC 13191AB1843241465ena1905
20218Streptomyces exfoliatus strain NRRL B-1237 16S ribosomal RNA gene, partial sequenceAY9997961425ena1905

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
67770Streptomyces exfoliatus NRRL B-2924GCA_000725545scaffoldncbi1905
67770Streptomyces exfoliatus NRRL B-2924GCA_000718175contigncbi1905

GC content

  • @ref: 67770
  • GC-content: 72
  • method: genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno94.662no
flagellatedno97.791no
gram-positiveyes89.004no
anaerobicno99.337no
aerobicyes93.075no
halophileno94.175no
spore-formingyes92.353no
glucose-utilyes90.555no
thermophileno98.895yes
glucose-fermentno86.225no

External links

@ref: 9242

culture collection no.: DSM 40060, ATCC 12627, ATCC 19750, CBS 489.68, ETH 24304, IFO 13191, IMRU 3316, ISP 5060, NBRC 13191, NRRL B-1237, RIA 1031, CCUG 11113, CCM 3169, JCM 4366, BCRC 11469, CGMCC 4.1407, ICMP 1008, LMG 19307, NCIMB 12599, NRRL B-2924, PCM 2367, VKM Ac-767, VTT E-86262, CIP 108233

straininfo link

  • @ref: 84240
  • straininfo: 92629

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
9242Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40060)https://www.dsmz.de/collection/catalogue/details/culture/DSM-40060
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
33214Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5833
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
84240Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID92629.1StrainInfo: A central database for resolving microbial strain identifiers
119152Curators of the CIPCollection of Institut Pasteur (CIP 108233)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108233