Strain identifier

BacDive ID: 6103

Type strain: Yes

Species: Helicobacter fennelliae

Strain Designation: 231, CLO-2

Strain history: CIP <- 1994, CCUG <- 1986, C. Fennell, Seattle, USA: strain 231, Campylobacter fennelliae

NCBI tax ID(s): 215 (species)

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General

@ref: 3189

BacDive-ID: 6103

DSM-Number: 7491

keywords: genome sequence, 16S sequence, Bacteria, microaerophile, mesophilic, motile, curved-shaped

description: Helicobacter fennelliae 231 is a microaerophile, mesophilic, motile bacterium that was isolated from rectal swab of human.

NCBI tax id

  • NCBI tax id: 215
  • Matching level: species

strain history

@refhistory
3189<- CCUG <- C.L. Fennell, 231
67771<- CCUG <- CL Fennell, Seattle, USA, 231
119303CIP <- 1994, CCUG <- 1986, C. Fennell, Seattle, USA: strain 231, Campylobacter fennelliae

doi: 10.13145/bacdive6103.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Epsilonproteobacteria
  • order: Campylobacterales
  • family: Helicobacteraceae
  • genus: Helicobacter
  • species: Helicobacter fennelliae
  • full scientific name: Helicobacter fennelliae (Totten et al. 1988) Vandamme et al. 1991

  • synonyms

    • @ref: 20215
    • synonym: Campylobacter fennelliae

@ref: 3189

domain: Bacteria

phylum: Proteobacteria

class: Epsilonproteobacteria

order: Campylobacterales

family: Helicobacteraceae

genus: Helicobacter

species: Helicobacter fennelliae

full scientific name: Helicobacter fennelliae (Totten et al. 1988) Vandamme et al. 1991

strain designation: 231, CLO-2

type strain: yes

Morphology

cell morphology

@refcell shapemotilityflagellum arrangementgram stain
67771curved-shapedyesmonotrichous, polar
67771negative
119303rod-shapedyesnegative

colony morphology

@refincubation period
31891-2 days
469053 days
119303

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
3189COLUMBIA 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
39856MEDIUM 45 - for Columbia agar with sheep bloodyesDistilled water make up to (1000.000 ml);Columbia agar (39.000 g);Sheepblood (100.000 ml)
119303Brucella brothyes
119303CIP Medium 45yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=45

culture temp

@refgrowthtypetemperaturerange
3189positivegrowth37mesophilic
39856positivegrowth37mesophilic
46905positivegrowth37mesophilic
67771positivegrowth37mesophilic
119303positivegrowth37mesophilic
119303nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
3189microaerophile
46905microaerophile
67771microaerophile

spore formation

  • @ref: 67771
  • spore formation: no

halophily

  • @ref: 119303
  • salt: NaCl
  • growth: no
  • tested relation: growth
  • concentration: 3.5 %

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
68371gluconate-builds acid from24265
68371L-arabitol-builds acid from18403
68371D-arabitol-builds acid from18333
68371L-fucose-builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose-builds acid from16443
68371D-lyxose-builds acid from62318
68371turanose-builds acid from32528
68371gentiobiose-builds acid from28066
68371xylitol-builds acid from17151
68371glycogen-builds acid from28087
68371starch-builds acid from28017
68371raffinose-builds acid from16634
68371melezitose-builds acid from6731
68371inulin-builds acid from15443
68371trehalose-builds acid from27082
68371sucrose-builds acid from17992
68371melibiose-builds acid from28053
68371lactose-builds acid from17716
68371maltose-builds acid from17306
68371cellobiose-builds acid from17057
68371salicin-builds acid from17814
68371esculin-builds acid from4853
68371arbutin-builds acid from18305
68371amygdalin-builds acid from27613
68371N-acetylglucosamine-builds acid from59640
68371methyl alpha-D-glucopyranoside-builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol-builds acid from17924
68371D-mannitol-builds acid from16899
68371myo-inositol-builds acid from17268
68371galactitol-builds acid from16813
68371L-rhamnose-builds acid from62345
68371L-sorbose-builds acid from17266
68371D-mannose-builds acid from16024
68371D-fructose-builds acid from15824
68371D-glucose-builds acid from17634
68371D-galactose-builds acid from12936
68371methyl beta-D-xylopyranoside-builds acid from74863
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
68371D-xylose-builds acid from65327
68371D-ribose-builds acid from16988
68371L-arabinose-builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
68371glycerol-builds acid from17754
119303hippurate+hydrolysis606565
119303nitrate-reduction17632
119303nitrite-reduction16301
68373urea-hydrolysis16199
68373nitrate-reduction17632
68373hippurate-hydrolysis606565
68373triphenyltetrazolium chloride+reduction78019
68373acetate-assimilation30089
68373citrate-assimilation16947

