Strain identifier

BacDive ID: 140238

Type strain: Yes

Species: Campylobacter geochelonis

Strain Designation: RC20

Strain history: <- A. Piccirillo, University of Padua, Comparative Biomedicine and Food Science (BCA), Legnaro, Italy; RC20 <- A. Piccirillo and M. Giacomelli

NCBI tax ID(s): 1780362 (species)

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General

@ref: 42845

BacDive-ID: 140238

DSM-Number: 102159

keywords: genome sequence, 16S sequence, Bacteria, microaerophile, thermophilic, Gram-negative, motile, rod-shaped, colony-forming

description: Campylobacter geochelonis RC20 is a microaerophile, thermophilic, Gram-negative bacterium that forms circular colonies and was isolated from cloacal swab of a western Hermann's tortoise .

NCBI tax id

  • NCBI tax id: 1780362
  • Matching level: species

strain history

  • @ref: 42845
  • history: <- A. Piccirillo, University of Padua, Comparative Biomedicine and Food Science (BCA), Legnaro, Italy; RC20 <- A. Piccirillo and M. Giacomelli

doi: 10.13145/bacdive140238.20230509.8.1

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 geochelonis
  • full scientific name: Campylobacter geochelonis Piccirillo et al. 2016

@ref: 42845

domain: Bacteria

phylum: Proteobacteria

class: Epsilonproteobacteria

order: Campylobacterales

family: Campylobacteraceae

genus: Campylobacter

species: Campylobacter geochelonis

full scientific name: Campylobacter geochelonis Piccirillo et al. 2016

strain designation: RC20

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell shapemotilityconfidence
43153negative1-2 µmrod-shapedyes
69480negative99.936

colony morphology

  • @ref: 43153
  • type of hemolysis: gamma
  • colony size: 0.1-3.0 mm
  • colony color: grey
  • colony shape: circular
  • incubation period: 2 days
  • medium used: blood agar

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
43153blood agaryesTSA+5 % sheep blood
43153Blood agaryesBlood agar containing 2 % (w/v) NaCl and 1 % (w/v) glycine
43153Blood agarnoBlood agar containing 4 % (w/v) NaCl
43153CCDAyes
43153Karmali agaryes
43153CAT agaryes
43153Muller-Hinton agarno
43153MacConkey agarno
42845COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yesName: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar basehttps://mediadive.dsmz.de/medium/693

culture temp

@refgrowthtypetemperaturerange
43153nogrowth42thermophilic
43153nogrowth18-22psychrophilic
43153positivegrowth25mesophilic
42845positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
43153microaerophile
43153anaerobe

spore formation

@refspore formationconfidence
69481no99
69480no99.991

halophily

@refsaltgrowthtested relationconcentration
43153NaClpositivegrowth2 %(w/v)
43153NaClnogrowth4 %(w/v)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4315318276dihydrogen-required for growth
43153indoxyl acetate-hydrolysis
43153606565hippurate+hydrolysis
4315317632nitrate+reduction
4315318212selenite-reduction
4315378019triphenyltetrazolium chloride-reduction
6837316199urea-hydrolysis
6837317632nitrate+reduction
68373606565hippurate+hydrolysis
6837330031succinate+assimilation
6837317272propionate-assimilation
6837316947citrate-assimilation

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitivesensitivity conc.is resistantresistance conc.
43153124991cefalotinyesyes30 µg
43153100147nalidixic acidyesyes30 µg
6837348923erythromycinyesyes14 µg
68373474053cefazolinyesyes224 µg

enzymes

@refvalueactivityec
43153catalase+1.11.1.6
43153cytochrome oxidase+1.9.3.1
43153urease-3.5.1.5
43153alkaline phosphatase-3.1.3.1
68373catalase+1.11.1.6
68373pyrrolidonyl arylamidase-3.4.19.3
68373gamma-glutamyltransferase-2.3.2.2
68373urease-3.5.1.5

API CAM

@refURENITESTHIPGGTTTCPYRAArgAAspAPALH2SGLUSUTNALCFZACEPROPMLTCITEROCAT
42845-+-+-----++-+--+-+--+
42845-+++-+-++/-+/--++--+----+
42845-+-+-+/----+/--+/-++------+

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinentisolation date
42845cloacal swab of a western Hermann's tortoise (Testudo hermanni hermanni)Testudo hermanni hermanninorthern partItalyITAEurope
43153western Hermann's tortoisenorthern ItalyItalyITAEurope2011

isolation source categories

Cat1Cat2Cat3
#Host#Reptilia
#Host Body-Site#Gastrointestinal tract#Rectum
#Infection#Patient#Swab

Sequence information

16S sequences

  • @ref: 43153
  • description: 16S rRNA gene sequences
  • accession: ERR987452
  • database: nuccore

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Campylobacter geochelonis LMG 29375GCA_013201685completencbi1780362
66792Campylobacter geochelonis RC20GCA_900063025scaffoldncbi1780362
66792Campylobacter geochelonis strain LMG 293751780362.3completepatric1780362
66792Campylobacter geochelonis RC202740892344draftimg1780362

GC content

@refGC-contentmethod
4315333.57genome sequence analysis
4284533.57sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno99no
flagellatedno88.596no
gram-positiveno97.69yes
anaerobicyes70.699no
aerobicno96.436no
halophileno83.092no
spore-formingno96.118no
glucose-utilno87.607no
thermophileno97.152no
motileno84.08no
glucose-fermentno89.943no

External links

@ref: 42845

culture collection no.: DSM 102159, LMG 29375

straininfo link

  • @ref: 96553
  • straininfo: 400680

literature

  • topic: Phylogeny
  • Pubmed-ID: 27266587
  • title: Campylobacter geochelonis sp. nov. isolated from the western Hermann's tortoise (Testudo hermanni hermanni).
  • authors: Piccirillo A, Niero G, Calleros L, Perez R, Naya H, Iraola G
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.001219
  • year: 2016
  • mesh: Animals, Bacterial Typing Techniques, Base Composition, Campylobacter/*classification/isolation & purification, DNA, Bacterial/genetics, Genes, Bacterial, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Turtles/*microbiology
  • topic2: Transcriptome

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
42845Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-102159Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 102159)
43153Alessandra Piccirillo, Giulia Niero, Lucía Calleros, Ruben Pérez, Hugo Naya and Gregorio IraolaCampylobacter geochelonis sp. nov. isolated from the western Hermann's tortoise (Testudo hermanni hermanni)10.1099/ijsem.0.001219IJSEM 66: 3468-3476 201627266587
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
68373Automatically annotated from API CAM
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
96553Reimer, 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-ID400680.1