Strain identifier

BacDive ID: 157015

Type strain: Yes

Species: Campylobacter pinnipediorum subsp. caledonicus

Strain history: <- CCUG; CCUG 68650 <- G. Foster, SAC, Scottish Agricultural College; RM18020

NCBI tax ID(s): 1874362 (subspecies)

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General

@ref: 67675

BacDive-ID: 157015

DSM-Number: 112310

keywords: genome sequence, Bacteria, microaerophile, mesophilic

description: Campylobacter pinnipediorum subsp. caledonicus CCUG 68650 is a microaerophile, mesophilic bacterium that was isolated from Lung abscess,grey seal.

NCBI tax id

  • NCBI tax id: 1874362
  • Matching level: subspecies

strain history

  • @ref: 67675
  • history: <- CCUG; CCUG 68650 <- G. Foster, SAC, Scottish Agricultural College; RM18020

doi: 10.13145/bacdive157015.20230509.8.1

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

@ref: 67675

domain: Bacteria

phylum: Proteobacteria

class: Epsilonproteobacteria

order: Campylobacterales

family: Campylobacteraceae

genus: Campylobacter

species: Campylobacter pinnipediorum subsp. caledonicus

full scientific name: Campylobacter pinnipediorum subsp. caledonicus Gilbert et al. 2017

type strain: yes

Culture and growth conditions

culture medium

  • @ref: 67675
  • name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/693
  • composition: Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base

culture temp

@refgrowthtypetemperaturerange
63506positivegrowth37mesophilic
67675positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 63506
  • oxygen tolerance: microaerophile

Isolation, sampling and environmental information

isolation

@refsample typesampling dategeographic locationcountryorigin.countrycontinentlatitudelongitude
63506Lung abscess,grey seal2010-11-15InvernessUnited KingdomGBREurope
67675lung abscess, grey sealInverness, ScotlandUnited KingdomGBREurope57.4833-4.2167

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Aquatic mammal
#Host Body-Site#Other#Abscess
#Host Body-Site#Oral cavity and airways#Lung

Sequence information

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Campylobacter pinnipediorum subsp. caledonicus M302/10/6GCA_002021985completencbi1874362
66792Campylobacter sp. RM18020 strain RM180201660070.3completepatric1874362
66792Campylobacter pinnipediorum caledonicus RM180202791355310completeimg1874362

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
flagellatedyes69.12no
gram-positiveno98.91no
anaerobicno76.678no
aerobicno97.813yes
halophileno74.584no
spore-formingno94.203no
glucose-utilno88.415no
thermophileno90.298yes
motileyes89.893no
glucose-fermentno85.657no

External links

@ref: 67675

culture collection no.: CCUG 68650, LMG 29473, DSM 112310, RM 18020

straininfo link

  • @ref: 110157
  • straininfo: 405878

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/urlcataloguejournalpubmed
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
63506Curators of the CCUGhttps://www.ccug.se/strain?id=68650Culture Collection University of Gothenburg (CCUG) (CCUG 68650)
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
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar SchomburgBRENDA, the ELIXIR core data resource in 2021: new developments and updates10.1093/nar/gkaa1025Nucleic Acids Res. 49: D498-D508 202033211880
67675Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-112310Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 112310)
110157Reimer, 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-ID405878.1