Strain identifier
BacDive ID: 2138
Type strain:
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)
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
@ref | history |
---|---|
15877 | <- CCUG <- S. L. W. On, Danish Vet. Lab., Copenhagen, Denmark |
119939 | CIP <- 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
@ref | gram stain | cell length | cell width | cell shape | motility |
---|---|---|---|---|---|
23069 | negative | 0.5-1.8 µm | 0.25-0.5 µm | rod-shaped | no |
119939 | negative | rod-shaped | no |
colony morphology
@ref | incubation period | type of hemolysis | colony size | colony color |
---|---|---|---|---|
15877 | 2-3 days | |||
23069 | gamma | 1.0 mm | grey | |
56673 | >3 days | |||
119939 |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
15877 | COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) | yes | https://mediadive.dsmz.de/medium/693 | Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base |
15877 | CHOPPED MEAT MEDIUM (DSMZ Medium 78) | yes | https://mediadive.dsmz.de/medium/78 | Name: 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 |
23069 | FAA medium | yes | a rich medium which contains vitamin K, haemin, cysteine hydrochloride and l -arginine | |
40714 | MEDIUM 6 - Columbia agar with 10 % horse blood | yes | Distilled water make up to (1000.000 ml);Columbia agar (39.000 g);Horseblood (100.000 ml) | |
119939 | Brucella broth | no | ||
119939 | CIP Medium 45 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=45 | |
119939 | CIP Medium 6 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=6 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
15877 | positive | growth | 37 | mesophilic |
23069 | no | growth | 18.0-22.0 | psychrophilic |
23069 | no | growth | 25.0 | mesophilic |
23069 | no | growth | 42.0 | thermophilic |
23069 | positive | optimum | 37.0 | mesophilic |
40714 | positive | growth | 37 | mesophilic |
56673 | positive | growth | 37 | mesophilic |
119939 | positive | growth | 37 | mesophilic |
119939 | no | growth | 5 | psychrophilic |
119939 | no | growth | 10 | psychrophilic |
119939 | no | growth | 25 | mesophilic |
119939 | no | growth | 30 | mesophilic |
119939 | no | growth | 41 | thermophilic |
119939 | no | growth | 45 | thermophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
15877 | anaerobe |
56673 | obligate anaerobe |
119939 | anaerobe |
spore formation
- @ref: 23069
- spore formation: no
halophily
- @ref: 119939
- salt: NaCl
- growth: no
- tested relation: growth
- concentration: 3.5 %
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
23069 | 16411 | 1h-indol-3-ylacetic acid | - | hydrolysis |
23069 | 18212 | selenite | - | reduction |
23069 | 78019 | triphenyltetrazolium chloride | - | reduction |
119939 | 17632 | nitrate | + | reduction |
119939 | 16301 | nitrite | - | reduction |
68373 | 16199 | urea | - | hydrolysis |
68373 | 17632 | nitrate | - | reduction |
68373 | 606565 | hippurate | - | hydrolysis |
68373 | 78019 | triphenyltetrazolium chloride | - | reduction |
68373 | 17634 | D-glucose | + | assimilation |
68373 | 30031 | succinate | + | assimilation |
68373 | 30089 | acetate | - | assimilation |
68373 | 17272 | propionate | - | assimilation |
68373 | 25115 | malate | - | assimilation |
68373 | 16947 | citrate | - | assimilation |
antibiotic resistance
@ref | ChEBI | metabolite | is antibiotic | is sensitive | sensitivity conc. |
---|---|---|---|---|---|
68373 | 48923 | erythromycin | yes | yes | 14 µg |
68373 | 474053 | cefazolin | yes | yes | 224 µg |
68373 | 100147 | nalidixic acid | yes | yes | 84 µg |
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
23069 | 16136 | hydrogen sulfide | no |
68373 | 16136 | hydrogen sulfide | no |
119939 | 35581 | indole | no |
enzymes
@ref | value | activity | ec |
---|---|---|---|
15877 | catalase | - | 1.11.1.6 |
23069 | alkaline phosphatase | - | 3.1.3.1 |
23069 | catalase | - | 1.11.1.6 |
23069 | cytochrome oxidase | + | 1.9.3.1 |
23069 | hippurate hydrolase | - | 3.5.1.32 |
23069 | urease | - | 3.5.1.5 |
68382 | alpha-fucosidase | - | 3.2.1.51 |
68382 | alpha-mannosidase | - | 3.2.1.24 |
68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68382 | beta-glucosidase | - | 3.2.1.21 |
68382 | alpha-glucosidase | - | 3.2.1.20 |
68382 | beta-glucuronidase | - | 3.2.1.31 |
68382 | beta-galactosidase | - | 3.2.1.23 |
68382 | alpha-galactosidase | - | 3.2.1.22 |
68382 | naphthol-AS-BI-phosphohydrolase | + | |
68382 | acid phosphatase | - | 3.1.3.2 |
68382 | alpha-chymotrypsin | - | 3.4.21.1 |
68382 | trypsin | + | 3.4.21.4 |
68382 | cystine arylamidase | + | 3.4.11.3 |
68382 | valine arylamidase | - | |
68382 | leucine arylamidase | - | 3.4.11.1 |
68382 | lipase (C 14) | - | |
68382 | esterase lipase (C 8) | + | |
68382 | esterase (C 4) | - | |
