Strain identifier

BacDive ID: 131136

Type strain: Yes

Species: Campylobacter lanienae

Strain history: CIP <- 2002, CCUG <- 1990, LMG <- A. Burnens, VBI, Berne, Switzerland

NCBI tax ID(s): 1031753 (strain), 75658 (species)

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General

@ref: 22428

BacDive-ID: 131136

DSM-Number: 101946

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

description: Campylobacter lanienae DSM 101946 is a microaerophile, mesophilic, Gram-negative bacterium that was isolated from faecal sample of healthy, 21-year-old abattoir worker.

NCBI tax id

NCBI tax idMatching level
75658species
1031753strain

strain history

@refhistory
22428<- NCTC; NCTC 13004 <- J. M. J. Logan <- M. Heitz, CHUV University Hospital, Lausanne, Switzerland
120556CIP <- 2002, CCUG <- 1990, LMG <- A. Burnens, VBI, Berne, Switzerland

doi: 10.13145/bacdive131136.20230509.8.1

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 lanienae
  • full scientific name: Campylobacter lanienae Logan et al. 2000

@ref: 22428

domain: Bacteria

phylum: Proteobacteria

class: Epsilonproteobacteria

order: Campylobacterales

family: Campylobacteraceae

genus: Campylobacter

species: Campylobacter lanienae

full scientific name: Campylobacter lanienae Logan et al. 2000

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480negative99.988
120556negativerod-shapedyes

colony morphology

@refincubation period
224281-2 days
563272-4 days
120556

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
22428COLUMBIA 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
39581MEDIUM 6 - Columbia agar with 10 % horse bloodyesDistilled water make up to (1000.000 ml);Columbia agar (39.000 g);Horseblood (100.000 ml)
120556Brucella brothyes
120556CIP Medium 6yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=6

culture temp

@refgrowthtypetemperaturerange
22428positivegrowth37mesophilic
39581positivegrowth37mesophilic
56327positivegrowth37-42
120556positivegrowth37-41
120556nogrowth5psychrophilic
120556nogrowth10psychrophilic
120556nogrowth25mesophilic
120556nogrowth30mesophilic
120556nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
22428microaerophile
56327microaerophile
120556microaerophile

spore formation

@refspore formationconfidence
69481no98
69480no99.991

halophily

  • @ref: 120556
  • salt: NaCl
  • growth: no
  • tested relation: growth
  • concentration: 3.5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
12055617632nitrate+reduction
12055616301nitrite-reduction
6837316199urea-hydrolysis
6837317632nitrate+reduction
68373606565hippurate-hydrolysis
6837317634D-glucose-assimilation
6837330089acetate-assimilation
6837325115malate-assimilation
6837316947citrate-assimilation
6838016199urea-hydrolysis
6838029016arginine-hydrolysis
6838016024D-mannose-fermentation
6838016634raffinose-fermentation
6838029985L-glutamate-degradation
6838017632nitrate-reduction
6838027897tryptophan-energy source

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitivesensitivity conc.is resistant
68373100147nalidixic acidyesyes84 µg
1205560129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)yesnoyes

metabolite production

@refChebi-IDmetaboliteproduction
6837316136hydrogen sulfideno
12055635581indoleno
6838035581indoleno

metabolite tests

  • @ref: 68380
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
22428catalase+1.11.1.6
22428cytochrome-c oxidase-1.9.3.1
68380serine arylamidase-
68380glutamyl-glutamate arylamidase-
68380histidine arylamidase-
68380glycin arylamidase-
68380alanine arylamidase-3.4.11.2
68380tyrosine arylamidase-
68380pyrrolidonyl arylamidase-3.4.19.3
68380leucine arylamidase+3.4.11.1
68380phenylalanine arylamidase-
68380leucyl glycin arylamidase-3.4.11.1
68380proline-arylamidase-3.4.11.5
68380L-arginine arylamidase+
68380alkaline phosphatase+3.1.3.1
68380tryptophan deaminase-4.1.99.1
68380alpha-fucosidase-3.2.1.51
68380glutamate decarboxylase-4.1.1.15
68380N-acetyl-beta-glucosaminidase-3.2.1.52
68380beta-glucuronidase-3.2.1.31
68380alpha-arabinosidase-3.2.1.55
68380beta-glucosidase-3.2.1.21
68380alpha-glucosidase-3.2.1.20
68380beta-Galactosidase 6-phosphate-
68380beta-galactosidase-3.2.1.23
68380alpha-galactosidase-3.2.1.22
68380arginine dihydrolase-3.5.3.6
68380urease-3.5.1.5
68373catalase+1.11.1.6
68373alkaline phosphatase+3.1.3.1
68373L-aspartate arylamidase-3.4.11.21
68373pyrrolidonyl arylamidase-3.4.19.3
68373gamma-glutamyltransferase-2.3.2.2
68373urease-3.5.1.5
120556oxidase+
120556gelatinase-
120556catalase+1.11.1.6
120556gamma-glutamyltransferase+2.3.2.2
120556urease-3.5.1.5
68382alkaline phosphatase+3.1.3.1
68382lipase (C 14)-
68382leucine arylamidase-3.4.11.1
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382beta-glucosidase-3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
56327-+--------++--------
120556-+++------++---+----

