Strain identifier

BacDive ID: 2138

Type strain: Yes

Species: Campylobacter hominis

Strain Designation: CH001A

Strain history: CIP <- 2008, DSMZ <- CCUG <- S.L.W. On, Danish Vet. Lab., Copenhagen, Denmark

NCBI tax ID(s): 76517 (species)

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

@ref: 15877

BacDive-ID: 2138

DSM-Number: 21671

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, Gram-negative, rod-shaped

description: Campylobacter hominis CH001A is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from faeces .

NCBI tax id

  • NCBI tax id: 76517
  • Matching level: species

strain history

@refhistory
15877<- CCUG <- S. L. W. On, Danish Vet. Lab., Copenhagen, Denmark
119939CIP <- 2008, DSMZ <- CCUG <- S.L.W. On, Danish Vet. Lab., Copenhagen, Denmark

doi: 10.13145/bacdive2138.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Epsilonproteobacteria
  • order: Campylobacterales
  • family: Campylobacteraceae
  • genus: Campylobacter
  • species: Campylobacter hominis
  • full scientific name: Campylobacter hominis Lawson et al. 2001
  • synonyms

    • @ref: 20215
    • synonym: Campylobacter hominis

@ref: 15877

domain: Bacteria

phylum: Proteobacteria

class: Epsilonproteobacteria

order: Campylobacterales

family: Campylobacteraceae

genus: Campylobacter

species: Campylobacter hominis

full scientific name: Campylobacter hominis Lawson et al. 2001

strain designation: CH001A

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotility
23069negative0.5-1.8 µm0.25-0.5 µmrod-shapedno
119939negativerod-shapedno

colony morphology

@refincubation periodtype of hemolysiscolony sizecolony color
158772-3 days
23069gamma1.0 mmgrey
56673>3 days
119939

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
15877COLUMBIA 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
15877CHOPPED MEAT MEDIUM (DSMZ Medium 78)yeshttps://mediadive.dsmz.de/medium/78Name: CHOPPED MEAT MEDIUM (DSMZ Medium 78) Composition: Ground beef 500.0 g/l Casitone 30.0 g/l Agar 15.0 g/l Ethanol 9.5 g/l (optional) K2HPO4 5.0 g/l Yeast extract 5.0 g/l L-Cysteine HCl 0.5 g/l Haemin 0.005 g/l (optional) Resazurin 0.001 g/l Vitamin K3 0.0005 g/l (optional) Vitamin K1 (optional) NaOH (optional) Distilled water
23069FAA mediumyesa rich medium which contains vitamin K, haemin, cysteine hydrochloride and l -arginine
40714MEDIUM 6 - Columbia agar with 10 % horse bloodyesDistilled water make up to (1000.000 ml);Columbia agar (39.000 g);Horseblood (100.000 ml)
119939Brucella brothno
119939CIP Medium 45yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=45
119939CIP Medium 6yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=6

culture temp

@refgrowthtypetemperaturerange
15877positivegrowth37mesophilic
23069nogrowth18.0-22.0psychrophilic
23069nogrowth25.0mesophilic
23069nogrowth42.0thermophilic
23069positiveoptimum37.0mesophilic
40714positivegrowth37mesophilic
56673positivegrowth37mesophilic
119939positivegrowth37mesophilic
119939nogrowth5psychrophilic
119939nogrowth10psychrophilic
119939nogrowth25mesophilic
119939nogrowth30mesophilic
119939nogrowth41thermophilic
119939nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
15877anaerobe
56673obligate anaerobe
119939anaerobe

spore formation

  • @ref: 23069
  • spore formation: no

halophily

  • @ref: 119939
  • salt: NaCl
  • growth: no
  • tested relation: growth
  • concentration: 3.5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
23069164111h-indol-3-ylacetic acid-hydrolysis
2306918212selenite-reduction
2306978019triphenyltetrazolium chloride-reduction
11993917632nitrate+reduction
11993916301nitrite-reduction
6837316199urea-hydrolysis
6837317632nitrate-reduction
68373606565hippurate-hydrolysis
6837378019triphenyltetrazolium chloride-reduction
6837317634D-glucose+assimilation
6837330031succinate+assimilation
6837330089acetate-assimilation
6837317272propionate-assimilation
6837325115malate-assimilation
6837316947citrate-assimilation