antibiotic resistance

  • @ref: 68373
  • ChEBI: 48923
  • metabolite: erythromycin
  • is antibiotic: yes
  • is sensitive: yes
  • sensitivity conc.: 14 µg

metabolite production

@refChebi-IDmetaboliteproduction
6837316136hydrogen sulfideno
11930335581indoleno

enzymes

@refvalueactivityec
3189catalase+1.11.1.6
3189cytochrome-c oxidase+1.9.3.1
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase+3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin-3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase-
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
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
68373esterase+
68373urease-3.5.1.5
119303oxidase+
119303gelatinase-
119303catalase+1.11.1.6
119303gamma-glutamyltransferase+2.3.2.2
119303tryptophan deaminase-
119303urease-3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
119303-+++-+----++---+----

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
119303-------------------------------------------------

API CAM

@refURENITESTHIPGGTTTCPYRAArgAAspAPALH2SGLUSUTNALCFZACEPROPMLTCITEROCAT
3189--+--+-+/--+-++++-++--+
3189--+--+-+-+----------+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
3189rectal swab of humanSeattleUSAUSANorth America
46905Human rectal swabSeattleUSAUSANorth America
67771From human rectal swabSeattleUSAUSANorth America
119303Human, Homosexual male, rectal swabSeattle, WashingtonUnited States of AmericaUSANorth America

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_620.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_36;96_392;97_442;98_504;99_620&stattab=map
  • Last taxonomy: Helicobacter
  • 16S sequence: M88154
  • Sequence Identity:
  • Total samples: 620
  • soil counts: 3
  • aquatic counts: 8
  • animal counts: 609

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
31892Risk group (German classification)
1193032Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Helicobacter fennelliae strain LMG 7546 16S ribosomal RNA gene, partial sequenceAF3487471676ena215
20218Helicobacter fennelliae strain NCTC 11612 16S ribosomal RNA gene, partial sequenceAF3487461676ena215
3189Helicobacter fennelliae 16S ribosomal RNA gene, partial sequenceM881541833ena215

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Helicobacter fennelliae DSM 7491GCA_017979365contigncbi215
66792Helicobacter fennelliae strain DSM 7491215.29wgspatric215

GC content

  • @ref: 3189
  • GC-content: 37.4
  • method: thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes86.813no
gram-positiveno99.05yes
anaerobicno78.907yes
aerobicno96.002yes
halophileno84.702no
spore-formingno95.083no
glucose-utilno73.511no
flagellatedno51.954yes
thermophileno90.321no
glucose-fermentno80.289no

External links

@ref: 3189

culture collection no.: DSM 7491, ATCC 35684, CCUG 18820, LMG 7546, NCTC 11612, CIP 103758, KCTC 15214

straininfo link

  • @ref: 75591
  • straininfo: 7690

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny11015417A probable new Helicobacter species isolated from a patient with bacteremia.Tee W, Hinds S, Montgomery J, Dyall-Smith MLJ Clin Microbiol10.1128/JCM.38.10.3846-3848.20002000Australia, Bacteremia/*microbiology, DNA, Ribosomal/genetics, Helicobacter/*classification/genetics/isolation & purification, Helicobacter Infections/*diagnosis, Humans, Infant, Introns, Male, Native Hawaiian or Other Pacific Islander, Phylogeny, RNA, Ribosomal, 16S/geneticsPathogenicity
Phylogeny22567323Molecular Characterization of the 16S rRNA Gene of Helicobacter fennelliae Isolated from Stools and Blood Cultures from Paediatric Patients in South Africa.Smuts HE, Lastovica AJJ Pathog10.4061/2011/2173762010
Pathogenicity26639044First case report of bacteremia due to 'Campylobacter-like organism 3'.Nakamura I, Ohkusu K, Nakagami Y, Tachibana M, Matsumoto TInt J Infect Dis10.1016/j.ijid.2015.11.0172015Aged, Bacteremia/*microbiology, Helicobacter/*isolation & purification, Humans, MaleEnzymology

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
3189Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 7491)https://www.dsmz.de/collection/catalogue/details/culture/DSM-7491
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
39856Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/15591
46905Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 18820)https://www.ccug.se/strain?id=18820
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)
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
68371Automatically annotated from API 50CH acid
68373Automatically annotated from API CAM
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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
75591Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID7690.1StrainInfo: A central database for resolving microbial strain identifiers
119303Curators of the CIPCollection of Institut Pasteur (CIP 103758)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103758