Strain identifier
BacDive ID: 2133
Type strain:
Species: Campylobacter gracilis
Strain history: ATCC 33236 <-- A. C. R. Tanner FDC 1084.
NCBI tax ID(s): 824 (species)
General
@ref: 8151
BacDive-ID: 2133
DSM-Number: 19528
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, Gram-negative
description: Campylobacter gracilis DSM 19528 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from human gingival sulcus.
NCBI tax id
- NCBI tax id: 824
- Matching level: species
strain history
@ref | history |
---|---|
8151 | <- JCM; JCM 8538 <- ATCC; ATCC 33236 <- A. C. R. Tanner; FDC 1084 (Bacteroides gracilis) |
67770 | ATCC 33236 <-- A. C. R. Tanner FDC 1084. |
doi: 10.13145/bacdive2133.20230509.8.1
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 gracilis
- full scientific name: Campylobacter gracilis (Tanner et al. 1981) Vandamme et al. 1995
synonyms
- @ref: 20215
- synonym: Bacteroides gracilis
@ref: 8151
domain: Bacteria
phylum: Proteobacteria
class: Epsilonproteobacteria
order: Campylobacterales
family: Campylobacteraceae
genus: Campylobacter
species: Campylobacter gracilis
full scientific name: Campylobacter gracilis (Tanner et al. 1981) Vandamme et al. 1995
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.992
colony morphology
- @ref: 8151
- incubation period: 3-7 days
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
8151 | 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 |
8151 | 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 |
8151 | BTU MEDIUM (DSMZ Medium 413) | yes | https://mediadive.dsmz.de/medium/413 | Name: BTU MEDIUM (DSMZ Medium 413) Composition: Ground beef 500.0 g/l Casitone 30.0 g/l Agar 15.0 g/l K2HPO4 5.0 g/l Yeast extract 5.0 g/l Na-formiate 1.8 g/l Na-fumarate 1.8 g/l L-Cysteine HCl 0.5 g/l Ethanol 0.19 g/l Vitamin K3 0.05 g/l Hemin 0.005 g/l Resazurin 0.001 g/l Vitamin K1 NaOH Distilled water |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
8151 | positive | growth | 37 | mesophilic |
48907 | positive | growth | 37 | mesophilic |
67770 | positive | growth | 37 | mesophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
8151 | anaerobe |
48907 | anaerobe |
spore formation
- @ref: 69480
- spore formation: no
- confidence: 99.999
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
68373 | 16199 | urea | - | hydrolysis |
68373 | 606565 | hippurate | - | hydrolysis |
68373 | 17634 | D-glucose | - | assimilation |
68373 | 30031 | succinate | - | assimilation |
68373 | 30089 | acetate | - | assimilation |
68373 | 17272 | propionate | - | 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 |
enzymes
@ref | value | activity | ec |
---|---|---|---|
68373 | catalase | + | 1.11.1.6 |
68373 | alkaline phosphatase | - | 3.1.3.1 |
68373 | L-aspartate arylamidase | + | 3.4.11.21 |
68373 | pyrrolidonyl arylamidase | - | 3.4.19.3 |
68373 | gamma-glutamyltransferase | - | 2.3.2.2 |
68373 | urease | - | 3.5.1.5 |
fatty acid profile
@ref fatty acid percentage ECL 48907 C10:0 0.4 10 48907 C12:0 12.7 12 48907 C13:0 0.2 13 48907 C14:0 15.2 14 48907 C16:0 11.1 16 48907 C18:0 0.3 18 48907 C13:0 3OH/C15:1 i I/H 1 14.469 48907 C13:0 ISO 2OH 0.6 13.814 48907 C13:1 at 12-13 0.2 12.931 48907 C14:0 3OH/C16:1 ISO I 4.6 15.485 48907 C16:0 3OH 2.5 17.52 48907 C16:0 aldehyde 4 14.949 48907 C16:1 ω7c 5.2 15.819 48907 C17:1 ISO I/C16:0 DMA 19.9 16.481 48907 C18:1 ω7c /12t/9t 12.9 17.824 48907 C18:1 ω7c DMA 5.3 18.282 48907 C18:2 ω6,9c/C18:0 ANTE 0.4 17.724 48907 C19:1 ISO I 0.5 18.473 48907 Unidentified 0.2 12.471 48907 Unidentified 0.4 13.933 48907 Unidentified 0.1 14.779 48907 Unidentified 0.2 14.889 48907 Unidentified 0.9 16.286 48907 Unidentified 1.5 16.804 - type of FA analysis: whole cell analysis
- method/protocol: CCUG
@ref fatty acid percentage ECL 48907 C12:0 13.7 12 48907 C14:0 16.6 14 48907 C16:0 12.6 16 48907 C14:0 3OH/C16:1 ISO I 4.8 15.485 48907 C16:0 aldehyde 4.5 14.949 48907 C16:1 ω7c 4.9 15.819 48907 C17:1 ISO I/C16:0 DMA 22.6 16.481 48907 C18:1 ω7c /12t/9t 14.5 17.824 48907 C18:1 ω7c DMA 5.8 18.282 - type of FA analysis: whole cell analysis
- method/protocol: CCUG
API CAM
@ref | URE | NIT | EST | HIP | GGT | TTC | PYRA | ArgA | AspA | PAL | H2S | GLU | SUT | NAL | CFZ | ACE | PROP | MLT | CIT | ERO | CAT |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
8151 | - | - | + | - | - | - | - | - | + | - | + | - | - | - | - | - | - | +/- | - | - | + |
8151 | - | + | - | - | - | + | - | - | + | - | + | - | - | - | - | - | - | - | - | - | + |
