Strain identifier

BacDive ID: 2119

Type strain: Yes

Species: Campylobacter concisus

Strain history: CIP <- 1993, ATCC <- A.C.R. Tanner: strain FDC 484 <- S.S. Socransky

NCBI tax ID(s): 199 (species)

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General

@ref: 3702

BacDive-ID: 2119

DSM-Number: 9716

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

description: Campylobacter concisus DSM 9716 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from human gingival ulcus.

NCBI tax id

  • NCBI tax id: 199
  • Matching level: species

strain history

@refhistory
3702<- ATCC; ATCC 33237 <- CCUG; CCUG 13144 <- A. C. R. Tanner;
118721CIP <- 1993, ATCC <- A.C.R. Tanner: strain FDC 484 <- S.S. Socransky

doi: 10.13145/bacdive2119.20230509.8.1

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 concisus
  • full scientific name: Campylobacter concisus Tanner et al. 1981

@ref: 3702

domain: Bacteria

phylum: Proteobacteria

class: Epsilonproteobacteria

order: Campylobacterales

family: Campylobacteraceae

genus: Campylobacter

species: Campylobacter concisus

full scientific name: Campylobacter concisus Tanner et al. 1981

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480negative99.995
118721negativerod-shapedno

colony morphology

@refincubation period
37021-2 days
118721

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
3702COLUMBIA 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
40781MEDIUM 24 - for Campylobacter concisus, C. sputorum and C. mucosalisyesDistilled water make up to (1000.000 ml);Horse blood (100.000 ml);Brainheart infusion agar (52.000 g);Formate solution - M00175 (100.000 ml);Fumaric acid solution- M0176 (100.000 ml)
3702BTU MEDIUM (DSMZ Medium 413)yeshttps://mediadive.dsmz.de/medium/413Name: 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
118721CIP Medium 24yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=24

culture temp

@refgrowthtypetemperaturerange
3702positivegrowth37mesophilic
40781positivegrowth37mesophilic
45897positivegrowth37mesophilic
118721positivegrowth30-41
118721nogrowth5psychrophilic
118721nogrowth10psychrophilic
118721nogrowth25mesophilic
118721nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
3702anaerobe
45897microaerophile

spore formation

@refspore formationconfidence
69481no100
69480no99.998

halophily

  • @ref: 118721
  • salt: NaCl
  • growth: no
  • tested relation: growth
  • concentration: 3.5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
118721606565hippurate-hydrolysis
11872117632nitrate+reduction
11872116301nitrite-reduction
6837316199urea-hydrolysis
6837317632nitrate-reduction
6837317634D-glucose-assimilation
6837330031succinate-assimilation
6837330089acetate-assimilation
6837317272propionate-assimilation
6837325115malate-assimilation
6837316947citrate-assimilation

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitivesensitivity conc.is resistant
6837348923erythromycinyesyes14 µg
68373474053cefazolinyesyes224 µg
68373100147nalidixic acidyesyes84 µg
1187210129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)yesnoyes

metabolite production

  • @ref: 118721
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
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-arginine arylamidase-
68373pyrrolidonyl arylamidase-3.4.19.3
68373gamma-glutamyltransferase-2.3.2.2
68373esterase-
68373urease-3.5.1.5
118721oxidase+
118721gelatinase-
118721DNase-
118721catalase+1.11.1.6
118721gamma-glutamyltransferase-2.3.2.2
118721urease-3.5.1.5

fatty acid profile

  • @reffatty acidpercentageECL
    45897C12:07.212
    45897C14:010.214
    45897C16:027.716
    45897C12:0 ALDE ?3.310.915
    45897C13:1 at 12-131.712.931
    45897C14:0 3OH/C16:1 ISO I3.815.485
    45897C16:0 3OH117.52
    45897C16:1 ω7c11.415.819
    45897C18:1 ω7c /12t/9t31.317.824
    45897C18:2 ω6,9c/C18:0 ANTE2.417.724
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG
  • @reffatty acidpercentageECL
    45897C12:0612
    45897C14:07.714
    45897C16:024.516
    45897C18:01.918
    45897C12:0 ALDE ?1.310.915
    45897C13:1 at 12-130.812.931
    45897C14:0 3OH/C16:1 ISO I5.215.485
    45897C16:0 3OH1.617.52
    45897C16:1 ω7c9.615.819
    45897C18:1 ω7c /12t/9t35.717.824
    45897C18:1 ω9c1.917.769
    45897C18:2 ω6,9c/C18:0 ANTE3.317.724
    45897unknown 14.5030.514.503
  • 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
118721--++------+----+----

API CAM

@refURENITESTHIPGGTTTCPYRAArgAAspAPALH2SGLUSUTNALCFZACEPROPMLTCITEROCAT
3702---+-+--+------------
3702--------------------+
3702--------+-+----------
3702---------------------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitudeisolation date
3702human gingival ulcusMassachusetts, BostonUSAUSANorth America42.3601-71.0589
45897Human gingival sulcus
118721Human, Gingival sulcusUnited States of AmericaUSANorth America1974

isolation source categories

Cat1Cat2Cat3
#Host#Human
#Host Body-Site#Oral cavity and airways#Gingiva

taxonmaps

  • @ref: 69479
  • File name: preview.99_1571.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15775;96_858;97_1003;98_1239;99_1571&stattab=map
  • Last taxonomy: Campylobacter concisus subclade
  • 16S sequence: JX912506
  • Sequence Identity:
  • Total samples: 65236
  • soil counts: 588
  • aquatic counts: 867
  • animal counts: 63428
  • plant counts: 353

