Strain identifier

BacDive ID: 138208

Type strain: Yes

Species: Haemophilus ducreyi

Strain Designation: X2, 379

Strain history: CIP <- 1954, P. Kirsche, Inst. Pasteur, Hanoi, Vietnam: strain X2 <- H.K. Killian: strain 379

NCBI tax ID(s): 730 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 39281

BacDive-ID: 138208

DSM-Number: 8925

keywords: genome sequence, Bacteria, microaerophile, mesophilic, Gram-negative, rod-shaped

description: Haemophilus ducreyi X2 is a microaerophile, mesophilic, Gram-negative bacterium of the family Pasteurellaceae.

NCBI tax id

  • NCBI tax id: 730
  • Matching level: species

strain history

  • @ref: 39281
  • history: CIP <- 1954, P. Kirsche, Inst. Pasteur, Hanoi, Vietnam: strain X2 <- H.K. Killian: strain 379

doi: 10.13145/bacdive138208.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Pasteurellales
  • family: Pasteurellaceae
  • genus: Haemophilus
  • species: Haemophilus ducreyi
  • full scientific name: Haemophilus ducreyi (Neveu-Lemaire 1921) Bergey et al. 1923 (Approved Lists 1980)
  • synonyms

    • @ref: 20215
    • synonym: Coccobacillus ducreyi

@ref: 39281

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pasteurellales

family: Pasteurellaceae

genus: Haemophilus

species: Haemophilus ducreyi

strain designation: X2, 379

type strain: yes

Morphology

cell morphology

  • @ref: 39281
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: no

colony morphology

@refincubation period
447492 days
39281

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
39281MEDIUM 10 - Chocolate medium for Actinobacillus pleuropneumoniae, Capnocytophaga cynodegmi, Haemophilus and NeisseriayesDistilled water make up to (1000.000 ml);Columbia agar (39.000 g);Horseblood (100.000 ml);PolyVitex mischung (10.000 ml)
39281CIP Medium 10yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=10

culture temp

@refgrowthtypetemperaturerange
39281positivegrowth30mesophilic
44749positivegrowth33mesophilic
39281positivegrowth25-30mesophilic
39281nogrowth37mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 44749
  • oxygen tolerance: microaerophile

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
392814853esculin-hydrolysis
39281606565hippurate-hydrolysis
3928117632nitrate+reduction
3928116301nitrite-reduction
6837717634D-glucose-builds acid from
6837715824D-fructose-builds acid from
6837717306maltose-builds acid from
6837717992sucrose-builds acid from
6837718257ornithine-degradation
6837716199urea-hydrolysis
6837727897tryptophan-energy source

metabolite production

@refChebi-IDmetaboliteproduction
6837735581indoleno
3928135581indoleno

metabolite tests

  • @ref: 68377
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
68377tryptophan deaminase-4.1.99.1
68377gamma-glutamyltransferase-2.3.2.2
68377proline-arylamidase-3.4.11.5
68377beta-galactosidase-3.2.1.23
68377alkaline phosphatase+3.1.3.1
68377lipase-
68377urease-3.5.1.5
68377ornithine decarboxylase-4.1.1.17
68377beta-lactamase-3.5.2.6
39281oxidase+
39281beta-galactosidase-3.2.1.23
39281alcohol dehydrogenase-1.1.1.1
39281catalase+1.11.1.6
39281gamma-glutamyltransferase-2.3.2.2
39281lysine decarboxylase-4.1.1.18
39281ornithine decarboxylase-4.1.1.17
39281urease-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

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    44749C12:00.412
    44749C14:018.814
    44749C16:023.816
    44749C18:04.718
    44749C12:0 ALDE ?1.810.915
    44749C13:0 ISO 2OH0.313.814
    44749C14:0 3OH/C16:1 ISO I6.215.485
    44749C16:1 ω7c22.715.819
    44749C18:1 ω9c9.917.769
    44749C18:2 ω6,9c/C18:0 ANTE10.917.724
    44749unknown 14.5030.614.503
  • 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
39281-+---+----++--------

