Strain identifier

BacDive ID: 11743

Type strain: No

Species: Yersinia pseudotuberculosis

Strain Designation: 71, A82, I, CNP 14

Strain history: CIP <- 1993, F. Escande, Inst. Pasteur, Paris, France: strain CNP 14 <- NCTC <- 1965, M.S. Jayaraman, India: strain I

NCBI tax ID(s): 633 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 16567

BacDive-ID: 11743

DSM-Number: 22972

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, motile, animal pathogen

description: Yersinia pseudotuberculosis 71 is an aerobe, mesophilic, motile animal pathogen that was isolated from lymphangitis in Bos indicus.

NCBI tax id

  • NCBI tax id: 633
  • Matching level: species

strain history

@refhistory
16567<- NCTC <- M. S. Jayaraman; Jayaraman strain I
122004CIP <- 1993, F. Escande, Inst. Pasteur, Paris, France: strain CNP 14 <- NCTC <- 1965, M.S. Jayaraman, India: strain I

doi: 10.13145/bacdive11743.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Enterobacterales
  • family: Yersiniaceae
  • genus: Yersinia
  • species: Yersinia pseudotuberculosis
  • full scientific name: Yersinia pseudotuberculosis (Pfeiffer 1889) Smith and Thal 1965 (Approved Lists 1980)

  • synonyms

    @refsynonym
    20215Bacillus pseudotuberkulosis
    20215Pasteurella lymphangitidis

@ref: 16567

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pasteurellales

family: Yersiniaceae

genus: Yersinia

species: Yersinia pseudotuberculosis

full scientific name: Yersinia pseudotuberculosis (Pfeiffer 1889) Smith and Thal 1965

strain designation: 71, A82, I, CNP 14

type strain: no

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes98.649
6948099.994negative
122004nonegativerod-shaped

colony morphology

  • @ref: 16567
  • type of hemolysis: gamma

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
16567BHI MEDIUM (DSMZ Medium 215)yeshttps://mediadive.dsmz.de/medium/215Name: BHI MEDIUM (DSMZ Medium 215) Composition: Brain heart infusion 37.0 g/l Distilled water
16567COLUMBIA 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
40803MEDIUM 118 - for Pasteurella, Actinobacillus and Psychrobacter frigidicolayesDistilled water make up to (1000.000 ml);Yeast extract (1.000 g);Tryptocasein soy agar (40.000 g)
122004CIP Medium 118-byeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=118-b

culture temp

@refgrowthtypetemperaturerange
16567positivegrowth37mesophilic
40803positivegrowth37mesophilic
48676positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
48676aerobe
122004facultative anaerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.818

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
12200417632nitrate-reduction
12200416301nitrite-reduction
6837717634D-glucose+builds acid from
6837715824D-fructose+builds acid from
6837717992sucrose-builds acid from
6837727897tryptophan-energy source
6838129016arginine-hydrolysis
6838116988D-ribose+builds acid from
6838116899D-mannitol+builds acid from
6838130911sorbitol-builds acid from
6838117716lactose-builds acid from
6838127082trehalose+builds acid from
6838116634raffinose-builds acid from
6838117992sucrose-builds acid from
6838130849L-arabinose-builds acid from
6838118333D-arabitol-builds acid from
6838140585alpha-cyclodextrin-builds acid from
68381606565hippurate-hydrolysis
6838128087glycogen-builds acid from
6838127941pullulan-builds acid from
6838117306maltose+builds acid from
6838128053melibiose+builds acid from
683816731melezitose-builds acid from
68381320055methyl beta-D-glucopyranoside+builds acid from
6838116443D-tagatose-builds acid from
6838116199urea+hydrolysis

metabolite production

@refChebi-IDmetaboliteproduction
6837735581indoleno
12200435581indoleno
6838115688acetoinno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole test
6838115688acetoin-
6837735581indole-

