Strain identifier

BacDive ID: 15217

Type strain: Yes

Species: Streptomyces gelaticus

Strain history: KCC S-0376 <-- IFO 12866 <-- SAJ <-- ISP 5065 <-- IMRU 3323.

NCBI tax ID(s): 285446 (species)

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General

@ref: 9266

BacDive-ID: 15217

DSM-Number: 40065

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

description: Streptomyces gelaticus DSM 40065 is a spore-forming, mesophilic, Gram-positive bacterium that produces antibiotic compounds and was isolated from soil.

NCBI tax id

  • NCBI tax id: 285446
  • Matching level: species

strain history

@refhistory
9266<- E.B. Shirling, ISP <- S.A. Waksman, IMRU
67770KCC S-0376 <-- IFO 12866 <-- SAJ <-- ISP 5065 <-- IMRU 3323.

doi: 10.13145/bacdive15217.20230509.8.1

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 gelaticus
  • full scientific name: Streptomyces gelaticus (Waksman 1923) Waksman and Henrici 1948 (Approved Lists 1980)

  • synonyms

    • @ref: 20215
    • synonym: Actinomyces gelaticus

@ref: 9266

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces gelaticus

full scientific name: Streptomyces gelaticus (Waksman 1923) Waksman and Henrici 1948

type strain: yes

Morphology

cell morphology

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

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
9266GYM 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
9266ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium84.pdf

culture temp

@refgrowthtypetemperaturerange
18477positiveoptimum28mesophilic
9266positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481yes100
69480yes100

compound production

@refcompound
9266elaiomycin
20216Elaiomycin

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1847717234glucose+
1847722599arabinose-
1847717992sucrose-
1847718222xylose-
1847717268myo-inositol-
1847729864mannitol-
1847728757fructose+
1847726546rhamnose-
1847716634raffinose+
683685291gelatin+hydrolysis
6836827897tryptophan-energy source
6836816199urea+hydrolysis
6836816947citrate+assimilation
6836818257ornithine-degradation
6836825094lysine-degradation
6836829016arginine+hydrolysis

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinno
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

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
18477++--+-++--+

Isolation, sampling and environmental information

isolation

  • @ref: 9266
  • sample type: soil

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_2889.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_102;97_109;98_120;99_2889&stattab=map
  • Last taxonomy: Streptomyces
  • 16S sequence: DQ026636
  • Sequence Identity:
  • Total samples: 2531
  • soil counts: 1589
  • aquatic counts: 125
  • animal counts: 280
  • plant counts: 537

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
184771German classification
92661Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptomyces gelaticus gene for 16S rRNA, partial sequence, strain: NBRC 12866AB1842021466ena285446
20218Streptomyces gelaticus strain NRRL B-2928 16S ribosomal RNA gene, partial sequenceDQ0266361483ena285446

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Streptomyces gelaticus JCM 4376GCA_014649535scaffoldncbi285446
66792Streptomyces gelaticus strain JCM 4376285446.3wgspatric285446

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
flagellatedno97.898no
gram-positiveyes88.989no
anaerobicno99.067no
aerobicyes90.668no
halophileno96.029no
spore-formingyes95.599no
thermophileno97.361yes
glucose-utilyes91.403yes
motileno92.935no
glucose-fermentno88.78no

External links

@ref: 9266

culture collection no.: DSM 40065, AS 4.1444, ATCC 23912, ATCC 3323, CBS 131.20, CBS 369.39, CBS 833.68, ETH 10211, ETH 16702, IFO 12866, IMET 40285, IMRU 3323, ISP 5065, JCM 4376, KCC S-0376, NBRC 12866, NCIMB 9848, NRRL B-1252, NRRL B-2928, PSA 95, RIA 1118, RIA 89, BCRC 11477, CCM 3177, CGMCC 4.1444, VKM Ac-1704

straininfo link

  • @ref: 84315
  • straininfo: 177113

literature

  • topic: Phylogeny
  • Pubmed-ID: 29537363
  • title: Streptomyces fuscigenes sp. nov., isolated from bamboo (Sasa borealis) litter.
  • authors: Lee HJ, Whang KS
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.002706
  • year: 2018
  • mesh: Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sasa/*microbiology, Sequence Analysis, DNA, *Soil Microbiology, Streptomyces/*classification/genetics/isolation & purification, Vitamin K 2/analogs & derivatives/chemistry
  • topic2: Transcriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
9266Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40065)https://www.dsmz.de/collection/catalogue/details/culture/DSM-40065
18477Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM40065.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
20216Curators of the HKIhttp://www.leibniz-hki.de/de/Collection Description Leibniz-Institut für Naturstoff-Forschung und Infektionsbiologie e. V. Hans-Knöll-Institut (HKI)
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
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
84315Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID177113.1StrainInfo: A central database for resolving microbial strain identifiers