Strain identifier

BacDive ID: 159585

Type strain: Yes

Species: Arcobacter cloacae

Strain Designation: SW28-13

Strain history: CIP <- 2016, CECT <- 2010, J. Figueras Salvat, Rovira i Virgili Univ., Reus, Spain strain: SW28-13

NCBI tax ID(s): 1054034 (species)

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General

@ref: 66411

BacDive-ID: 159585

DSM-Number: 111015

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

description: Arcobacter cloacae SW28-13 is a Gram-negative, motile, rod-shaped bacterium that was isolated from sewage of waste water treatment plant.

NCBI tax id

  • NCBI tax id: 1054034
  • Matching level: species

strain history

@refhistory
66411<- CECT; CECT 7834 <- M. J. Figueras, Rovira i Virgili University, Reus, Spain; <- J. Perez; SW28-13
118310CIP <- 2016, CECT <- 2010, J. Figueras Salvat, Rovira i Virgili Univ., Reus, Spain strain: SW28-13

doi: 10.13145/bacdive159585.20240916.9.1

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 cloacae
  • full scientific name: Arcobacter cloacae Levican et al. 2013

  • synonyms

    @refsynonym
    20215Pseudoarcobacter cloacae
    20215Pseudarcobacter cloacae

@ref: 66411

domain: Bacteria

phylum: Proteobacteria

class: Epsilonproteobacteria

order: Campylobacterales

family: Arcobacteraceae

genus: Arcobacter

species: Arcobacter cloacae

full scientific name: Arcobacter cloacae Levican et al. 2013

strain designation: SW28-13

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480negative96.81
118310negativerod-shapedyes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
66411BHI MEDIUM (DSMZ Medium 215)yeshttps://mediadive.dsmz.de/medium/215Name: BHI MEDIUM (DSMZ Medium 215) Composition: Brain heart infusion 37.0 g/l Distilled water
66411COLUMBIA 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
118310CIP Medium 6yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=6
118310CIP Medium 45yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=45

culture temp

@refgrowthtypetemperature
66411positivegrowth30
66411positivegrowth28

Physiology and metabolism

spore formation

@refspore formationconfidence
69480no92.375
69481no97

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836925115malate+assimilation
6836917128adipate-assimilation
6836927689decanoate-assimilation
6836924265gluconate-assimilation
6836917306maltose-assimilation
6836959640N-acetylglucosamine-assimilation
6836916899D-mannitol-assimilation
6836916024D-mannose-assimilation
6836930849L-arabinose-assimilation
6836917634D-glucose-assimilation
683695291gelatin-hydrolysis
683694853esculin-hydrolysis
6836916199urea-hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate+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

@refChebi-IDmetaboliteproduction
6837316136hydrogen sulfideno
6836935581indoleno

metabolite tests

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
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
68369cytochrome oxidase+1.9.3.1
68369gelatinase-
68369beta-glucosidase-3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
66411+----------------+--+

API CAM

@refURENITESTHIPGGTTTCPYRAArgAAspAPALH2SGLUSUTNALCFZACEPROPMLTCITEROCAT
66411-++------+--+--++---+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitudeisolation date
66411sewage of waste water treatment plantReusSpainESPEurope41.15611.1069
118310Environment, Sewage of a Waste Water Treatment Plant (WWTP)Reus, SpainSpainESPEurope2009-03-01

isolation source categories

Cat1Cat2Cat3
#Engineered#Waste#Sewage sludge
#Engineered#Waste#Water treatment plant

taxonmaps

  • @ref: 69479
  • File name: preview.99_1626.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_53;96_923;97_1075;98_1284;99_1626&stattab=map
  • Last taxonomy: Arcobacter
  • 16S sequence: NR_117570
  • Sequence Identity:
  • Total samples: 10767
  • soil counts: 408
  • aquatic counts: 9375
  • animal counts: 847
  • plant counts: 137

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
664111Risk group (German classification)
1183101Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
66411Arcobacter cloacae strain SW28-13 16S ribosomal RNA, partial sequenceNR_1175701402nuccore1054034
66411Arcobacter cloacae partial 16S rRNA gene, type strain SW28-13THE5653601402nuccore1054034

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Arcobacter cloacae LMG 26153GCA_013201935completencbi1054034
66792Arcobacter cloacae CECT 7834GCA_004115805contigncbi1054034
66792Arcobacter cloacae strain CECT 78341054034.7wgspatric1054034
66792Arcobacter cloacae strain LMG 261531054034.9completepatric1054034
66792Arcobacter cloacae CECT 78342873811608draftimg1054034

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69481spore-formingspore-formingAbility to form endo- or exosporesno97no
69480gram-positivegram-positivePositive reaction to Gram-stainingno96.81no
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)yes50.085no
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)no64.305no
69480spore-formingspore-formingAbility to form endo- or exosporesno92.375no
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno86.135yes
69480flagellatedmotile2+Ability to perform flagellated movementyes75.227no

External links

@ref: 66411

culture collection no.: DSM 111015, CECT 7834, LMG 26153, CIP 110784

straininfo link

  • @ref: 112061
  • straininfo: 371534

literature

  • topic: Phylogeny
  • Pubmed-ID: 23265195
  • title: Arcobacter cloacae sp. nov. and Arcobacter suis sp. nov., two new species isolated from food and sewage.
  • authors: Levican A, Collado L, Figueras MJ
  • journal: Syst Appl Microbiol
  • DOI: 10.1016/j.syapm.2012.11.003
  • year: 2012
  • mesh: Arcobacter/chemistry/*classification/genetics/*isolation & purification, Bacterial Typing Techniques, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, DNA-Directed RNA Polymerases/genetics, *Food Microbiology, Meat/*microbiology, Molecular Sequence Data, Multilocus Sequence Typing, Nucleic Acid Hybridization, Phylogeny, Polymorphism, Restriction Fragment Length, RNA, Ribosomal, 16S/genetics, Seafood/*microbiology, Sewage/*microbiology, Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization
  • topic2: Biotechnology

Reference

@idauthorstitledoi/urlcatalogue
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
66411Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-111015Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 111015)
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
68369Automatically annotated from API 20NE
68373Automatically annotated from API CAM
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
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
112061Reimer, 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-ID371534.1
118310Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110784Collection of Institut Pasteur (CIP 110784)