enzymes

@refvalueactivityec
68381urease+3.5.1.5
68381beta-mannosidase-3.2.1.25
68381glycyl tryptophan arylamidase+
68381N-acetyl-beta-glucosaminidase-3.2.1.52
68381pyrrolidonyl arylamidase+3.4.19.3
68381beta-galactosidase-3.2.1.23
68381Alanyl-Phenylalanyl-Proline arylamidase+
68381alkaline phosphatase+3.1.3.1
68381alpha-galactosidase+3.2.1.22
68381beta-glucuronidase-3.2.1.31
68381beta-glucosidase+3.2.1.21
68381arginine dihydrolase-3.5.3.6
68377tryptophan deaminase-4.1.99.1
68377proline-arylamidase+3.4.11.5
68377alkaline phosphatase-3.1.3.1
68377lipase-
122004oxidase-
122004catalase+1.11.1.6
122004urease+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
122004-+---+----++----+---

API NH

@refPENGLUFRUMALSACODCURELIPPALbeta GALProAGGTIND
16567+++--+---++--
16567-+++--+---++-

API rID32STR

@refADH Argbeta GLUbeta GARbeta GURalpha GALPALRIBMANSORLACTRERAFSACLARADARLCDEXVPAPPAbeta GALPyrAbeta NAGGTAHIPGLYGPULMALMELMLZMbeta DGTAGbeta MANURE
16567-+--++++--+------+-+-+---++-+--+

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinent
16567lymphangitis in Bos indicusBos indicusSouthern IndiaIndiaINDAsia
48676Bovine lymph gland,bovine lymphangitis (BL)
122004Animal, Bovine, suppurating pre-capsular lymph glandIndiaINDAsia

isolation source categories

Cat1Cat2Cat3
#Infection#Disease
#Host#Mammals#Bovinae (Cow, Cattle)

taxonmaps

  • @ref: 69479
  • File name: preview.99_140.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_6;96_106;97_113;98_124;99_140&stattab=map
  • Last taxonomy: Yersiniaceae
  • 16S sequence: HF558372
  • Sequence Identity:
  • Total samples: 33336
  • soil counts: 1734
  • aquatic counts: 5584
  • animal counts: 23907
  • plant counts: 2111

Safety information

risk assessment

@refpathogenicity animalbiosafety levelbiosafety level comment
16567yes2Risk group (German classification)
1220042Risk group (French classification)

Sequence information

16S sequences

  • @ref: 16567
  • description: [Pasteurella] lymphangitidis partial 16S rRNA gene, strain Jayaraman 1
  • accession: HF558372
  • length: 1516
  • database: ena
  • NCBI tax ID: 633

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Yersinia pseudotuberculosis NCTC10547GCA_900454385contigncbi633
66792Yersinia pseudotuberculosis strain NCTC10547633.130wgspatric633

GC content

  • @ref: 16567
  • GC-content: 49.7
  • method: thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
gram-positiveno98.514no
anaerobicno98.331no
halophileno90.468no
spore-formingno94.581no
glucose-utilyes95.324no
flagellatedyes52.966no
aerobicyes92.091yes
thermophileno98.485yes
motileyes89.823no
glucose-fermentyes93.741no

External links

@ref: 16567

culture collection no.: DSM 22972, ATCC 49635, CCUG 27188, CIP 103823, NCTC 10547, CIP 27188, Jayaraman strain I

straininfo link

  • @ref: 80961
  • straininfo: 92996

Reference

@idauthorscataloguedoi/urltitle
16567Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22972)https://www.dsmz.de/collection/catalogue/details/culture/DSM-22972
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
40803Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/15663
48676Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 27188)https://www.ccug.se/strain?id=27188
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)
68377Automatically annotated from API NH
68381Automatically annotated from API rID32STR
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
80961Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID92996.1StrainInfo: A central database for resolving microbial strain identifiers
122004Curators of the CIPCollection of Institut Pasteur (CIP 103823)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103823