Strain identifier

BacDive ID: 2096

Type strain: Yes

Species: Arcobacter cibarius

Strain Designation: KH-2

Strain history: <- K. Houf, Depart. Veterinary Public Health, Merelbeke, Belgium; KH-2

NCBI tax ID(s): 1442598 (strain), 255507 (species)

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General

@ref: 7122

BacDive-ID: 2096

DSM-Number: 17680

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

description: Arcobacter cibarius KH-2 is a microaerophile, mesophilic, Gram-negative bacterium that was isolated from skin of broiler carcass.

NCBI tax id

NCBI tax idMatching level
255507species
1442598strain

strain history

  • @ref: 7122
  • history: <- K. Houf, Depart. Veterinary Public Health, Merelbeke, Belgium; KH-2

doi: 10.13145/bacdive2096.20230509.8.1

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 cibarius
  • full scientific name: Arcobacter cibarius Houf et al. 2005

  • synonyms

    • @ref: 20215
    • synonym: Aliarcobacter cibarius

@ref: 7122

domain: Bacteria

phylum: Proteobacteria

class: Epsilonproteobacteria

order: Campylobacterales

family: Arcobacteraceae

genus: Arcobacter

species: Arcobacter cibarius

full scientific name: Arcobacter cibarius Houf et al. 2005

strain designation: KH-2

type strain: yes

Morphology

cell morphology

  • @ref: 23169
  • gram stain: negative
  • cell length: 1.5 µm
  • cell width: 0.5 µm
  • cell shape: rod-shaped

colony morphology

  • @ref: 23169
  • type of hemolysis: gamma
  • colony size: 2 mm
  • colony color: whitish
  • incubation period: 3 days
  • medium used: blood agar

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
7122COLUMBIA BLOOD AGAR (DSMZ Medium 429)yeshttps://mediadive.dsmz.de/medium/429Name: COLUMBIA BLOOD AGAR (DSMZ Medium 429) Composition: Horse blood 40.0 g/l Columbia agar base
23169blood agaryes

culture temp

@refgrowthtypetemperaturerange
7122positivegrowth28-37mesophilic
23169positivegrowth18-22psychrophilic
23169nogrowth42thermophilic
58184positivegrowth28-37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
7122microaerophile
58184microaerophile

spore formation

  • @ref: 23169
  • spore formation: no

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2316917632nitrate-reduction
2316918212selenite-reduction
2316978019triphenyltetrazolium chloride-reduction
6837316199urea-hydrolysis
6837317632nitrate+reduction
68373606565hippurate-hydrolysis
6837378019triphenyltetrazolium chloride-reduction
6837317634D-glucose-assimilation
6837330031succinate-assimilation
6837330089acetate-assimilation
6837317272propionate+assimilation
6837325115malate-assimilation
6837316947citrate-assimilation

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitivesensitivity conc.
6837348923erythromycinyesyes14 µg
68373474053cefazolinyesyes224 µg
68373100147nalidixic acidyesyes84 µg

metabolite production

  • @ref: 68373
  • Chebi-ID: 16136
  • metabolite: hydrogen sulfide
  • production: no

enzymes

@refvalueactivityec
23169alkaline phosphatase-3.1.3.1
23169catalase+/-1.11.1.6
23169cytochrome oxidase+1.9.3.1
23169DNase-
23169hippurate hydrolase-3.5.1.32
23169urease-3.5.1.5
68373catalase+1.11.1.6
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
68373esterase-
68373urease-3.5.1.5

API CAM

@refURENITESTHIPGGTTTCPYRAArgAAspAPALH2SGLUSUTNALCFZACEPROPMLTCITEROCAT
7122-+-------+------+---+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling date
7122skin of broiler carcassFlandersBelgiumBELEurope
231692002
58184Broiler skinGentBelgiumBELEurope2002

isolation source categories

Cat1Cat2Cat3
#Host#Birds#Chicken
#Host#Other#Decomposing animal
#Host Body-Site#Organ#Skin, Nail, Hair

Safety information

risk assessment

  • @ref: 7122
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 7122
  • description: Arcobacter cibarius 16S rRNA gene, type strain LMG 21996T
  • accession: AJ607391
  • length: 1460
  • database: ena
  • NCBI tax ID: 255507

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Aliarcobacter cibarius LMG 21996GCA_013372265completencbi255507
66792Aliarcobacter cibarius DSM 17680GCA_005818875contigncbi255507
66792Aliarcobacter cibarius LMG 21996GCA_000522465contigncbi1442598
66792Arcobacter cibarius LMG 219961442598.4wgspatric1442598
66792Arcobacter cibarius strain DSM 17680255507.9wgspatric255507
66792Arcobacter cibarius strain LMG 21996255507.13completepatric255507
66792Arcobacter cibarius LMG 219962576861106draftimg1442598

GC content

  • @ref: 23169
  • GC-content: 26.8-27.3
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes86.85no
flagellatedyes63.056no
gram-positiveno98.374no
anaerobicno85.776yes
aerobicno93.654yes
halophileno95.905no
spore-formingno95.203no
thermophileno94.387no
glucose-utilno86.623yes
glucose-fermentno91.214no

External links

@ref: 7122

culture collection no.: DSM 17680, CCUG 48482, LMG 21996, CIP 108697, CECT 7203

straininfo link

  • @ref: 71743
  • straininfo: 127541

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny15774649Arcobacter cibarius sp. nov., isolated from broiler carcasses.Houf K, On SLW, Coenye T, Mast J, Van Hoof J, Vandamme PInt J Syst Evol Microbiol10.1099/ijs.0.63103-02005Animals, Arcobacter/*classification/genetics/isolation & purification/metabolism, Base Composition, Chickens/*microbiology, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Gram-Negative Bacterial Infections/microbiology/*veterinary, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Poultry Diseases/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNAGenetics
Genetics24558232Draft Genome Sequence of Arcobacter cibarius Strain LMG21996T, Isolated from Broiler Carcasses.Adam Z, Whiteduck-Leveillee K, Cloutier M, Chen W, Lewis CT, Levesque CA, Topp E, Lapen DR, Tambong JT, Talbot G, Khan IUGenome Announc10.1128/genomeA.00034-142014Phylogeny

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
7122Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17680)https://www.dsmz.de/collection/catalogue/details/culture/DSM-17680
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
23169Kurt Houf, Stephen L. W. On, Tom Coenye, Jan Mast, Jan Van Hoof, Peter Vandamme10.1099/ijs.0.63103-0Arcobacter cibarius sp. nov., isolated from broiler carcassesIJSEM 55: 713-717 200515774649
58184Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 48482)https://www.ccug.se/strain?id=48482
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)
68373Automatically annotated from API CAM
71743Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID127541.1StrainInfo: A central database for resolving microbial strain identifiers