API NH

@refPENGLUFRUMALSACODCURELIPPALbeta GALProAGGTIND
44749--------+----

Isolation, sampling and environmental information

isolation

@refgeographic locationcountryorigin.countrycontinentsample typesampling dateisolation date
39281HanoiVietnamVNMAsia
44749HanoïVietnamVNMAsiaHuman chancroid1954
39281HanoiVietnamVNMAsiaHuman, Chancroid1954

isolation source categories

Cat1Cat2
#Host#Human
#Infection#Disease
#Infection#Patient

Safety information

risk assessment

  • @ref: 39281
  • biosafety level: 2
  • biosafety level comment: Risk group (French classification)

Sequence information

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792[Haemophilus] ducreyi CIP 54.2GCA_001043455chromosomencbi730
66792[Haemophilus] ducreyi CCUG 4438GCA_002015155scaffoldncbi730
66792[Haemophilus] ducreyi ATCC 33940GCA_900109315contigncbi730
66792[Haemophilus] ducreyi strain ATCC 33940730.36wgspatric730
66792[Haemophilus] ducreyi strain CCUG 4438730.53wgspatric730
66792Haemophilus ducreyi ATCC 339402597490374draftimg730

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno90.367no
flagellatedno97.638no
gram-positiveno98.95no
anaerobicno93.884no
aerobicno97.203no
halophileyes56.245no
spore-formingno98.689no
thermophileno97.075yes
glucose-utilno64.25no
glucose-fermentno56.033no

External links

@ref: 39281

culture collection no.: CIP 54.2, ATCC 33940, CCUG 4438, DSM 8925, NCTC 10945, CIP 542

