Strain identifier

BacDive ID: 2095

Type strain: Yes

Species: Arcobacter skirrowii

Strain Designation: WCDM 00067, 449/80

Strain history: CIP <- 1992, LMG <- 1980, CCUG, Campylobacter sp. <- M. Skirrow, UK: strain 449/80 <- Loughborough

NCBI tax ID(s): 1032239 (strain), 28200 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 3106

BacDive-ID: 2095

DSM-Number: 7302

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

description: Arcobacter skirrowii WCDM 00067 is a microaerophile, mesophilic, Gram-negative human pathogen that was isolated from lamb faeces, case of persistent scour.

NCBI tax id

NCBI tax idMatching level
28200species
1032239strain

strain history

@refhistory
3106<- CCUG <- M.B. Skirrow; WRI 449/80 <- MAFF Vet. Invest. Centre, Loughborough
67770LMG 6621 <-- CCUG 10374 <-- M. B. Skirrow; Worcester Royal Infirmary, UK; 449/80 <-- Loughborough.
122640CIP <- 1992, LMG <- 1980, CCUG, Campylobacter sp. <- M. Skirrow, UK: strain 449/80 <- Loughborough

doi: 10.13145/bacdive2095.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Epsilonproteobacteria
  • order: Campylobacterales
  • family: Arcobacteraceae
  • genus: Arcobacter
  • species: Arcobacter skirrowii
  • full scientific name: Arcobacter skirrowii Vandamme et al. 1992

  • synonyms

    • @ref: 20215
    • synonym: Aliarcobacter skirrowii

@ref: 3106

domain: Bacteria

phylum: Proteobacteria

class: Epsilonproteobacteria

order: Campylobacterales

family: Arcobacteraceae

genus: Arcobacter

species: Arcobacter skirrowii

full scientific name: Arcobacter skirrowii Vandamme et al. 1992

strain designation: WCDM 00067, 449/80

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
23369negative1.0-3.0 µm0.2-0.4 µmrod-shapedyes
69480yes92.715
69480negative99.999
122640negativerod-shapedyes

colony morphology

@reftype of hemolysiscolony sizecolony colorcolony shapemedium used
3106gamma
233692-3 mmgreyishirregularblood agar
122640

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
3106COLUMBIA 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
23369blood agaryes
34367MEDIUM 6 - Columbia agar with 10 % horse bloodyesDistilled water make up to (1000.000 ml);Columbia agar (39.000 g);Horseblood (100.000 ml)
122640Brucella brothyes
122640CIP Medium 6yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=6

culture temp

@refgrowthtypetemperaturerange
3106positivegrowth35mesophilic
23369positivegrowth37-42
34367positivegrowth37mesophilic
45304positivegrowth30mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
3106microaerophile
45304aerotolerant
45304microaerophile
122640microaerophile

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 99.984

halophily

@refsaltgrowthtested relationconcentration
23369NaClpositivegrowth1.5 %
23369NaClpositivegrowth3.5 %
122640NaClpositivegrowth3.5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2336917634D-glucose-hydrolysis
23369606565hippurate-hydrolysis
2336917634D-glucose-oxidation
2336917632nitrate+reduction
12264017632nitrate+reduction
12264016301nitrite-reduction
6837316199urea-hydrolysis
6837317632nitrate+reduction
68373606565hippurate-hydrolysis
6837317634D-glucose-assimilation
6837325115malate-assimilation
6837316947citrate-assimilation

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitivesensitivity conc.is resistant
233693542cephalothinyesyes30 µg (disc)
23369100147nalidixic acidyesyes30 µg (disc)
6837348923erythromycinyesyes14 µg
68373474053cefazolinyesyes224 µg
68373100147nalidixic acidyesyes84 µg
1226400129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)yesnoyes

metabolite production

@refChebi-IDmetaboliteproduction
6837316136hydrogen sulfideno
12264035581indoleno

enzymes

@refvalueactivityec
3106catalase+1.11.1.6
3106cytochrome-c oxidase+1.9.3.1
23369catalase+1.11.1.6
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
68373urease-3.5.1.5
122640oxidase-
122640gelatinase-
122640catalase+1.11.1.6
122640gamma-glutamyltransferase+2.3.2.2
122640urease-3.5.1.5

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    45304C12:08.812
    45304C14:0114
    45304C16:027.116
    45304C18:00.818
    45304C14:0 3OH/C16:1 ISO I6.515.485
    45304C16:1 ω7c18.615.819
    45304C16:1 ω7c/C15:0 ISO 2OH13.115.85
    45304C18:1 ω7c /12t/9t2217.824
  • 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
122640-+++------++--------

