Strain identifier

BacDive ID: 136860

Type strain: Yes

Species: Helicobacter cholecystus

Strain Designation: Hkb-1

Strain history: CIP <- 1998, C. Franklin, Univ. Missouri, Columbia, USA: strain Hkb-1

NCBI tax ID(s): 45498 (species)

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General

@ref: 36560

BacDive-ID: 136860

keywords: genome sequence, Bacteria, mesophilic, motile

description: Helicobacter cholecystus Hkb-1 is a mesophilic, motile bacterium of the family Helicobacteraceae.

NCBI tax id

  • NCBI tax id: 45498
  • Matching level: species

strain history

  • @ref: 36560
  • history: CIP <- 1998, C. Franklin, Univ. Missouri, Columbia, USA: strain Hkb-1

doi: 10.13145/bacdive136860.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Epsilonproteobacteria
  • order: Campylobacterales
  • family: Helicobacteraceae
  • genus: Helicobacter
  • species: Helicobacter cholecystus
  • full scientific name: Helicobacter cholecystus Franklin et al. 1997

@ref: 36560

domain: Bacteria

phylum: Proteobacteria

class: Epsilonproteobacteria

order: Campylobacterales

family: Helicobacteraceae

genus: Helicobacter

species: Helicobacter cholecystus

strain designation: Hkb-1

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes94.726
6948099.998negative
36560yesnegativerod-shaped

colony morphology

  • @ref: 36560

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
36560MEDIUM 45 - for Columbia agar with sheep bloodyesDistilled water make up to (1000.000 ml);Columbia agar (39.000 g);Sheepblood (100.000 ml)
36560Brucella brothyes
36560CIP Medium 45yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=45

culture temp

@refgrowthtypetemperaturerange
36560positivegrowth37mesophilic
36560positivegrowth30-41
36560nogrowth25mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481no93
69480no99.997

halophily

  • @ref: 36560
  • salt: NaCl
  • growth: no
  • tested relation: growth
  • concentration: 3.5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
36560606565hippurate-hydrolysis
3656017632nitrate+reduction
3656016301nitrite-reduction

metabolite production

  • @ref: 36560
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
36560oxidase+
36560gelatinase-
36560catalase+1.11.1.6
36560urease-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
36560-+++------++---+----

Isolation, sampling and environmental information

isolation

@refgeographic locationcountryorigin.countrycontinentsample typeisolation date
36560Columbia, MOUSAUSANorth America
36560Columbia, MissouriUnited States of AmericaUSANorth AmericaAnimal, Hamster, gallbladder1989

Safety information

risk assessment

  • @ref: 36560
  • biosafety level: 2
  • biosafety level comment: Risk group (French classification)

Sequence information

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Helicobacter cholecystus ATCC 700242GCA_003364215contigncbi45498
66792Helicobacter cholecystus strain ATCC 70024245498.7wgspatric45498
66792Helicobacter cholecystus ATCC 7002422916544903draftimg45498

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno93no
gram-positiveno99.241no
anaerobicno80.773no
halophileno78.627no
spore-formingno96.944no
glucose-utilno76.28no
aerobicno98.611no
flagellatedno51.461no
thermophileno76.951yes
motileyes86.467no
glucose-fermentno82.072no

External links

@ref: 36560

culture collection no.: CIP 105596, ATCC 700242

straininfo link

  • @ref: 93890
  • straininfo: 43841

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
36560Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20105596Collection of Institut Pasteur (CIP 105596)
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
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
93890Reimer, 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-ID43841.1