Strain identifier

BacDive ID: 3203

Type strain: Yes

Species: Corynebacterium capitovis

Strain Designation: S108/98/2, 980914, S108/98/2*

Strain history: CIP <- 2000, CCUG <- MD Collins, IFR, reading, UK: strain 980914 <- L. Hoyles, Reading, UK <- G. Foster, Inverness, UK: strain S108/98/2*

NCBI tax ID(s): 1121354 (strain), 131081 (species)

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General

@ref: 11924

BacDive-ID: 3203

DSM-Number: 44611

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, mesophilic, Gram-positive, colony-forming, animal pathogen

description: Corynebacterium capitovis S108/98/2 is a facultative anaerobe, mesophilic, Gram-positive animal pathogen that forms circular colonies and was isolated from scraping from infected head of a sheep.

NCBI tax id

NCBI tax idMatching level
131081species
1121354strain

strain history

@refhistory
11924<- CCUG <- M. D. Collins <- L. Hoyles <- G. Foster
67770CCUG 39779 <-- M. D. Collins <-- L. Hoyles <-- G. Foster S108/98/2.
117151CIP <- 2000, CCUG <- MD Collins, IFR, reading, UK: strain 980914 <- L. Hoyles, Reading, UK <- G. Foster, Inverness, UK: strain S108/98/2*

doi: 10.13145/bacdive3203.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Mycobacteriales
  • family: Corynebacteriaceae
  • genus: Corynebacterium
  • species: Corynebacterium capitovis
  • full scientific name: Corynebacterium capitovis Collins et al. 2001

@ref: 11924

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Corynebacteriaceae

genus: Corynebacterium

species: Corynebacterium capitovis

full scientific name: Corynebacterium capitovis Collins et al. 2001 emend. Nouioui et al. 2018

strain designation: S108/98/2, 980914, S108/98/2*

type strain: yes

Morphology

cell morphology

@refgram stainmotilityconfidencecell shape
23190positiveno
69480positive100
69480no96.655
117151positivenorod-shaped

colony morphology

@reftype of hemolysiscolony sizecolony colorcolony shapeincubation periodmedium used
23190gamma0.5 mmlemon-pigmentedcircular1 dayblood agar
117151

pigmentation

  • @ref: 23190
  • production: yes
  • name: lemon-pigmented

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
11924TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)yeshttps://mediadive.dsmz.de/medium/535Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
11924COLUMBIA 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
23190blood agaryes
38634MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
117151CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
11924positivegrowth37mesophilic
23190positivegrowth37mesophilic
38634positivegrowth37mesophilic
67770positivegrowth37mesophilic
117151positivegrowth25-41
117151nogrowth10psychrophilic
117151nogrowth15psychrophilic
117151nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
23190facultative anaerobe
117151obligate aerobe

spore formation

@refspore formationconfidence
23190no
69481no100
69480no99.995

halophily

  • @ref: 117151
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2319065327D-xylose-builds acid from
2319017716lactose-builds acid from
2319017306maltose-builds acid from
2319029864mannitol-builds acid from
2319033942ribose-builds acid from
2319017992sucrose-builds acid from
231904853esculin-hydrolysis
231905291gelatin-hydrolysis
2319017632nitrate-reduction
2319017234glucose+builds acid from
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
6837124265gluconate-builds acid from
6837118403L-arabitol-builds acid from
6837118333D-arabitol-builds acid from
6837118287L-fucose-builds acid from
6837128847D-fucose-builds acid from
6837116443D-tagatose-builds acid from
6837162318D-lyxose-builds acid from
6837132528turanose-builds acid from
6837128066gentiobiose-builds acid from
6837117151xylitol-builds acid from
6837128087glycogen-builds acid from
6837128017starch-builds acid from
6837116634raffinose-builds acid from
683716731melezitose-builds acid from
6837115443inulin-builds acid from
6837127082trehalose-builds acid from
6837117992sucrose-builds acid from
6837128053melibiose-builds acid from
6837117716lactose-builds acid from
6837117306maltose-builds acid from
6837117057cellobiose-builds acid from
6837117814salicin-builds acid from
683714853esculin-builds acid from
6837118305arbutin-builds acid from
6837127613amygdalin-builds acid from
6837159640N-acetylglucosamine-builds acid from
68371320061methyl alpha-D-glucopyranoside-builds acid from
6837143943methyl alpha-D-mannoside-builds acid from
6837117924D-sorbitol-builds acid from
6837116899D-mannitol-builds acid from
6837117268myo-inositol-builds acid from
6837116813galactitol-builds acid from
6837162345L-rhamnose-builds acid from
6837117266L-sorbose-builds acid from
6837116024D-mannose+builds acid from
6837115824D-fructose+builds acid from
6837117634D-glucose+builds acid from
6837112936D-galactose-builds acid from
6837174863methyl beta-D-xylopyranoside-builds acid from
6837115963ribitol-builds acid from
6837165328L-xylose-builds acid from
6837165327D-xylose-builds acid from
6837116988D-ribose-builds acid from
6837130849L-arabinose-builds acid from
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from
6837117754glycerol-builds acid from
11715116947citrate-carbon source
1171514853esculin-hydrolysis
117151606565hippurate+hydrolysis
11715117632nitrate-reduction
11715116301nitrite-reduction
11715117632nitrate-respiration

antibiotic resistance

  • @ref: 117151
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: yes
  • is resistant: no

metabolite production

  • @ref: 117151
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
11715115688acetoin-
11715117234glucose+