API CAM

@refURENITESTHIPGGTTTCPYRAArgAAspAPALH2SGLUSUTNALCFZACEPROPMLTCITEROCAT
3106-++------+--+--++---+
3106-++--+/----+--+--+----+
3106-++--+---+--+/---++---+
3106-+-------+----------+/-
3106-+-------+-----++---+
3106-+-------+----------+
3106-++------+----------+
45304-++--+---+--+--+----+

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
122640---------------------------------------------------------------------------------------------------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling date
3106lamb faeces, case of persistent scourLoughboroughUnited KingdomGBREurope
45304Lamb feces,5-month-old,persistent scour(diarrhoea)LoughboroughUnited KingdomGBREurope1980-09-01
122640Animal, Lamb, feces

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Caprinae (Sheep/Goat)
#Host Body Product#Gastrointestinal tract#Feces (Stool)

Safety information

risk assessment

@refpathogenicity humanpathogenicity animalbiosafety levelbiosafety level comment
3106yes, in single casesyes, in single cases1Risk group (German classification)
1226401Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
3106Arcobacter skirrowii CCUG 10374 16S ribosomal RNA gene, partial sequenceL146251462ena1032239
67770Arcobacter skirrowii CCUG 10374 strain LMG 6621 16S ribosomal RNA gene, partial sequenceMG1958991506ena1032239

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Aliarcobacter skirrowii CCUG 10374GCA_003544835completencbi1032239
66792Aliiarcobacter skirrowii strain NCTC1271328200.27wgspatric28200
66792Arcobacter skirrowii CCUG 103741032239.5wgspatric1032239
66792Arcobacter skirrowii CCUG 103741032239.4completepatric1032239
66792Arcobacter skirrowii CCUG 10374 strain LMG 66211032239.3wgspatric1032239
66792Arcobacter skirrowii CCUG 10374 LMG 66212873822735draftimg1032239
66792Arcobacter skirrowii CCUG 103742843847787completeimg1032239
66792Aliarcobacter skirrowii NCTC 127132814123187draftimg28200
67770Aliarcobacter skirrowii CCUG 10374 LMG 6621GCA_004115735contigncbi1032239
67770Aliarcobacter skirrowii NCTC12713GCA_900445295contigncbi28200
67770Aliarcobacter skirrowii CCUG 10374 CCUG 10374GCA_008802155contigncbi1032239
66792Aliarcobacter skirrowii CCUG 10374 LMG 6621GCA_024584055contigncbi1032239

GC content

@refGC-contentmethod
310629.0thermal denaturation, midpoint method (Tm)
2336929.0Thermal denaturation, fluorometry

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes62no
motileyes91.98yes
flagellatedyes65.223no
gram-positiveno98.465yes
anaerobicno84.044yes
aerobicno94.551yes
halophileno87.549yes
spore-formingno93.86no
glucose-utilno88.593yes
thermophileno94.372yes
glucose-fermentno91.543no

External links

@ref: 3106

culture collection no.: DSM 7302, ATCC 51132, CCUG 10374, LMG 6621, WRI 449/80, JCM 33358, CIP 103538, CIP 103588, NCTC 12713, WDCM 00067, CECT 8223, CIP 1035838T

straininfo link

  • @ref: 71742
  • straininfo: 979

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Enzymology8675340Infection of cesarean-derived colostrum-deprived 1-day-old piglets with Arcobacter butzleri, Arcobacter cryaerophilus, and Arcobacter skirrowii.Wesley IV, Baetz AL, Larson DJInfect Immun10.1128/iai.64.6.2295-2299.19961996Animals, Animals, Newborn, Campylobacter/genetics/isolation & purification/*pathogenicity, Campylobacter Infections/*microbiology/pathology, Cesarean Section, Colostrum, Disease Models, Animal, Female, Polymorphism, Restriction Fragment Length, Pregnancy, SwinePhylogeny
Genetics30533756Complete Genome Sequence of the Arcobacter skirrowii Type Strain LMG 6621.Miller WG, Yee EMicrobiol Resour Announc10.1128/MRA.01308-182018

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
3106Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 7302)https://www.dsmz.de/collection/catalogue/details/culture/DSM-7302
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
23369P. Vandamme, M. Vancanneyt, B. Pot, L. Mels, B. Hoste, D. Dewettinck, L. Vlaes, C. Van Den Borre, R. Higgins, J. Hommez, K. Kersters, J.-P. Butzler, H. Goossens10.1099/00207713-42-3-344Polyphasic Taxonomic Study of the Emended Genus Arcobacter with Arcobacter butzleri comb. nov. and Arcobacter skirrowii sp. nov., an Aerotolerant Bacterium Isolated from Veterinary SpecimensIJSEM 42: 344-356 19921503968
34367Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/15402
45304Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 10374)https://www.ccug.se/strain?id=10374
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
68382Automatically annotated from API zym
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)
71742Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID979.1StrainInfo: A central database for resolving microbial strain identifiers
122640Curators of the CIPCollection of Institut Pasteur (CIP 103588)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103588