Strain identifier

BacDive ID: 142682

Type strain: No

Species: Bordetella trematum

NCBI tax ID(s): 1392839 (strain), 123899 (species)

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General

@ref: 46018

BacDive-ID: 142682

keywords: genome sequence, Bacteria, motile

description: Bordetella trematum CCUG 13902 is a motile bacterium that was isolated from Human leg wound.

NCBI tax id

NCBI tax idMatching level
1392839strain
123899species

doi: 10.13145/bacdive142682.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Burkholderiales
  • family: Alcaligenaceae
  • genus: Bordetella
  • species: Bordetella trematum
  • full scientific name: Bordetella trematum Vandamme et al. 1996

@ref: 46018

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Alcaligenaceae

genus: Bordetella

species: Bordetella trematum

type strain: no

Morphology

cell morphology

@refmotilityconfidencegram stain
69480yes92.823
6948099.995negative

Physiology and metabolism

spore formation

@refspore formationconfidence
69481no100
69480no99.997

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
6836927897tryptophan-energy source
6836917632nitrate+reduction

metabolite production

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

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

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    46018C12:00.712
    46018C14:01.314
    46018C16:035.816
    46018C18:03.618
    46018C12:0 2OH1.913.178
    46018C14:0 2OH3.415.205
    46018C14:0 3OH/C16:1 ISO I6.115.485
    46018C16:1 ω7c16.715.819
    46018C17:0 CYCLO25.216.888
    46018C18:1 ω7c /12t/9t4.417.824
    46018Unidentified1
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
46018--+--+----+---------

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
46018+---------------+++++

Isolation, sampling and environmental information

isolation

  • @ref: 46018
  • sample type: Human leg wound
  • sampling date: 1980

isolation source categories

Cat1Cat2Cat3
#Host#Human
#Host Body-Site#Limb#Leg
#Host Body-Site#Other#Wound
#Infection#Patient

Sequence information

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Bordetella trematum CCUG 13902GCA_000471705contigncbi1392839
66792Bordetella trematum CCUG 139021392839.3wgspatric1392839
66792Bordetella trematum CCUG 139022585427706draftimg1392839

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes89.274no
gram-positiveno98.591no
anaerobicno98.763no
halophileno80.373no
spore-formingno95.781no
thermophileno99.559no
glucose-utilno84.003yes
aerobicyes81.678no
flagellatedyes61.706no
glucose-fermentno90.783yes

External links

@ref: 46018

culture collection no.: CCUG 13902, LMG 14446, LMG 5251

straininfo link

  • @ref: 98150
  • straininfo: 6572

literature

  • topic: Genetics
  • Pubmed-ID: 24158552
  • title: Draft Genome Sequences of Bordetella hinzii and Bordetella trematum.
  • authors: Shah NR, Moksa M, Novikov A, Perry MB, Hirst M, Caroff M, Fernandez RC
  • journal: Genome Announc
  • DOI: 10.1128/genomeA.00838-13
  • year: 2013

Reference

@idauthorstitledoi/urlcataloguejournalpubmed
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
46018Curators of the CCUGhttps://www.ccug.se/strain?id=13902Culture Collection University of Gothenburg (CCUG) (CCUG 13902)
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
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar SchomburgBRENDA, the ELIXIR core data resource in 2021: new developments and updates10.1093/nar/gkaa1025Nucleic Acids Res. 49: D498-D508 202033211880
68369Automatically annotated from API 20NE
68382Automatically annotated from API zym
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
98150Reimer, 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-ID6572.1