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitivesensitivity conc.
6837348923erythromycinyesyes14 µg
68373474053cefazolinyesyes224 µg
68373100147nalidixic acidyesyes84 µg

metabolite production

@refChebi-IDmetaboliteproduction
2306916136hydrogen sulfideno
6837316136hydrogen sulfideno
11993935581indoleno

enzymes

@refvalueactivityec
15877catalase-1.11.1.6
23069alkaline phosphatase-3.1.3.1
23069catalase-1.11.1.6
23069cytochrome oxidase+1.9.3.1
23069hippurate hydrolase-3.5.1.32
23069urease-3.5.1.5
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase-3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase-3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin+3.4.21.4
68382cystine arylamidase+3.4.11.3
68382valine arylamidase-
68382leucine arylamidase-3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)-
68382alkaline phosphatase+3.1.3.1
68373alkaline phosphatase-3.1.3.1
68373L-aspartate arylamidase-3.4.11.21
68373L-arginine arylamidase-
68373pyrrolidonyl arylamidase-3.4.19.3
68373gamma-glutamyltransferase-2.3.2.2
68373esterase-
68373urease-3.5.1.5
119939oxidase+
119939gelatinase-
119939catalase-1.11.1.6
119939gamma-glutamyltransferase+2.3.2.2
119939urease-3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
119939-+-+---++--+--------

API CAM

@refURENITESTHIPGGTTTCPYRAArgAAspAPALH2SGLUSUTNALCFZACEPROPMLTCITERO
15877-----------++-------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentenrichment cultureenrichment culture durationenrichment culture temperatureisolation procedureisolation date
23069faeces (healthy adult human male)LondonUnited KingdomGBREuropemodified charcoal cefoperazone deoxycholate agar (CCDA; Oxoid)21 days37.0membrane filter method
56673Human fecesLondonUnited KingdomGBREurope
15877faeces of a healthy adult human maleLondonUnited KingdomGBREurope
119939Human, FecesLondonUnited KingdomGBREurope2001

isolation source categories

Cat1Cat2Cat3
#Infection#Patient
#Host#Human
#Host Body Product#Gastrointestinal tract#Feces (Stool)
#Host#Human#Male

taxonmaps

  • @ref: 69479
  • File name: preview.99_5362.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15775;96_2601;97_3185;98_3999;99_5362&stattab=map
  • Last taxonomy: Campylobacter hominis subclade
  • 16S sequence: AJ251584
  • Sequence Identity:
  • Total samples: 43302
  • soil counts: 394
  • aquatic counts: 457
  • animal counts: 42330
  • plant counts: 121

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
158771Risk group (German classification)
1199392Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Campylobacter hominis strain NCTC 13146 16S ribosomal RNA (rrs) gene, partial sequenceDQ1741821339ena76517
15877Campylobacter hominis partial 16S rRNA gene, strain NCTC 13146AJ2515841414ena76517

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Campylobacter hominis NCTC13146GCA_900446395contigncbi76517
66792Campylobacter hominis strain FDAARGOS_146776517.51completepatric76517
66792Campylobacter hominis strain NCTC1314676517.4wgspatric76517
66792Campylobacter hominis NCTC 131462808606638draftimg76517
66792Campylobacter hominis strain FDAARGOS_146776517.53completepatric76517
66792Campylobacter hominis strain FDAARGOS_146776517.54completepatric76517
66792Campylobacter hominis strain FDAARGOS_146776517.52completepatric76517

GC content

  • @ref: 23069
  • GC-content: 32.5

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno84.342no
flagellatedno91.579no
gram-positiveno98.151yes
anaerobicyes88.758yes
halophileno79.18no
spore-formingno97.198no
glucose-utilno84.945yes
aerobicno98.842no
thermophileno76.092no
glucose-fermentno85.782no

External links

@ref: 15877

culture collection no.: DSM 21671, CCUG 45161, CIP 107682, LMG 19568, NCTC 13146

straininfo link

  • @ref: 71766
  • straininfo: 13248

literature

  • topic: Phylogeny
  • Pubmed-ID: 11321111
  • title: Campylobacter hominis sp. nov., from the human gastrointestinal tract.
  • authors: Lawson AJ, On SL, Logan JM, Stanley J
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/00207713-51-2-651
  • year: 2001
  • mesh: Bacterial Typing Techniques, Base Composition, Campylobacter/*classification/isolation & purification, DNA, Ribosomal/genetics, Diarrhea/microbiology, Feces/*microbiology, Humans, Intestines/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Terminology as Topic
  • topic2: Pathogenicity

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
15877Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21671)https://www.dsmz.de/collection/catalogue/details/culture/DSM-21671
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
23069A. J. Lawson,S. L. On,J. M. Logan,J. Stanley10.1099/00207713-51-2-651Campylobacter hominis sp. nov., from the human gastrointestinal tract.IJSEM 51: 651-660 200111321111
40714Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5144
56673Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 45161)https://www.ccug.se/strain?id=45161
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
68373Automatically annotated from API CAM
68382Automatically annotated from API zym
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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
71766Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID13248.1StrainInfo: A central database for resolving microbial strain identifiers
119939Curators of the CIPCollection of Institut Pasteur (CIP 107682)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107682