8151 | - | - | - | - | - | - | - | +/- | + | - | - | - | - | - | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | country | origin.country | continent | sampling date |
---|---|---|---|---|---|
8151 | human gingival sulcus | USA | USA | North America | |
48907 | Human gingival sulcus | USA | USA | North America | 1977 |
67770 | Human gingival sulcus |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Host | #Human | |
#Host Body-Site | #Oral cavity and airways | #Gingiva |
#Infection | #Patient | |
#Host Body-Site | #Other | #Wound |
taxonmaps
- @ref: 69479
- File name: preview.99_1796.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15775;96_1019;97_1189;98_1420;99_1796&stattab=map
- Last taxonomy: Campylobacter gracilis subclade
- 16S sequence: JX912515
- Sequence Identity:
- Total samples: 49179
- soil counts: 708
- aquatic counts: 933
- animal counts: 47229
- plant counts: 309
Safety information
risk assessment
- @ref: 8151
- biosafety level: 2
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Campylobacter gracilis strain ATCC 33236 16S ribosomal RNA (rrs) gene, partial sequence | DQ174168 | 1341 | ena | 824 |
20218 | Bacteroides gracilis, complete 16S ribosomal RNA | L04320 | 1450 | ena | 824 |
8151 | Campylobacter gracilis strain ATCC 33236 16S ribosomal RNA gene, partial sequence | JX912515 | 1435 | ena | 824 |
67770 | Campylobacter gracilis gene for 16S ribosomal RNA, partial sequence, strain: JCM 8538 | AB971815 | 1474 | ena | 824 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Campylobacter gracilis ATCC 33236 | GCA_001190745 | complete | ncbi | 824 |
66792 | Campylobacter gracilis RM3268 | 553220.3 | wgs | patric | 553220 |
66792 | Campylobacter gracilis strain ATCC 33236 | 824.5 | complete | patric | 824 |
66792 | Campylobacter gracilis strain NCTC12738 | 824.36 | wgs | patric | 824 |
66792 | Campylobacter gracilis ATCC 33236 | 2645727670 | complete | img | 824 |
66792 | Campylobacter gracilis NCTC 12738 | 2808606742 | draft | img | 824 |
66792 | Campylobacter gracilis ATCC 33236 | 645951857 | draft | img | 553220 |
67770 | Campylobacter gracilis NCTC12738 | GCA_900446335 | contig | ncbi | 824 |
66792 | Campylobacter gracilis strain FDAARGOS_1548 | 824.194 | complete | patric | 824 |
66792 | Campylobacter gracilis strain FDAARGOS_1548 | 824.193 | complete | patric | 824 |
GC content
@ref | GC-content |
---|---|
8151 | 44 |
67770 | 45 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 82 | no |
motile | no | 87.435 | no |
flagellated | no | 90.841 | no |
gram-positive | no | 97.68 | no |
anaerobic | yes | 84.216 | no |
aerobic | no | 97.929 | yes |
halophile | no | 80.713 | no |
spore-forming | no | 97.218 | no |
thermophile | no | 95.106 | yes |
glucose-util | no | 89.211 | yes |
glucose-ferment | no | 84.425 | no |
External links
@ref: 8151
culture collection no.: DSM 19528, ATCC 33236, JCM 8538, CCUG 27720, NCTC 12738, FDC 1084, KCTC 15224
straininfo link
- @ref: 71761
- straininfo: 45949
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 6490858 | Comparison of strains of gram-negative, anaerobic, agar-corroding rods isolated from soft tissue infections in cats and dogs with type strains of Bacteroides gracilis, Wolinella recta, Wolinella succinogenes, and Campylobacter concisus. | Love DN, Jones RF, Bailey M, Calverley A | J Clin Microbiol | 10.1128/jcm.20.4.747-750.1984 | 1984 | Agar, Animals, Bacteria/classification/*isolation & purification, Bacterial Infections/microbiology/*veterinary, Bacteroides/*isolation & purification, Campylobacter/*isolation & purification, Cat Diseases/*microbiology, Cats, Dog Diseases/*microbiology, Dogs | Enzymology |
Genetics | 26383656 | Complete Genome Sequence of Campylobacter gracilis ATCC 33236T. | Miller WG, Yee E | Genome Announc | 10.1128/genomeA.01087-15 | 2015 |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
8151 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19528) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-19528 | |||
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 | |
48907 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 27720) | https://www.ccug.se/strain?id=27720 | |||
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) | |||
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
68373 | Automatically annotated from API CAM | |||||
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 | |||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
71761 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID45949.1 | StrainInfo: A central database for resolving microbial strain identifiers |