Strain identifier

BacDive ID: 131928

Type strain: No

Species: Salmonella enterica subsp. enterica

Strain Designation: S15

Strain history: <- C. G. T. Rensing, University of Copenhagen, Denmark; S15 <- Y. Qin <- Hasman, H., Danish Technical Institute

NCBI tax ID(s): 59201 (subspecies)

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General

@ref: 23720

BacDive-ID: 131928

DSM-Number: 101475

keywords: genome sequence, Bacteria, mesophilic, Gram-negative

description: Salmonella enterica subsp. enterica S15 is a mesophilic, Gram-negative bacterium that was isolated from copper fed pigs.

NCBI tax id

  • NCBI tax id: 59201
  • Matching level: subspecies

strain history

  • @ref: 23720
  • history: <- C. G. T. Rensing, University of Copenhagen, Denmark; S15 <- Y. Qin <- Hasman, H., Danish Technical Institute

doi: 10.13145/bacdive131928.20250331.9.3

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Enterobacterales
  • family: Enterobacteriaceae
  • genus: Salmonella
  • species: Salmonella enterica subsp. enterica
  • full scientific name: Salmonella enterica subsp. enterica (ex Kauffmann and Edwards 1952) Le Minor and Popoff 1987

  • synonyms

    • @ref: 20215
    • synonym: Salmonella choleraesuis subsp. choleraesuis

@ref: 23720

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Enterobacteriales, not validated

family: Enterobacteriaceae

genus: Salmonella

species: Salmonella enterica subsp. enterica

full scientific name: Salmonella enterica subsp. enterica (ex Kauffmann and Edwards 1952) Le Minor and Popoff 1987

strain designation: S15

type strain: no

Morphology

cell morphology

@refgram stainconfidence
125439negative93.3
125438negative100

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
23720COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yeshttps://mediadive.dsmz.de/medium/693Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base
23720NUTRIENT AGAR (DSMZ Medium 1)yeshttps://mediadive.dsmz.de/medium/1Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water

culture temp

  • @ref: 23720
  • growth: positive
  • type: growth
  • temperature: 37

Physiology and metabolism

oxygen tolerance

  • @ref: 125439
  • oxygen tolerance: aerobe
  • confidence: 95

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836830849L-arabinose+fermentation
6836827613amygdalin-fermentation
6836828053melibiose+fermentation
6836817992sucrose-fermentation
6836862345L-rhamnose+fermentation
6836830911sorbitol+fermentation
6836817268myo-inositol+fermentation
6836816899D-mannitol+fermentation
6836817634D-glucose+fermentation
683685291gelatin-hydrolysis
6836827897tryptophan-energy source
6836816199urea-hydrolysis
6836816947citrate+assimilation
6836818257ornithine+degradation
6836825094lysine+degradation
6836829016arginine+hydrolysis

metabolite production

@refChebi-IDmetaboliteproduction
6836835581indoleno
6836816136hydrogen sulfideyes

metabolite tests

  • @ref: 68368
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
68368cytochrome oxidase-1.9.3.1
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 TrpINDVPGELGLUMANINOSorRHASACMELAMYARAOX
23720-+++++---+/--+++++-+-+-
23720-+++++---+-+++++-+-+-

Isolation, sampling and environmental information

isolation

  • @ref: 23720
  • sample type: copper fed pigs
  • country: Denmark
  • origin.country: DNK
  • continent: Europe

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Geologic
#Host#Mammals#Suidae (Pig,Swine)

Safety information

risk assessment

  • @ref: 23720
  • biosafety level: 2
  • biosafety level comment: Risk group (German classification)

Sequence information

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Salmonella enterica S15GCA_016018765contigncbi28901
66792Salmonella enterica S15GCA_020003485scaffoldncbi28901
66792Salmonella enterica subsp. enterica serovar Typhimurium S15GCA_000784245contigncbi90371
66792Salmonella enterica subsp. enterica serovar Typhimurium S1590371.98wgspatric90371
66792Salmonella enterica S15GCA_021183545completencbi28901
66792Salmonella enterica subsp. enterica serovar Heidelberg S15GCA_025177415scaffoldncbi611

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125438gram-positivegram-positivePositive reaction to Gram-stainingno100no
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no94.34no
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)no72.997no
125438spore-formingspore-formingAbility to form endo- or exosporesno88.032no
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno98no
125438motile2+flagellatedAbility to perform flagellated movementyes74.417no
125439BacteriaNetspore_formationAbility to form endo- or exosporesno83.9
125439BacteriaNetmotilityAbility to perform movementyes70.7
125439BacteriaNetgram_stainReaction to gram-stainingnegative93.3
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthaerobe95

External links

@ref: 23720

culture collection no.: DSM 101475

straininfo link

  • @ref: 90315
  • straininfo: 401325

Reference

@idauthorstitledoi/urlcatalogue
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
23720Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-101475Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 101475)
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
68368Automatically annotated from API 20E
90315Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID401325.1
125438Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg OvermannPredicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets10.1101/2024.08.12.607695
125439Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardydeepG: Deep Learning for Genome Sequence Data. R package version 0.3.1https://github.com/GenomeNet/deepG