Strain identifier

BacDive ID: 134450

Type strain: No

Species: Helicobacter hepaticus

Strain Designation: 3B1/Hh1

Strain history: CIP <- 1994, J.G. Fox, Inst. of Technol., Cambridge, Massachusetts, USA: strain 3B1/Hh1 <- J.G. Tully, Frederik, Maryland, USA

NCBI tax ID(s): 235279 (strain), 32025 (species)

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General

@ref: 32776

BacDive-ID: 134450

keywords: genome sequence, Bacteria, microaerophile, mesophilic, motile

description: Helicobacter hepaticus 3B1/Hh1 is a microaerophile, mesophilic, motile bacterium of the family Helicobacteraceae.

NCBI tax id

NCBI tax idMatching level
235279strain
32025species

strain history

  • @ref: 32776
  • history: CIP <- 1994, J.G. Fox, Inst. of Technol., Cambridge, Massachusetts, USA: strain 3B1/Hh1 <- J.G. Tully, Frederik, Maryland, USA

doi: 10.13145/bacdive134450.20230509.8.1

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 hepaticus
  • full scientific name: Helicobacter hepaticus Fox et al. 1994

  • synonyms

    • @ref: 20215
    • synonym: Helicobacter hepaticus

@ref: 32776

domain: Bacteria

phylum: Proteobacteria

class: Epsilonproteobacteria

order: Campylobacterales

family: Helicobacteraceae

genus: Helicobacter

species: Helicobacter hepaticus

strain designation: 3B1/Hh1

type strain: no

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes91.943
6948099.998negative
32776yesnegativerod-shaped

colony morphology

  • @ref: 32776

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
32776MEDIUM 6 - Columbia agar with 10 % horse bloodyesDistilled water make up to (1000.000 ml);Columbia agar (39.000 g);Horseblood (100.000 ml)
32776Brucella brothyes
32776CIP Medium 45yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=45
32776CIP Medium 6yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=6

culture temp

@refgrowthtypetemperaturerange
32776positivegrowth37mesophilic
32776nogrowth5psychrophilic
32776nogrowth10psychrophilic
32776nogrowth25mesophilic
32776nogrowth30mesophilic
32776nogrowth41thermophilic
32776nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 32776
  • oxygen tolerance: microaerophile

spore formation

@refspore formationconfidence
69481no100
69480no99.994

halophily

  • @ref: 32776
  • salt: NaCl
  • growth: no
  • tested relation: growth
  • concentration: 3.5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3277617632nitrate+reduction
3277616301nitrite-reduction

antibiotic resistance

  • @ref: 32776
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

  • @ref: 32776
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
32776oxidase+
32776gelatinase-
32776DNase-
32776catalase+1.11.1.6
32776gamma-glutamyltransferase-2.3.2.2
32776urease+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
32776-+++------++---+----

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
32776---------------------------------------------------------------------------------------------------

Isolation, sampling and environmental information

isolation

@refgeographic locationcountryorigin.countrycontinentsample typesampling date
32776Frederik, MDUSAUSANorth America
56478FrederikUSAUSANorth AmericaMouse liver1993
32776Frederik, MarylandUnited States of AmericaUSANorth AmericaAnimal, Mouse, liver

isolation source categories

Cat1Cat2Cat3
#Host Body-Site#Organ#Liver
#Host#Mammals#Muridae (Mouse/Rat)

Safety information

risk assessment

  • @ref: 32776
  • biosafety level: 2
  • biosafety level comment: Risk group (French classification)

Sequence information

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Helicobacter hepaticus ATCC 51449GCA_000007905completencbi235279
66792Helicobacter hepaticus ATCC 51449235279.5completepatric235279
66792Helicobacter hepaticus 3B1, ATCC 51449637000131completeimg235279

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes89.867no
flagellatedyes54.865no
gram-positiveno99.141no
anaerobicno57.643no
halophileno88.73no
spore-formingno96.636no
thermophileno74.64yes
glucose-utilno86.232no
aerobicno97.537no
glucose-fermentno86.031no