straininfo link

  • @ref: 94981
  • straininfo: 46305

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Cultivation1625315Cytopathic effect of Haemophilus ducreyi for human foreskin cell culture.Alfa MJJ Med Microbiol10.1099/00222615-37-1-431992Bacterial Adhesion, Carcinoma, Cell Line, Culture Media, Fibroblasts/*microbiology, Haemophilus ducreyi/growth & development/*pathogenicity/ultrastructure, Haemophilus influenzae/growth & development/physiology, Humans, Lung Neoplasms, Male, Microscopy, Electron, Penis/cytology, Skin/cytology, Tumor Cells, CulturedPathogenicity
Pathogenicity3517183Use of dot-immunobinding and immunofluorescence assays to investigate clinically suspected cases of chancroid.Schalla WO, Sanders LL, Schmid GP, Tam MR, Morse SAJ Infect Dis10.1093/infdis/153.5.8791986Antibodies, Bacterial/*analysis, Antibodies, Monoclonal, Bacterial Outer Membrane Proteins/immunology, Chancroid/*diagnosis/epidemiology/microbiology, Disease Outbreaks, Female, Fluorescent Antibody Technique, Haemophilus/immunology, Haemophilus ducreyi/*immunology/isolation & purification, Haemophilus influenzae/immunology, Humans, Immunoenzyme Techniques, Immunoglobulin G/analysis, Immunoglobulin M/analysis, MaleEnzymology
Pathogenicity7817258Characterization of the cytopathic effect of Haemophilus ducreyi.Hollyer TT, DeGagne PA, Alfa MJSex Transm Dis10.1097/00007435-199409000-000021994Bacterial Adhesion, Biological Assay, Cell Line, Cells, Cultured, Evaluation Studies as Topic, Exotoxins/*metabolism, Fibroblasts/*microbiology, Haemophilus ducreyi/classification/*pathogenicity/physiology, Humans, Indicators and Reagents, Male, Penis/cytology, Serotyping, Tetrazolium SaltsMetabolism
Pathogenicity8440935In vitro model of Haemophilus ducreyi adherence to and entry into eukaryotic cells of genital origin.Lammel CJ, Dekker NP, Palefsky J, Brooks GFJ Infect Dis10.1093/infdis/167.3.6421993Adenocarcinoma/microbiology, Bacterial Adhesion/*physiology, Cell Line, Chancroid/*microbiology, Endometrial Neoplasms/microbiology, Escherichia coli/pathogenicity, Female, Haemophilus ducreyi/*pathogenicity/ultrastructure, HeLa Cells, Humans, Male, Microscopy, Electron, Scanning, Models, Biological, Time Factors, Tumor Cells, Cultured, Virulence
Enzymology8828227Organization of the Haemophilus ducreyi 35000 chromosome.Hobbs MM, Leonardi MJ, Zaretzky FR, Wang TH, Kawula THMicrobiology (Reading)10.1099/00221287-142-9-25871996Blotting, Southern, *Chromosome Mapping, Cloning, Molecular, Electrophoresis, Gel, Pulsed-Field, Genome, Haemophilus ducreyi/*genetics, Haemophilus influenzae/genetics, Operon, Polymorphism, Restriction Fragment LengthGenetics
9234768Structurally defined epitopes of Haemophilus ducreyi lipooligosaccharides recognized by monoclonal antibodies.Ahmed HJ, Frisk A, Mansson JE, Schweda EK, Lagergard TInfect Immun10.1128/iai.65.8.3151-3158.19971997Animals, Antibodies, Monoclonal/*immunology, Enzyme-Linked Immunosorbent Assay, *Epitopes, Haemophilus ducreyi/*immunology, Immune Sera/immunology, Immunoblotting, Lipopolysaccharides/*immunology, Neuraminidase/pharmacology, Rabbits
Pathogenicity9756778Haemophilus ducreyi is susceptible to protegrin.Fortney K, Totten PA, Lehrer RI, Spinola SMAntimicrob Agents Chemother10.1128/AAC.42.10.26901998Anti-Bacterial Agents, Anti-Infective Agents/*pharmacology, Antimicrobial Cationic Peptides, Diffusion, Dose-Response Relationship, Drug, Haemophilus ducreyi/*drug effects, Humans, Microbial Sensitivity Tests, Proteins/*pharmacology
Pathogenicity11339253The effect of temperature on the interaction of Haemophilus ducreyi with human epithelial cells.Makakole SC, Sturm AWJ Med Microbiol10.1099/0022-1317-50-5-4492001*Bacterial Adhesion, Cell Line, Haemophilus ducreyi/cytology/*physiology/ultrastructure, Humans, Keratinocytes/cytology/*microbiology/ultrastructure, Kinetics, Microscopy, Electron, Species Specificity, Temperature, Time FactorsEnzymology
Metabolism11517937Neutrophil degranulation induced by Haemophilus ducreyi.Odhav B, Hoosen A, Sturm WBiol Chem10.1515/BC.2001.1002001Cathepsin D/analysis/metabolism, Coculture Techniques, Cytoplasmic Granules/enzymology/metabolism/*pathology, Haemophilus ducreyi/*pathogenicity, HeLa Cells, Humans, Microscopy, Confocal, Microscopy, Electron, Muramidase/analysis/metabolism, Necrosis, Neutrophils/*microbiology/pathology/ultrastructure, Peroxidase/analysis/metabolismPathogenicity
Pathogenicity15784585Haemophilus ducreyi Outer membrane determinants, including DsrA, define two clonal populations.White CD, Leduc I, Olsen B, Jeter C, Harris C, Elkins CInfect Immun10.1128/IAI.73.4.2387-2399.20052005Amino Acid Sequence, Bacterial Outer Membrane Proteins/chemistry/genetics/*physiology, Blood Bactericidal Activity, Haemophilus ducreyi/classification/*immunology, Humans, Lipopolysaccharides/analysis, Molecular Sequence DataGenetics
Metabolism16552053Immunization with the Haemophilus ducreyi hemoglobin receptor HgbA protects against infection in the swine model of chancroid.Afonina G, Leduc I, Nepluev I, Jeter C, Routh P, Almond G, Orndorff PE, Hobbs M, Elkins CInfect Immun10.1128/IAI.74.4.2224-2232.20062006Animals, Antibodies, Bacterial/biosynthesis/blood/metabolism, Bacterial Proteins/administration & dosage/*immunology, Binding Sites, Antibody, Carrier Proteins/administration & dosage/*immunology, Chancroid/immunology/microbiology/pathology/*prevention & control, Disease Models, Animal, Haemophilus Vaccines/administration & dosage/*immunology, Haemophilus ducreyi/*immunology, Hemoglobins/*metabolism, Immunoglobulin G/metabolism/physiology, Protein Binding/immunology, *Swine

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
39281Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%2054.2Collection of Institut Pasteur (CIP 54.2)
44749Curators of the CCUGhttps://www.ccug.se/strain?id=4438Culture Collection University of Gothenburg (CCUG) (CCUG 4438)
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
68377Automatically annotated from API NH
68382Automatically annotated from API zym
94981Reimer, 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-ID46305.1