Strain identifier

BacDive ID: 2136

Type strain: Yes

Species: Campylobacter showae

Strain Designation: SU A4

Strain history: CIP <- 1994, Y. Etoh, Showa Univ. School of Dentistry, Tokyo, Japan: strain SU A4

NCBI tax ID(s): 204 (species)

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General

@ref: 8100

BacDive-ID: 2136

DSM-Number: 19458

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

description: Campylobacter showae SU A4 is an anaerobe, mesophilic, Gram-negative human pathogen that was isolated from human oral cavity.

NCBI tax id

  • NCBI tax id: 204
  • Matching level: species

strain history

@refhistory
8100<- JCM <- CCUG <- F. E. Dewhirst <- N. Goto; SU A4 <- Y. Etoh
408971994, Y. Etoh, Showa Univ. School Dent., Tokyo, Japan: strain SU A4
67770CCUG 30254 <-- F. E. Dewhirst <-- N. Goto SU A4 <-- Y. Etoh.
122592CIP <- 1994, Y. Etoh, Showa Univ. School of Dentistry, Tokyo, Japan: strain SU A4

doi: 10.13145/bacdive2136.20230509.8.1

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 showae
  • full scientific name: Campylobacter showae Etoh et al. 1993

@ref: 8100

domain: Bacteria

phylum: Proteobacteria

class: Epsilonproteobacteria

order: Campylobacterales

family: Campylobacteraceae

genus: Campylobacter

species: Campylobacter showae

full scientific name: Campylobacter showae Etoh et al. 1993

strain designation: SU A4

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityflagellum arrangementconfidence
23068negative2.0-5.0 µm0.5-0.8 µmrod-shapedyeslophotrichous
69480yes92.82
69480negative99.987
122592negativerod-shapedyes

colony morphology

@refincubation periodcolony sizemedium used
81001-2 days
230681.0-2.0 mmblood agar plates

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
8100COLUMBIA 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
8100CHOPPED 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
23068blood agar platesyessupplemented with 0.2% sodium formate and 0.3% sodium fumarate
40897MEDIUM 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)
122592CIP Medium 24yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=24

culture temp

@refgrowthtypetemperaturerange
8100positivegrowth37mesophilic
23068nogrowth25.0mesophilic
23068positivegrowth42.0thermophilic
40897positivegrowth37mesophilic
49981positivegrowth30-37mesophilic
67770positivegrowth37mesophilic
122592positivegrowth37-41
122592nogrowth5psychrophilic
122592nogrowth25mesophilic
122592nogrowth30mesophilic
122592nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
8100anaerobe
49981anaerobe
49981microaerophile

spore formation

@refspore formationconfidence
23068no
69481no100
69480no99.995

halophily

  • @ref: 23068
  • salt: NaCl
  • growth: no
  • tested relation: growth
  • concentration: 3.5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
23068606565hippurate-hydrolysis
2306817632nitrate+reduction
2306816301nitrite+reduction
122592606565hippurate-hydrolysis
12259217632nitrate+reduction
12259216301nitrite-reduction
6837316199urea-hydrolysis
6837317632nitrate-reduction
68373606565hippurate-hydrolysis
6837378019triphenyltetrazolium chloride-reduction
6837317634D-glucose-assimilation
6837330031succinate-assimilation
6837316947citrate-assimilation

antibiotic resistance

@refChEBImetaboliteis antibioticis resistantis sensitivesensitivity conc.
23068100147nalidixic acidyesyes
230683542cephalothinyesyes
6837348923erythromycinyesyes14 µg
68373474053cefazolinyesyes224 µg
68373100147nalidixic acidyesyes84 µg

metabolite production

@refChebi-IDmetaboliteproduction
2306816136hydrogen sulfideyes
6837316136hydrogen sulfideyes
12259235581indoleno

enzymes

@refvalueactivityec
23068alkaline phosphatase-3.1.3.1
23068arylsulfatase+3.1.6.1
23068catalase+1.11.1.6
23068gamma-glutamyltransferase-2.3.2.2
23068lysine decarboxylase-4.1.1.18
23068ornithine decarboxylase-4.1.1.17
23068urease-3.5.1.5
68373catalase+1.11.1.6
68373L-aspartate arylamidase+3.4.11.21
68373pyrrolidonyl arylamidase-3.4.19.3
68373gamma-glutamyltransferase-2.3.2.2
68373urease-3.5.1.5
122592oxidase+
122592catalase+1.11.1.6
122592urease-3.5.1.5

API CAM

@refURENITHIPGGTTTCPYRAArgAAspAPALH2SGLUSUTNALCFZACEPROPMLTCITEROCATEST
8100-------+-+---------+
8100-------+-+---------+-
8100------+/-+++----+++--++