68382 | alkaline phosphatase | + | 3.1.3.1 |
68373 | alkaline phosphatase | - | 3.1.3.1 |
68373 | L-aspartate arylamidase | - | 3.4.11.21 |
68373 | L-arginine arylamidase | - | |
68373 | pyrrolidonyl arylamidase | - | 3.4.19.3 |
68373 | gamma-glutamyltransferase | - | 2.3.2.2 |
68373 | esterase | - | |
68373 | urease | - | 3.5.1.5 |
119939 | oxidase | + | |
119939 | gelatinase | - | |
119939 | catalase | - | 1.11.1.6 |
119939 | gamma-glutamyltransferase | + | 2.3.2.2 |
119939 | urease | - | 3.5.1.5 |
API zym
@ref | Control | Alkaline phosphatase | Esterase | Esterase Lipase | Lipase | Leucine arylamidase | Valine arylamidase | Cystine arylamidase | Trypsin | alpha- Chymotrypsin | Acid phosphatase | Naphthol-AS-BI-phosphohydrolase | alpha- Galactosidase | beta- Galactosidase | beta- Glucuronidase | alpha- Glucosidase | beta- Glucosidase | N-acetyl-beta- glucosaminidase | alpha- Mannosidase | alpha- Fucosidase |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
119939 | - | + | - | + | - | - | - | + | + | - | - | + | - | - | - | - | - | - | - | - |
API CAM
@ref | URE | NIT | EST | HIP | GGT | TTC | PYRA | ArgA | AspA | PAL | H2S | GLU | SUT | NAL | CFZ | ACE | PROP | MLT | CIT | ERO |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
15877 | - | - | - | - | - | - | - | - | - | - | - | + | + | - | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | enrichment culture | enrichment culture duration | enrichment culture temperature | isolation procedure | isolation date |
---|---|---|---|---|---|---|---|---|---|---|
23069 | faeces (healthy adult human male) | London | United Kingdom | GBR | Europe | modified charcoal cefoperazone deoxycholate agar (CCDA; Oxoid) | 21 days | 37.0 | membrane filter method | |
56673 | Human feces | London | United Kingdom | GBR | Europe | |||||
15877 | faeces of a healthy adult human male | London | United Kingdom | GBR | Europe | |||||
119939 | Human, Feces | London | United Kingdom | GBR | Europe | 2001 |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#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
@ref | biosafety level | biosafety level comment |
---|---|---|
15877 | 1 | Risk group (German classification) |
119939 | 2 | Risk group (French classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Campylobacter hominis strain NCTC 13146 16S ribosomal RNA (rrs) gene, partial sequence | DQ174182 | 1339 | ena | 76517 |
15877 | Campylobacter hominis partial 16S rRNA gene, strain NCTC 13146 | AJ251584 | 1414 | ena | 76517 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Campylobacter hominis NCTC13146 | GCA_900446395 | contig | ncbi | 76517 |
66792 | Campylobacter hominis strain FDAARGOS_1467 | 76517.51 | complete | patric | 76517 |
66792 | Campylobacter hominis strain NCTC13146 | 76517.4 | wgs | patric | 76517 |
66792 | Campylobacter hominis NCTC 13146 | 2808606638 | draft | img | 76517 |
66792 | Campylobacter hominis strain FDAARGOS_1467 | 76517.53 | complete | patric | 76517 |
66792 | Campylobacter hominis strain FDAARGOS_1467 | 76517.54 | complete | patric | 76517 |
66792 | Campylobacter hominis strain FDAARGOS_1467 | 76517.52 | complete | patric | 76517 |
GC content
- @ref: 23069
- GC-content: 32.5
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
motile | no | 84.342 | no |
flagellated | no | 91.579 | no |
gram-positive | no | 98.151 | yes |
anaerobic | yes | 88.758 | yes |
halophile | no | 79.18 | no |
spore-forming | no | 97.198 | no |
glucose-util | no | 84.945 | yes |
aerobic | no | 98.842 | no |
thermophile | no | 76.092 | no |
glucose-ferment | no | 85.782 | no |
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
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
15877 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21671) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-21671 | |||
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
23069 | A. J. Lawson,S. L. On,J. M. Logan,J. Stanley | 10.1099/00207713-51-2-651 | Campylobacter hominis sp. nov., from the human gastrointestinal tract. | IJSEM 51: 651-660 2001 | 11321111 | |
40714 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/5144 | ||||
56673 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 45161) | https://www.ccug.se/strain?id=45161 | |||
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
68373 | Automatically annotated from API CAM | |||||
68382 | Automatically annotated from API zym | |||||
69479 | João 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 | |||
71766 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID13248.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
119939 | Curators of the CIP | Collection of Institut Pasteur (CIP 107682) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107682 |