Strain identifier

BacDive ID: 138456

Type strain: Yes

Species: Shigella dysenteriae

Strain history: CIP <- 1957, NCTC <- 1935, W.M. Scott, Newcastle, UK

NCBI tax ID(s): 622 (species)

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General

@ref: 39791

BacDive-ID: 138456

keywords: genome sequence, Bacteria, facultative anaerobe, mesophilic, Gram-negative, rod-shaped

description: Shigella dysenteriae CIP 57.28 is a facultative anaerobe, mesophilic, Gram-negative bacterium of the family Enterobacteriaceae.

NCBI tax id

  • NCBI tax id: 622
  • Matching level: species

strain history

  • @ref: 39791
  • history: CIP <- 1957, NCTC <- 1935, W.M. Scott, Newcastle, UK

doi: 10.13145/bacdive138456.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Enterobacterales
  • family: Enterobacteriaceae
  • genus: Shigella
  • species: Shigella dysenteriae
  • full scientific name: Shigella dysenteriae (Shiga 1897) Castellani and Chalmers 1919 (Approved Lists 1980)

  • synonyms

    • @ref: 20215
    • synonym: Bacillus dysentericus

@ref: 39791

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Enterobacterales

family: Enterobacteriaceae

genus: Shigella

species: Shigella dysenteriae

type strain: yes

Morphology

cell morphology

  • @ref: 39791
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: no

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
39791MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)
39791CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3
39791CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
39791positivegrowth30mesophilic
39791positivegrowth30-41
39791nogrowth5psychrophilic
39791nogrowth10psychrophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 39791
  • oxygen tolerance: facultative anaerobe

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3979129864mannitol-fermentation
3979116947citrate-carbon source
3979117234glucose+fermentation
3979117716lactose-fermentation
3979117632nitrate+reduction
3979116301nitrite-reduction
3979115792malonate-assimilation
39791132112sodium thiosulfate-builds gas from
3979117234glucose+degradation

antibiotic resistance

  • @ref: 39791
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

  • @ref: 39791
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
3979115688acetoin-
3979117234glucose+

enzymes

@refvalueactivityec
39791oxidase-
39791beta-galactosidase+3.2.1.23
39791alcohol dehydrogenase-1.1.1.1
39791gelatinase-
39791catalase+1.11.1.6
39791lysine decarboxylase-4.1.1.18
39791ornithine decarboxylase-4.1.1.17
39791phenylalanine ammonia-lyase-4.3.1.24
39791tryptophan deaminase-
39791urease-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
39791-+---+----++---+----

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
39791+++++--------------------------+----------------++---------++--------------+---++-----+--+--+-++---

Isolation, sampling and environmental information

isolation

  • @ref: 45201
  • sampling date: 1934

Safety information

risk assessment

  • @ref: 39791
  • biosafety level: 3
  • biosafety level comment: Risk group (French classification)

Sequence information

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Shigella dysenteriae ATCC 13313GCA_002949675completencbi622
66792Shigella dysenteriae NCTC4837GCA_900457215contigncbi622
66792Shigella dysenteriae strain ATCC 13313622.424completepatric622
66792Shigella dysenteriae strain CIP57.28622.104wgspatric622
66792Shigella dysenteriae strain NCTC4837622.509wgspatric622
66792Shigella dysenteriae ATCC 133132850767282completeimg622
66792Shigella dysenteriae NCTC 48372916533085draftimg622

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
flagellatedno83.509no
gram-positiveno98.105no
anaerobicno94.71no
aerobicyes75.743no
halophileno91.809no
spore-formingno94.422no
glucose-utilyes91.232no
thermophileno99.071yes
motileyes67.143no
glucose-fermentyes92.605no

External links

@ref: 39791

culture collection no.: CIP 57.28, ATCC 13313, CCUG 9565, NCTC 4837

straininfo link

  • @ref: 95179
  • straininfo: 45536

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
39791Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%2057.28Collection of Institut Pasteur (CIP 57.28)
45201Curators of the CCUGhttps://www.ccug.se/strain?id=9565Culture Collection University of Gothenburg (CCUG) (CCUG 9565)
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
68382Automatically annotated from API zym
95179Reimer, 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-ID45536.1