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentgeographic locationenrichment cultureenrichment culture compositionsampling dateisolation date
8100human oral cavityJapanJPNAsia
23068human dental plaque and from infected root canalsShowa University, Tokyoplates containing modified CBRCA (China blue-blood-RCA)containing reinforced clostridial agar (Oxoid Ltd.,Hampshire,England), 5% horse blood, 0.03% China blue, 0.2% sodium formate, 0.3% sodium fumarate, and 0.5 kg of menadion per ml
49981Human gingival crevice1982
67770Human gingival crevice
122592Human, With sub-gingival crevice, dental plaqueJapanJPNAsiaTokyo1980

isolation source categories

Cat1Cat2Cat3
#Infection#Disease
#Host Body-Site#Oral cavity and airways#Tooth
#Host Body Product#Oral cavity and Airways#Dental plaque
#Host#Human

taxonmaps

  • @ref: 69479
  • File name: preview.99_1401.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15775;96_810;97_944;98_1108;99_1401&stattab=map
  • Last taxonomy: Campylobacter showae subclade
  • 16S sequence: JF747611
  • Sequence Identity:
  • Total samples: 26213
  • soil counts: 353
  • aquatic counts: 369
  • animal counts: 25334
  • plant counts: 157

Safety information

risk assessment

@refpathogenicity humanbiosafety levelbiosafety level comment
8100yes, in single cases1Risk group (German classification)
1225922Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Campylobacter showae strain ATCC 51146 16S ribosomal RNA gene, partial sequenceJF7476111274ena204
20218Campylobacter showae strain ATCC 51146 16S ribosomal RNA gene, partial sequenceJX9125251433ena204
23068Campylobacter showae 16S ribosomal RNA sequenceL069741458nuccore204
8100Campylobacter showae strain CCUG 30254 16S ribosomal RNA (rrs) gene, partial sequenceDQ1741551339ena204

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Campylobacter showae ATCC 51146GCA_004803815completencbi204
66792Campylobacter showae RM3277553219.3wgspatric553219
66792Campylobacter showae strain ATCC 51146204.182completepatric204
67770Campylobacter showae RM3277GCA_000175655contigncbi553219

GC content

@refGC-contentmethod
810044
2306844-46high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes87.476yes
flagellatedyes66.783no
gram-positiveno98.79yes
anaerobicyes58.763no
aerobicno98.248yes
halophileno82.598no
spore-formingno95.091yes
glucose-utilno91.805yes
thermophileno96.48no
glucose-fermentno86.53no

External links

@ref: 8100

culture collection no.: DSM 19458, ATCC 51146, CCUG 30254, JCM 12989, CIP 103970, KCTC 15202, LMG 12635

straininfo link

  • @ref: 71764
  • straininfo: 7852

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny7694633Campylobacter showae sp. nov., isolated from the human oral cavity.Etoh Y, Dewhirst FE, Paster BJ, Yamamoto A, Goto NInt J Syst Bacteriol10.1099/00207713-43-4-6311993Bacterial Proteins/analysis, Campylobacter/*classification/isolation & purification/ultrastructure, DNA, Bacterial/genetics, Gingiva/*microbiology, Helicobacter/classification/genetics, Humans, Molecular Sequence Data, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, RNA, Sequence Homology, Nucleic Acid, Wolinella/classification/geneticsPathogenicity
Phylogeny34751644Isolation and characterization of Campylobacter massiliensis sp. nov., a novel Campylobacter species detected in a gingivitis subject.Antezack A, Boxberger M, Rolland C, Ben Khedher M, Monnet-Corti V, La Scola BInt J Syst Evol Microbiol10.1099/ijsem.0.0050392021Bacterial Typing Techniques, Base Composition, *Campylobacter/classification/isolation & purification, DNA, Bacterial/genetics, *Gingivitis/microbiology, Humans, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNAPathogenicity

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
8100Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19458)https://www.dsmz.de/collection/catalogue/details/culture/DSM-19458
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
23068Yumiko Etoh,Floyd E. Dewhirst,Bruce J. Paster,Ayako Yamamoto,Nobuichi Goto10.1099/00207713-43-4-631Campylobacter showae sp. nov., Isolated from the Human Oral CavityIJSEM 43: 631-639 19937694633
40897Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/15826
49981Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 30254)https://www.ccug.se/strain?id=30254
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68373Automatically annotated from API CAM
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
71764Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID7852.1StrainInfo: A central database for resolving microbial strain identifiers
122592Curators of the CIPCollection of Institut Pasteur (CIP 103970)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103970