Strain identifier

BacDive ID: 140488

Type strain: Yes

Species: Campylobacter pinnipediorum

Strain history: <- CCUG; CCUG 69570 <- W. C. Miller, University of California, Davis; RM17260

NCBI tax ID(s): 1965231 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 67674

BacDive-ID: 140488

DSM-Number: 112337

keywords: genome sequence, Bacteria, microaerotolerant, thermophilic, Gram-negative, rod-shaped, colony-forming

description: Campylobacter pinnipediorum CCUG 69570 is a microaerotolerant, thermophilic, Gram-negative bacterium that forms circular colonies and was isolated from Abscess of California sea lion Juvenile.

NCBI tax id

  • NCBI tax id: 1965231
  • Matching level: species

strain history

  • @ref: 67674
  • history: <- CCUG; CCUG 69570 <- W. C. Miller, University of California, Davis; RM17260

doi: 10.13145/bacdive140488.20230509.8.1

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 pinnipediorum
  • full scientific name: Campylobacter pinnipediorum Gilbert et al. 2017

@ref: 67674

domain: Bacteria

phylum: Proteobacteria

class: Epsilonproteobacteria

order: Campylobacterales

family: Campylobacteraceae

genus: Campylobacter

species: Campylobacter pinnipediorum

full scientific name: Campylobacter pinnipediorum Gilbert et al. 2017

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotilityconfidence
43235negativerod-shaped
69480yes90.342
69480negative99.992

colony morphology

  • @ref: 43235
  • type of hemolysis: alpha
  • hemolysis ability: 1
  • colony size: 0.5-1 mm
  • colony color: transparent to beige or white
  • colony shape: circular
  • incubation period: 3 days
  • medium used: Columbia agar with 5 % sheep blood (microaerobic)

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
43235Columbia agar with 5 % sheep blood (microaerobic)yes
43235Skirrow agaryes
43235charcoal cefoperazone deoxycholate agarno
43235Mueller - Hinton agarno
67674COLUMBIA 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

culture temp

@refgrowthtypetemperaturerange
43235nogrowth42thermophilic
43235nogrowth22psychrophilic
43235positivegrowth25mesophilic
43235positivegrowth37mesophilic
63624positivegrowth37mesophilic
67674positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
43235microaerotolerant
63624microaerophile

spore formation

@refspore formationconfidence
69481no100
69480no99.996

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4323516199urea+hydrolysis
4323517632nitrate+reduction
43235606565hippurate-hydrolysis
43235indoxyl acetate-hydrolysis

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitivesensitivity conc.
43235124991cefalotinyesyes30 µg (disc)
43235100147nalidixic acidyesyes30 µg (disc)

metabolite production

  • @ref: 43235
  • Chebi-ID: 16136
  • metabolite: hydrogen sulfide
  • production: yes

enzymes

@refvalueactivityec
43235cytochrome oxidase+1.9.3.1
43235catalase+/-1.11.1.6

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling datelatitudelongitude
43235Abscess of California sea lion (Z. californianus) JuvenileSan Diego, CaliforniaUSAUSANorth America
63624Abscess,californian sea lionSan Diego,CaliforniaUSAUSANorth America2013-07-02
67674abscess; californian sea lionSan Diego, CaliforniaUSAUSANorth America32.7-117.167

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Aquatic mammal
#Host Body-Site#Other#Abscess

Sequence information

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Campylobacter pinnipediorum subsp. pinnipediorum RM17260GCA_002021925completencbi1660067
66792Campylobacter pinnipediorum subsp. pinnipediorum strain RM172601660067.5completepatric1660067
66792Campylobacter pinnipediorum pinnipediorum RM172602791355309completeimg1660067

GC content

  • @ref: 43235
  • GC-content: 30.4-31
  • method: genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedyes69.141no
gram-positiveno99.009yes
anaerobicno75.521no
aerobicno97.641yes
halophileno76.743no
spore-formingno94.463no
glucose-utilno89.286no
thermophileno91.159no
motileyes90.4no
glucose-fermentno88.225no

External links

@ref: 67674

culture collection no.: CCUG 69570, LMG 29472, RM 17260, DSM 112337

straininfo link

  • @ref: 96730
  • straininfo: 400007

literature

  • topic: Phylogeny
  • Pubmed-ID: 28629508
  • title: Campylobacter pinnipediorum sp. nov., isolated from pinnipeds, comprising Campylobacter pinnipediorum subsp. pinnipediorum subsp. nov. and Campylobacter pinnipediorum subsp. caledonicus subsp. nov.
  • authors: Gilbert MJ, Miller WG, Leger JS, Chapman MH, Timmerman AJ, Duim B, Foster G, Wagenaar JA
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.001894
  • year: 2017
  • mesh: Animals, Bacterial Typing Techniques, Base Composition, California, Campylobacter/*classification/genetics/isolation & purification, Caniformia/*microbiology, DNA, Bacterial/genetics, Genes, Bacterial, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/genetics, Scotland, Sequence Analysis, DNA
  • topic2: Genetics

Reference

@idauthorstitledoi/urljournalpubmedcatalogue
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
43235Maarten J. Gilbert, William G. Miller, Judy St. Leger, Mary H. Chapman, Arjen J. Timmerman, Birgitta Duim, Geoffrey Foster, Jaap A. WagenaarCampylobacter pinnipediorum sp. nov., isolated from pinnipeds, comprising Campylobacter pinnipediorum subsp. Pinnipediorum subsp. nov. and Campylobacter pinnipediorum subsp. caledonicus subsp. nov.10.1099/ijsem.0.001894IJSEM 67: 1961-1968 201728629508
63624Curators of the CCUGhttps://www.ccug.se/strain?id=69570Culture Collection University of Gothenburg (CCUG) (CCUG 69570)
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
67674Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-112337Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 112337)
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
96730Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID400007.1