Strain identifier

BacDive ID: 131523

Type strain: Yes

Species: Pasteurella caecimuris

Strain Designation: AA-424-CC-1

Strain history: <- Barbel Fosel, DSM

NCBI tax ID(s): 1796644 (species)

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General

@ref: 22750

BacDive-ID: 131523

DSM-Number: 28627

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic

description: Pasteurella caecimuris AA-424-CC-1 is an aerobe, mesophilic bacterium that was isolated from caecal content; TNFdeltaARE/+ C57BL/6 mouse.

NCBI tax id

  • NCBI tax id: 1796644
  • Matching level: species

strain history

@refhistory
22750<- T. Clavel, TU Munich, Freising-Weihenstephan, Germany; AA-424-CC-1(A)
67771<- Barbel Fosel, DSM

doi: 10.13145/bacdive131523.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Pasteurellales
  • family: Pasteurellaceae
  • genus: Pasteurella
  • species: Pasteurella caecimuris
  • full scientific name: Pasteurella caecimuris Lagkouvardos et al. 2016

@ref: 22750

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pasteurellales

family: Pasteurellaceae

genus: Pasteurella

species: Pasteurella caecimuris

full scientific name: Pasteurella caecimuris Lagkouvardos et al. 2016

strain designation: AA-424-CC-1

type strain: yes

Morphology

colony morphology

  • @ref: 22750
  • incubation period: 1-2 days

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
22750LB (Luria-Bertani) MEDIUM (DSMZ Medium 381)yeshttps://mediadive.dsmz.de/medium/381Name: LB (Luria-Bertani) MEDIUM (DSMZ Medium 381) Composition: Agar 20.0 g/l NaCl 10.0 g/l Tryptone 10.0 g/l Yeast extract 5.0 g/l Distilled water
22750BHI 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
22750COLUMBIA 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

culture temp

@refgrowthtypetemperaturerange
22750positivegrowth37mesophilic
67771positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 67771
  • oxygen tolerance: aerobe

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836925115malate-assimilation
6836917128adipate-assimilation
6836927689decanoate-assimilation
6836924265gluconate-assimilation
6836917306maltose-assimilation
6836959640N-acetylglucosamine-assimilation
6836916899D-mannitol-assimilation
6836916024D-mannose-assimilation
6836930849L-arabinose-assimilation
6836917634D-glucose-assimilation
683695291gelatin-hydrolysis
683694853esculin-hydrolysis
6836916199urea+hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose+fermentation
6836917632nitrate+reduction
6838129016arginine-hydrolysis
6838116899D-mannitol-builds acid from
6838130911sorbitol-builds acid from
6838127082trehalose+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
683816731melezitose-builds acid from
68381320055methyl beta-D-glucopyranoside-builds acid from
6838116443D-tagatose-builds acid from
6838116199urea+hydrolysis

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
68369cytochrome oxidase+1.9.3.1
68369gelatinase-
68369beta-glucosidase-3.2.1.21
68369urease+3.5.1.5
68369arginine dihydrolase-3.5.3.6

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
22750++/-+-+--+------------+

API rID32STR

@refADH Argbeta GLUbeta GARbeta GURalpha GALPALRIBMANSORLACTRERAFSACLARADARLCDEXVPAPPAbeta GALPyrAbeta NAGGTAHIPGLYGPULMALMELMLZMbeta DGTAGbeta MANURE
22750--+-+++/---+/-++/-+/----+/--+------++/-----+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
22750caecal content; TNFdeltaARE/+ C57BL/6 mouseFreisingGermanyDEUEurope
67771From Mouse intestineFreising-WeihenstephanGermanyDEUEurope

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Muridae (Mouse/Rat)
#Host Body-Site#Gastrointestinal tract#Large intestine
#Host Body Product#Gastrointestinal tract#Caecal content

taxonmaps

  • @ref: 69479
  • File name: preview.99_950.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_18;96_558;97_645;98_745;99_950&stattab=map
  • Last taxonomy: Rodentibacter heylii
  • 16S sequence: KR364783
  • Sequence Identity:
  • Total samples: 8111
  • soil counts: 106
  • aquatic counts: 200
  • animal counts: 7753
  • plant counts: 52

Sequence information

16S sequences

  • @ref: 22750
  • description: Pasteurella caecimuris strain AA-424-CC-1 16S ribosomal RNA gene, partial sequence
  • accession: KR364783
  • length: 1423
  • database: ena
  • NCBI tax ID: 1796644

Genome sequences

  • @ref: 66792
  • description: Pasteurella caecimuris DSM 28627
  • accession: GCA_024622045
  • assembly level: contig
  • database: ncbi
  • NCBI tax ID: 1796644

GC content

  • @ref: 22750
  • GC-content: 40.2
  • method: sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
flagellatedno93.437no
gram-positiveno97.919no
anaerobicno96.255no
aerobicno85.421yes
halophileyes51.284no
spore-formingno98.784no
motileno88.97no
glucose-fermentyes66.846yes
thermophileno98.605no
glucose-utilno50no

External links

@ref: 22750

culture collection no.: DSM 28627, KCTC 52216

straininfo link

  • @ref: 89937
  • straininfo: 402999

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
22750Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-28627Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 28627)
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
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
68369Automatically annotated from API 20NE
68381Automatically annotated from API rID32STR
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
89937Reimer, 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-ID402999.1