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
37022Risk group (German classification)
1187212Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Campylobacter concisus strain ATCC 33237 16S ribosomal RNA gene, partial sequenceJX9125061434ena199
20218Campylobacter concisus, complete 16S ribosomal RNAL043221459ena199
3702Campylobacter concisus strain ATCC 33237 16S ribosomal RNA (rrs) gene, partial sequenceDQ1741661340ena199

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Campylobacter concisus ATCC 33237GCA_001298465completencbi199
66792Campylobacter concisus strain ATCC 33237199.248completepatric199
66792Campylobacter concisus ATCC 332372684623198completeimg199

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes90.372no
flagellatedyes64.741no
gram-positiveno98.904no
anaerobicno50no
aerobicno98.228yes
halophileno80.022no
spore-formingno95.508no
glucose-utilno90.319yes
glucose-fermentno85.543no
thermophileno88.931no

External links

@ref: 3702

culture collection no.: DSM 9716, ATCC 33237, CCUG 13144, DSM 5360, FDC 484, LMG 7788, NCTC 11485, LMG 6441, CIP 103757

straininfo link

  • @ref: 71751
  • straininfo: 1379

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Pathogenicity2324922Susceptibility and resistance of plaque bacteria to minocycline.O'Connor BC, Newman HN, Wilson MJ Periodontol10.1902/jop.1990.61.4.2281990Bacteria/*drug effects/growth & development, Bacteroides/drug effects/growth & development, Dental Plaque/*microbiology, Humans, Magnesium Sulfate/pharmacology, Minocycline/administration & dosage/antagonists & inhibitors/*pharmacology, Periodontitis/microbiology, Tetracycline Resistance, Tetracyclines/*pharmacology, Time Factors
Phylogeny6490858Comparison 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 AJ Clin Microbiol10.1128/jcm.20.4.747-750.19841984Agar, Animals, Bacteria/classification/*isolation & purification, Bacterial Infections/microbiology/*veterinary, Bacteroides/*isolation & purification, Campylobacter/*isolation & purification, Cat Diseases/*microbiology, Cats, Dog Diseases/*microbiology, DogsEnzymology
Enzymology16148545Characterization and subgrouping of Campylobacter concisus strains using protein profiles, conventional biochemical testing and antibiotic susceptibility.Aabenhus R, Permin H, Andersen LPEur J Gastroenterol Hepatol10.1097/00042737-200510000-000032005Bacterial Proteins/analysis, Bacterial Typing Techniques/methods, Campylobacter/*classification/drug effects/isolation & purification, Campylobacter Infections/*microbiology, Electrophoresis, Polyacrylamide Gel/methods, Feces/microbiology, Gastroenteritis/*microbiology, Humans, Microbial Sensitivity Tests/methodsPathogenicity
19058331First attempt to produce experimental Campylobacter concisus infection in mice.Aabenhus R, Stenram U, Andersen LP, Permin H, Ljungh AWorld J Gastroenterol10.3748/wjg.14.69542008Administration, Oral, Animals, Anti-Bacterial Agents/administration & dosage, Campylobacter/*pathogenicity, Campylobacter Infections/*microbiology/pathology/physiopathology, Cyclophosphamide/administration & dosage, *Disease Models, Animal, Female, Gastrointestinal Diseases/*microbiology/pathology/physiopathology, Ileum/microbiology/pathology, Immunosuppressive Agents/administration & dosage, Injections, Intraperitoneal, Jejunum/microbiology/pathology, Liver/microbiology/pathology, Male, Mice, Mice, Inbred BALB C, Vancomycin/administration & dosage, Weight Loss/physiology
23819746Neutrophil activation by Campylobacter concisus.Sorensen NB, Nielsen HL, Varming K, Nielsen HGut Pathog10.1186/1757-4749-5-172013
Genetics28729281Complete Genome Sequence of Campylobacter concisus ATCC 33237(T) and Draft Genome Sequences for an Additional Eight Well-Characterized C. concisus Strains.Cornelius AJ, Miller WG, Lastovica AJ, On SLW, French NP, Vandenberg O, Biggs PJGenome Announc10.1128/genomeA.00711-172017
Phylogeny33677170Genetic characterisation of Campylobacter concisus: Strategies for improved genomospecies discrimination.Cornelius AJ, Huq M, On SLW, French NP, Vandenberg O, Miller WG, Lastovica AJ, Istivan T, Biggs PJSyst Appl Microbiol10.1016/j.syapm.2021.1261872021Base Composition, *Campylobacter/classification/genetics, *Genome, Bacterial, Genomics, Nucleic Acid Hybridization, *PhylogenyGenetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
3702Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 9716)https://www.dsmz.de/collection/catalogue/details/culture/DSM-9716
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
40781Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/15590
45897Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 13144)https://www.ccug.se/strain?id=13144
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
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
71751Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID1379.1StrainInfo: A central database for resolving microbial strain identifiers
118721Curators of the CIPCollection of Institut Pasteur (CIP 103757)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103757