Strain identifier

BacDive ID: 4377

Type strain: Yes

Species: Franconibacter helveticus

Strain Designation: 513/05

Strain history: LMG 23732 <-- R. Stephan 513/05.

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 7524

BacDive-ID: 4377

DSM-Number: 18396

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, mesophilic, Gram-negative, motile, coccus-shaped

description: Franconibacter helveticus 513/05 is a facultative anaerobe, mesophilic, Gram-negative bacterium that was isolated from fruit powder.

NCBI tax id

NCBI tax idMatching level
357240species
1387568strain

strain history

@refhistory
7524<- R. Stephan, Inst. for Food Safety and Hygiene, Zuerich; 513/0
67770LMG 23732 <-- R. Stephan 513/05.

doi: 10.13145/bacdive4377.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Enterobacterales
  • family: Enterobacteriaceae
  • genus: Franconibacter
  • species: Franconibacter helveticus
  • full scientific name: Franconibacter helveticus (Stephan et al. 2007) Stephan et al. 2014
  • synonyms

    @refsynonym
    20215Enterobacter helveticus
    20215Cronobacter helveticus

@ref: 7524

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Enterobacteriales, not validated

family: Enterobacteriaceae

genus: Franconibacter

species: Franconibacter helveticus

full scientific name: Franconibacter helveticus (Stephan et al. 2007) Stephan et al. 2014

strain designation: 513/05

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
31918negative1.5-2.5 µm1 µmcoccus-shapedyes
69480yes97.169
69480negative99.96

pigmentation

  • @ref: 31918
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
7524COLUMBIA 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
7524TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)yeshttps://mediadive.dsmz.de/medium/535Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
34214MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)

culture temp

@refgrowthtypetemperaturerange
7524positivegrowth37mesophilic
31918positivegrowth10-44
31918positiveoptimum27mesophilic
34214positivegrowth30mesophilic
60404positivegrowth30-37mesophilic
67770positivegrowth30mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
31918facultative anaerobe
60404aerobe

spore formation

@refspore formationconfidence
31918no
69481no100
69480no99.211

observation

  • @ref: 31918
  • observation: aggregates in clumps

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
31918161933-hydroxybenzoate+carbon source
3191816449alanine+carbon source
3191822599arabinose+carbon source
3191835391aspartate+carbon source
3191817057cellobiose+carbon source
3191828757fructose+carbon source
3191828260galactose+carbon source
3191824265gluconate+carbon source
319185417glucosamine+carbon source
3191817234glucose+carbon source
3191829987glutamate+carbon source
3191817754glycerol+carbon source
3191824996lactate+carbon source
3191817716lactose+carbon source
3191825115malate+carbon source
3191817306maltose+carbon source
3191829864mannitol+carbon source
3191837684mannose+carbon source
3191828053melibiose+carbon source
3191826271proline+carbon source
3191826546rhamnose+carbon source
3191833942ribose+carbon source
3191817822serine+carbon source
3191827082trehalose+carbon source
3191818222xylose+carbon source
319184853esculin+hydrolysis
6836830849L-arabinose+fermentation
6836827613amygdalin+fermentation
6836828053melibiose+fermentation
6836817992sucrose-fermentation
6836862345L-rhamnose+fermentation
6836830911sorbitol-fermentation
6836817268myo-inositol-fermentation
6836816899D-mannitol+fermentation
6836817634D-glucose+fermentation
6836827897tryptophan-energy source
6836816199urea-hydrolysis
6836818257ornithine-degradation
6836825094lysine-degradation
6836829016arginine-hydrolysis

metabolite production

@refChebi-IDmetaboliteproduction
6836835581indoleno
6836816136hydrogen sulfideno

metabolite tests

  • @ref: 68368
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
31918catalase+1.11.1.6
31918cytochrome oxidase+1.9.3.1
68368cytochrome oxidase-1.9.3.1
68368tryptophan deaminase-4.1.99.1
68368urease-3.5.1.5
68368ornithine decarboxylase-4.1.1.17
68368lysine decarboxylase-4.1.1.18
68368arginine dihydrolase-3.5.3.6
68368beta-galactosidase+3.2.1.23

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGELGLUMANINOSorRHASACMELAMYARAOX
7524+---+----+/-+++--+-+++-
7524+----------++--+-+++-
7524+---------+++--+-+++-

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
7524fruit powderSwitzerlandCHEEurope
60404Fruit powderSwitzerlandCHEEurope
67770Fruit powder

isolation source categories

  • Cat1: #Host Body-Site
  • Cat2: #Plant
  • Cat3: #Fruit (Seed)

Safety information

risk assessment

  • @ref: 7524
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
7524Enterobacter helveticus strain LMG 23732 16S ribosomal RNA gene, partial sequenceDQ2736881245ena357240
67770Enterobacter helveticus strain LMG 23732 16S ribosomal RNA gene, partial sequenceJX9869781418ena357240