API CAM

@refURENITESTHIPGGTTTCPYRAArgAAspAPALH2SGLUSUTNALCFZACEPROPMLTCITEROCAT
22428-+---+---+--+/--+/--+/----+
56327-++--+-+-+--+---+--++
22428-+-------+------+---+

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
56327----------------++---+-------

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
22428faecal sample of healthy, 21-year-old abattoir workerSwitzerlandCHEEurope
56327Human,asymptomatic worker in an abattoirSwitzerlandCHEEurope
120556Human, Asymptomatic worker in an abattoirSwitzerlandCHEEurope

isolation source categories

Cat1Cat2Cat3
#Infection#Patient
#Host Body Product#Gastrointestinal tract#Feces (Stool)

taxonmaps

  • @ref: 69479
  • File name: preview.99_29338.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15775;96_584;97_1515;98_3946;99_29338&stattab=map
  • Last taxonomy: Campylobacter lanienae subclade
  • 16S sequence: AF043424
  • Sequence Identity:
  • Total samples: 694
  • soil counts: 1
  • aquatic counts: 3
  • animal counts: 689
  • plant counts: 1

Safety information

risk assessment

  • @ref: 120556
  • biosafety level: 2
  • biosafety level comment: Risk group (French classification)

Sequence information

16S sequences

  • @ref: 22428
  • description: Campylobacter cf. lanienae UB 994 16S ribosomal RNA gene, partial sequence
  • accession: AF043424
  • length: 1474
  • database: ena
  • NCBI tax ID: 98336

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Campylobacter lanienae NCTC 13004GCA_002139935completencbi1031753
66792Campylobacter lanienae NCTC 13004 strain NCTC 130041031753.3completepatric1031753

GC content

  • @ref: 22428
  • GC-content: 36
  • method: thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno98no
flagellatedyes64.542no
gram-positiveno98.781no
anaerobicno86.766no
halophileno90.722no
spore-formingno94.786no
glucose-utilno92.273yes
aerobicno98.338yes
thermophileno85.934no
motileyes91.697no
glucose-fermentno87.017no

External links

@ref: 22428

culture collection no.: DSM 101946, NCTC 13004, CCUG 44467, CIP 106785

straininfo link

  • @ref: 89590
  • straininfo: 26326

literature

  • topic: Phylogeny
  • Pubmed-ID: 24628887
  • title: Isolation of a Campylobacter lanienae-like bacterium from laboratory chinchillas (Chinchilla laniger).
  • authors: Turowski EE, Shen Z, Ducore RM, Parry NM, Kirega A, Dewhirst FE, Fox JG
  • journal: Zoonoses Public Health
  • DOI: 10.1111/zph.12107
  • year: 2014
  • mesh: Animals, Bacterial Proteins/genetics, Base Sequence, Campylobacter/genetics/*isolation & purification, Campylobacter Infections/microbiology/*veterinary, Chinchilla/*microbiology, DNA Primers/genetics, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Feces/microbiology, Gastroenteritis/microbiology/*veterinary, Male, Models, Animal, Molecular Sequence Data, Phylogeny, Polymerase Chain Reaction, Rodent Diseases/*microbiology, Sequence Analysis, DNA, Species Specificity, Stomach/microbiology, Stomach Ulcer/microbiology/*veterinary
  • topic2: Genetics

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
22428Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-101946Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 101946)
39581Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/18953
56327Curators of the CCUGhttps://www.ccug.se/strain?id=44467Culture Collection University of Gothenburg (CCUG) (CCUG 44467)
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
68373Automatically annotated from API CAM
68380Automatically annotated from API rID32A
68382Automatically annotated from API zym
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
89590Reimer, 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-ID26326.1
120556Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106785Collection of Institut Pasteur (CIP 106785)