enzymes

@refvalueactivityec
23190acid phosphatase+3.1.3.2
23190alkaline phosphatase+3.1.3.1
23190alpha-fucosidase-3.2.1.51
23190alpha-galactosidase-3.2.1.22
23190alpha-glucosidase-3.2.1.20
23190alpha-mannosidase-3.2.1.24
23190beta-galactosidase-3.2.1.23
23190beta-glucosidase-3.2.1.21
23190beta-glucuronidase-3.2.1.31
23190catalase+1.11.1.6
23190chymotrypsin-3.4.4.5
23190cystine arylamidase-3.4.11.3
23190esterase (C 4)+
23190esterase lipase (C 8)+
23190leucine arylamidase+3.4.11.1
23190lipase (C 14)+
23190N-acetyl-beta-glucosaminidase-3.2.1.52
23190phosphoamidase-3.9.1.1
23190pyrazinamidase-3.5.1.B15
23190pyrrolidonyl arylamidase-3.4.19.3
23190trypsin-3.4.21.4
23190urease-3.5.1.5
23190valine arylamidase-
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
117151oxidase-
117151beta-galactosidase+3.2.1.23
117151alcohol dehydrogenase-1.1.1.1
117151gelatinase-
117151amylase-
117151DNase-
117151caseinase+3.4.21.50
117151catalase+1.11.1.6
117151tween esterase+
117151gamma-glutamyltransferase-2.3.2.2
117151lecithinase-
117151lipase-
117151lysine decarboxylase-4.1.1.18
117151ornithine decarboxylase-4.1.1.17
117151phenylalanine ammonia-lyase-4.3.1.24
117151tryptophan deaminase-
117151urease-3.5.1.5

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    54927C15:06.515
    54927C16:0616
    54927C17:08.517
    54927C18:01.318
    54927C16:1 ω9c1.515.774
    54927C17:1 ω9c53.316.773
    54927C18:1 ω9c21.717.769
    54927C18:2 ω6,9c/C18:0 ANTE1.317.724
  • 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
117151-+++++----++--------

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
117151----------+++------------------------------------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
117151++--+-------+----+-------------------------------+----------------------+----++++---------+------+-

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling date
11924scraping from infected head of a sheepInvernersUnited KingdomGBREurope
54927Sheep,scraping from infected head of a sheepInvernessUnited KingdomGBREurope1998
67770Skin scrapings from infected head of a sheepUnited KingdomGBREurope
117151Animal, Sheep, scraping from infected head of a sheepInvernessUnited KingdomGBREurope

isolation source categories

Cat1Cat2Cat3
#Infection#Disease
#Host#Mammals#Caprinae (Sheep/Goat)

taxonmaps

  • @ref: 69479
  • File name: preview.99_630.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_396;97_447;98_511;99_630&stattab=map
  • Last taxonomy: Corynebacterium capitovis subclade
  • 16S sequence: AJ297402
  • Sequence Identity:
  • Total samples: 1119
  • soil counts: 30
  • aquatic counts: 41
  • animal counts: 1040
  • plant counts: 8

Safety information

risk assessment

@refpathogenicity animalbiosafety levelbiosafety level comment
11924yes, in single cases1Risk group (German classification)
1171512Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Corynebacterium capitovis 16S ribosomal RNA gene, partial sequenceAY438051418ena131081
11924Corynebacterium capitovis partial 16S rRNA gene, strain CCUG 39779 (type strain)AJ2974021334ena131081

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Corynebacterium capitovis DSM 446111121354.3wgspatric1121354
66792Corynebacterium capitovis DSM 446112517572222draftimg1121354
67770Corynebacterium capitovis DSM 44611 DSM 44611GCA_000372085contigncbi1121354

GC content

  • @ref: 67770
  • GC-content: 64.5
  • method: genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno93.563yes
flagellatedno97.079yes
gram-positiveyes93.472yes
anaerobicno98.974yes
aerobicno65.899no
halophileyes77.58no
spore-formingno92.609no
glucose-utilyes85.132no
thermophileno95.183no
glucose-fermentno68.908no

External links

@ref: 11924

culture collection no.: DSM 44611, CCUG 39779, CIP 106739, JCM 12101, KCTC 19913

straininfo link

  • @ref: 72718
  • straininfo: 87787

literature

  • topic: Phylogeny
  • Pubmed-ID: 11411707
  • title: Corynebacterium capitovis sp. nov., from a sheep.
  • authors: Collins MD, Hoyles L, Foster G, Sjoden B, Falsen E
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/00207713-51-3-857
  • year: 2001
  • mesh: Animals, Corynebacterium/*classification/genetics/isolation & purification, Corynebacterium Infections/microbiology/*veterinary, DNA, Ribosomal/genetics, Fatty Acids/analysis, Head, Humans, Molecular Sequence Data, Mycolic Acids/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sheep, Sheep Diseases/*microbiology, Skin/microbiology
  • topic2: Pathogenicity

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
11924Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 44611)https://www.dsmz.de/collection/catalogue/details/culture/DSM-44611
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
23190M D Collins, L Hoyles, G Foster, B Sjödén, E Falsen10.1099/00207713-51-3-857Corynebacterium capitovis sp. nov., from a sheepIJSEM 51: 857-860 200111411707
38634Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/18903
54927Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 39779)https://www.ccug.se/strain?id=39779
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/
68371Automatically annotated from API 50CH acid
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
72718Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID87787.1StrainInfo: A central database for resolving microbial strain identifiers
117151Curators of the CIPCollection of Institut Pasteur (CIP 106739)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106739