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Franconibacter helveticus LMG 237321387568.4wgspatric1387568
66792Franconibacter helveticus strain 513 (LMG 23732)1405120.4wgspatric1405120
66792Franconibacter helveticus LMG 237322617271155draftimg1405120
67770Franconibacter helveticus LMG 23732 LMG23732TGCA_000463115scaffoldncbi1387568
66792Franconibacter helveticus 513 513 (LMG 23732)GCA_000485945contigncbi1405120

GC content

@refGC-contentmethod
752455.2
6777055.2high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes89.361yes
gram-positiveno98.146no
anaerobicno97.076no
halophileno89.667no
spore-formingno92.965yes
thermophileno99.434no
glucose-utilyes95.575yes
aerobicyes76.437no
flagellatedno69.99no
glucose-fermentyes90.551yes

External links

@ref: 7524

culture collection no.: DSM 18396, CCUG 54944, CIP 109630, LMG 23732, JCM 16470

straininfo link

  • @ref: 73868
  • straininfo: 302750

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny17392213Enterobacter turicensis sp. nov. and Enterobacter helveticus sp. nov., isolated from fruit powder.Stephan R, Van Trappen S, Cleenwerck I, Vancanneyt M, De Vos P, Lehner AInt J Syst Evol Microbiol10.1099/ijs.0.64650-02007DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Enterobacter/*classification/genetics/isolation & purification, Fruit/*microbiology, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/geneticsGenetics
Genetics24072872Draft Genome Sequences of Three Newly Identified Species in the Genus Cronobacter, C. helveticus LMG23732T, C. pulveris LMG24059, and C. zurichensis LMG23730T.Masood N, Moore K, Farbos A, Hariri S, Paszkiewicz K, Dickins B, McNally A, Forsythe SGenome Announc10.1128/genomeA.00783-132013
Phylogeny25028159Re-examination of the taxonomic status of Enterobacter helveticus, Enterobacter pulveris and Enterobacter turicensis as members of the genus Cronobacter and their reclassification in the genera Franconibacter gen. nov. and Siccibacter gen. nov. as Franconibacter helveticus comb. nov., Franconibacter pulveris comb. nov. and Siccibacter turicensis comb. nov., respectively.Stephan R, Grim CJ, Gopinath GR, Mammel MK, Sathyamoorthy V, Trach LH, Chase HR, Fanning S, Tall BDInt J Syst Evol Microbiol10.1099/ijs.0.059832-02014Bacterial Typing Techniques, Cronobacter/*classification/genetics, DNA, Bacterial/genetics, Enterobacter/*classification/genetics, Enterobacteriaceae/*classification/genetics, Genes, Bacterial, Molecular Sequence Data, Multilocus Sequence Typing, Nucleic Acid Hybridization, *Phylogeny, Polymorphism, Single Nucleotide, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNAGenetics
Enzymology27288973Structural characterization of the O-polysaccharide isolated from Franconibacter helveticus LMG23732(T).Szulta S, Czerwicka M, Forsythe SJ, Ossowska K, Dziadziuszko H, Kaczynski ZCarbohydr Res10.1016/j.carres.2016.05.0052016Carbohydrate Sequence, Enterobacteriaceae/chemistry/*metabolism, Molecular Structure, Nuclear Magnetic Resonance, Biomolecular, O Antigens/*chemistry/*isolation & purification, Polysaccharides, Bacterial/chemistry/isolation & purificationPhylogeny
Enzymology27966630Arsenic resistance strategy in Pantoea sp. IMH: Organization, function and evolution of ars genes.Wang L, Zhuang X, Zhuang G, Jing CSci Rep10.1038/srep391952016Adaptation, Physiological, Arsenic/*pharmacology, Bacterial Proteins/*genetics/*metabolism, Cloning, Molecular, *Drug Resistance, Bacterial, Evolution, Molecular, Gene Expression Regulation, Bacterial, Gene Transfer, Horizontal, Multigene Family, Pantoea/drug effects/genetics/*growth & development, Sequence Analysis, DNA, Sequence Homology, TemperatureTranscriptome
Phylogeny29034856Franconibacter daqui sp. nov., a facultatively alkaliphilic species isolated from a Daqu sample.Gao Z, Su C, Yang X, Sun D, Zeng C, Chen M, Hu W, Zhang CInt J Syst Evol Microbiol10.1099/ijsem.0.0023582017Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Enterobacteriaceae/*classification/genetics/isolation & purification, Fatty Acids/chemistry, Fermented Foods/*microbiology, *Food Microbiology, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Ubiquinone/chemistry, Vitamin K 2/analogs & derivatives/chemistryBiotechnology
29525186Efficient synthesis of a 6-deoxy-talose containing tetrasccharide found in Franconibacter helveticus LMG23732(T).Xu Y, Xu T, Zhang JCarbohydr Res10.1016/j.carres.2018.01.0022018Enterobacteriaceae/*chemistry, Lipopolysaccharides/*chemistry, Polysaccharides, Bacterial/*chemistry

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
7524Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18396)https://www.dsmz.de/collection/catalogue/details/culture/DSM-18396
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
31918Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2817528776041
34214Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7395
60404Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 54944)https://www.ccug.se/strain?id=54944
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68368Automatically annotated from API 20E
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
73868Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID302750.1StrainInfo: A central database for resolving microbial strain identifiers