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/bacdive6103.20250331.9.3

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 stainconfidence
67771curved-shapedyesmonotrichous, polar
67771negative
119303rod-shapedyesnegative
125438negative95.149
125439negative99.3

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

@refgrowthtypetemperature
3189positivegrowth37
39856positivegrowth37
46905positivegrowth37
67771positivegrowth37
119303positivegrowth37
119303nogrowth45

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
3189microaerophile
46905microaerophile
67771microaerophile
125439obligate aerobe90.8

spore formation

@refspore formationconfidence
67771no
125438no92.167
125439no99

halophily

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6837330089acetate-assimilation
6837316947citrate-assimilation
6837378019triphenyltetrazolium chloride+reduction
68373606565hippurate-hydrolysis
6837317632nitrate-reduction
119303606565hippurate+hydrolysis
11930317632nitrate-reduction
11930316301nitrite-reduction
68371Potassium 5-ketogluconate-builds acid from
6837118305arbutin-builds acid from
6837127613amygdalin-builds acid from
68371320061methyl alpha-D-glucopyranoside-builds acid from
6837112936D-galactose-builds acid from
6837316199urea-hydrolysis
68371Potassium 2-ketogluconate-builds acid from
6837124265gluconate-builds acid from
6837118403L-arabitol-builds acid from
6837118333D-arabitol-builds acid from
6837118287L-fucose-builds acid from
6837128847D-fucose-builds acid from
6837116443D-tagatose-builds acid from
6837162318D-lyxose-builds acid from
6837132528turanose-builds acid from
6837128066gentiobiose-builds acid from
6837117151xylitol-builds acid from
6837128087glycogen-builds acid from
6837128017starch-builds acid from
6837116634raffinose-builds acid from
683716731melezitose-builds acid from
6837115443inulin-builds acid from
6837127082trehalose-builds acid from
6837117992sucrose-builds acid from
6837128053melibiose-builds acid from
6837117716lactose-builds acid from
6837117306maltose-builds acid from
6837117057cellobiose-builds acid from
6837117814salicin-builds acid from
683714853esculin-builds acid from
6837159640N-acetylglucosamine-builds acid from
6837143943methyl alpha-D-mannoside-builds acid from
6837117924D-sorbitol-builds acid from
6837116899D-mannitol-builds acid from
6837117268myo-inositol-builds acid from
6837116813galactitol-builds acid from
6837162345L-rhamnose-builds acid from
6837117266L-sorbose-builds acid from
6837116024D-mannose-builds acid from
6837115824D-fructose-builds acid from
6837117634D-glucose-builds acid from
6837174863methyl beta-D-xylopyranoside-builds acid from
6837115963ribitol-builds acid from
6837165328L-xylose-builds acid from
6837165327D-xylose-builds acid from
6837116988D-ribose-builds acid from
6837130849L-arabinose-builds acid from
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from
6837117754glycerol-builds acid from

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-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51
68382N-acetyl-beta-glucosaminidase-3.2.1.52
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+
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
68382trypsin-3.4.21.4
68382cystine arylamidase-3.4.11.3
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
119303oxidase+
119303gelatinase-
119303catalase+1.11.1.6
119303gamma-glutamyltransferase+2.3.2.2
119303tryptophan deaminase-
119303urease-3.5.1.5
68373pyrrolidonyl arylamidase-3.4.19.3
68382beta-glucosidase-3.2.1.21
68382valine arylamidase-
68373catalase+1.11.1.6
68373alkaline phosphatase+3.1.3.1
68373L-aspartate arylamidase-3.4.11.21
68373gamma-glutamyltransferase-2.3.2.2
68373esterase+
68373urease-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 sequenceAF3487471676nuccore215
20218Helicobacter fennelliae strain NCTC 11612 16S ribosomal RNA gene, partial sequenceAF3487461676nuccore215
3189Helicobacter fennelliae 16S ribosomal RNA gene, partial sequenceM881541833nuccore215

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

@refmodeltraitdescriptionpredictionconfidencetraining_data
125438gram-positivegram-positivePositive reaction to Gram-stainingno95.149yes
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no72.332yes
125438spore-formingspore-formingAbility to form endo- or exosporesno92.167no
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)no82.835no
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno80.914yes
125438motile2+flagellatedAbility to perform flagellated movementyes63.877yes
125439BacteriaNetspore_formationAbility to form endo- or exosporesno99
125439BacteriaNetmotilityAbility to perform movementno75
125439BacteriaNetgram_stainReaction to gram-stainingnegative99.3
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthobligate aerobe90.8

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
125438Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann10.1101/2024.08.12.607695Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets
125439Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardyhttps://github.com/GenomeNet/deepGdeepG: Deep Learning for Genome Sequence Data. R package version 0.3.1