External links

@ref: 32776

culture collection no.: CIP 104102, ATCC 51449, CCUG 44777

straininfo link

  • @ref: 91974
  • straininfo: 11955

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Genetics12810954The complete genome sequence of the carcinogenic bacterium Helicobacter hepaticus.Suerbaum S, Josenhans C, Sterzenbach T, Drescher B, Brandt P, Bell M, Droge M, Fartmann B, Fischer HP, Ge Z, Horster A, Holland R, Klein K, Konig J, Macko L, Mendz GL, Nyakatura G, Schauer DB, Shen Z, Weber J, Frosch M, Fox JGProc Natl Acad Sci U S A10.1073/pnas.13320931002003Cell Movement, Chemotaxis, *Genome, Bacterial, Helicobacter/*genetics/pathogenicity, Models, Genetic, Molecular Sequence Data, Oligonucleotide Array Sequence Analysis, Open Reading Frames, Sequence Analysis, DNA, Species Specificity, Transcription, Genetic, Virulence FactorsTranscriptome
Genetics16299349Different Helicobacter hepaticus strains with variable genomic content induce various degrees of hepatitis.Boutin SR, Shen Z, Rogers AB, Feng Y, Ge Z, Xu S, Sterzenbach T, Josenhans C, Schauer DB, Suerbaum S, Fox JGInfect Immun10.1128/IAI.73.12.8449-8452.20052005Animals, Female, *Genome, Bacterial, Genomic Islands/*genetics, Helicobacter hepaticus/*genetics/*pathogenicity, Hepatitis/*microbiology/pathology, Liver/microbiology/pathology, Male, Mice, Mice, Inbred Strains
Enzymology16339943Differential regulation of urease activity in Helicobacter hepaticus and Helicobacter pylori.Belzer C, Stoof J, Beckwith CS, Kuipers EJ, Kusters JG, van Vliet AHMMicrobiology (Reading)10.1099/mic.0.28188-02005*Gene Expression Regulation, Bacterial, *Gene Expression Regulation, Enzymologic, Helicobacter hepaticus/*enzymology/genetics/growth & development, Helicobacter pylori/*enzymology/genetics/growth & development, Nickel/*pharmacology, Urease/genetics/*metabolismMetabolism
Metabolism17101656Iron-responsive repression of urease expression in Helicobacter hepaticus is mediated by the transcriptional regulator Fur.Belzer C, van Schendel BA, Kuipers EJ, Kusters JG, van Vliet AHInfect Immun10.1128/IAI.01163-062006Bacterial Proteins/genetics/metabolism/*physiology, Binding Sites, DNA Footprinting, DNA, Bacterial/metabolism, Electrophoretic Mobility Shift Assay, Gene Deletion, *Gene Expression Regulation, Bacterial, Helicobacter hepaticus/*enzymology/genetics, Iron/*metabolism, Mutagenesis, Insertional, Promoter Regions, Genetic, Protein Binding, RNA, Bacterial/biosynthesis, RNA, Messenger/biosynthesis, Recombinant Proteins/genetics/metabolism, Repressor Proteins/genetics/metabolism/*physiology, Transcription Factors/genetics, Transcription Initiation Site, Urease/*biosynthesis/geneticsEnzymology
Enzymology17923370The NADPH quinone reductase MdaB confers oxidative stress resistance to Helicobacter hepaticus.Hong Y, Wang G, Maier RJMicrob Pathog10.1016/j.micpath.2006.08.0052007Anti-Bacterial Agents/pharmacology, Bacterial Proteins/genetics/*metabolism, Benzene Derivatives/pharmacology, Gene Deletion, Helicobacter hepaticus/drug effects/*enzymology/*physiology, Helicobacter pylori/enzymology, Hydrogen Peroxide/pharmacology, Kinetics, Mutagenesis, Insertional, NAD(P)H Dehydrogenase (Quinone)/genetics/isolation & purification/*metabolism, NADP/metabolism, *Oxidative Stress, Oxygen/pharmacology, Paraquat/pharmacology, Proteome/analysis, Superoxide Dismutase/metabolism, tert-Butylhydroperoxide/pharmacologyMetabolism
Enzymology19726364[Cloning and bioinformatics analysis of recombinant methyl-accepting chemotaxis signal transduction protein of Helicobacter hepaticus].Niu LY, Bai Y, Guo Z, Xia GS, Li J, Qin HP, Wang JDNan Fang Yi Ke Da Xue Xue Bao2009Bacterial Proteins/genetics/*metabolism, Cloning, Molecular, Computational Biology/methods, Genetic Vectors/genetics, Helicobacter hepaticus/*genetics/isolation & purification/metabolism, Membrane Proteins/genetics/*metabolism, Methyl-Accepting Chemotaxis Proteins, Recombinant Fusion Proteins/genetics/metabolism, Signal TransductionMetabolism
21426337Lactobacillus reuteri promotes Helicobacter hepaticus-associated typhlocolitis in gnotobiotic B6.129P2-IL-10(tm1Cgn) (IL-10(-/-) ) mice.Whary MT, Taylor NS, Feng Y, Ge Z, Muthupalani S, Versalovic J, Fox JGImmunology10.1111/j.1365-2567.2011.03423.x2011Adaptive Immunity, Animals, B-Lymphocytes/immunology, Enzyme-Linked Immunosorbent Assay, *Germ-Free Life, Helicobacter Infections/*microbiology, Helicobacter hepaticus/*pathogenicity, Immunity, Innate, Immunoglobulin A/blood, Immunoglobulin G/blood, Immunohistochemistry, Inflammatory Bowel Diseases/*etiology/immunology/*microbiology, Interleukin-10/*genetics, Lactobacillus reuteri/*physiology, Mice, Mice, Knockout, Polymerase Chain Reaction

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
32776Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104102Collection of Institut Pasteur (CIP 104102)
56478Curators of the CCUGhttps://www.ccug.se/strain?id=44777Culture Collection University of Gothenburg (CCUG) (CCUG 44777)
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
91974Reimer, 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-ID11955.1