Strain identifier
BacDive ID: 4377
Type strain:
Species: Franconibacter helveticus
Strain Designation: 513/05
Strain history: LMG 23732 <-- R. Stephan 513/05.
NCBI tax ID(s): 1387568 (strain), 357240 (species)
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 id | Matching level |
---|---|
357240 | species |
1387568 | strain |
strain history
@ref | history |
---|---|
7524 | <- R. Stephan, Inst. for Food Safety and Hygiene, Zuerich; 513/0 |
67770 | LMG 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
@ref synonym 20215 Enterobacter helveticus 20215 Cronobacter 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
@ref | gram stain | cell length | cell width | cell shape | motility | confidence |
---|---|---|---|---|---|---|
31918 | negative | 1.5-2.5 µm | 1 µm | coccus-shaped | yes | |
69480 | yes | 97.169 | ||||
69480 | negative | 99.96 |
pigmentation
- @ref: 31918
- production: yes
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
7524 | COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) | yes | https://mediadive.dsmz.de/medium/693 | Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base |
7524 | TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) | yes | https://mediadive.dsmz.de/medium/535 | Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water |
34214 | MEDIUM 72- for trypto casein soja agar | yes | Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g) |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
7524 | positive | growth | 37 | mesophilic |
31918 | positive | growth | 10-44 | |
31918 | positive | optimum | 27 | mesophilic |
34214 | positive | growth | 30 | mesophilic |
60404 | positive | growth | 30-37 | mesophilic |
67770 | positive | growth | 30 | mesophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
31918 | facultative anaerobe |
60404 | aerobe |
spore formation
@ref | spore formation | confidence |
---|---|---|
31918 | no | |
69481 | no | 100 |
69480 | no | 99.211 |
observation
- @ref: 31918
- observation: aggregates in clumps
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
31918 | 16193 | 3-hydroxybenzoate | + | carbon source |
31918 | 16449 | alanine | + | carbon source |
31918 | 22599 | arabinose | + | carbon source |
31918 | 35391 | aspartate | + | carbon source |
31918 | 17057 | cellobiose | + | carbon source |
31918 | 28757 | fructose | + | carbon source |
31918 | 28260 | galactose | + | carbon source |
31918 | 24265 | gluconate | + | carbon source |
31918 | 5417 | glucosamine | + | carbon source |
31918 | 17234 | glucose | + | carbon source |
31918 | 29987 | glutamate | + | carbon source |
31918 | 17754 | glycerol | + | carbon source |
31918 | 24996 | lactate | + | carbon source |
31918 | 17716 | lactose | + | carbon source |
31918 | 25115 | malate | + | carbon source |
31918 | 17306 | maltose | + | carbon source |
31918 | 29864 | mannitol | + | carbon source |
31918 | 37684 | mannose | + | carbon source |
31918 | 28053 | melibiose | + | carbon source |
31918 | 26271 | proline | + | carbon source |
31918 | 26546 | rhamnose | + | carbon source |
31918 | 33942 | ribose | + | carbon source |
31918 | 17822 | serine | + | carbon source |
31918 | 27082 | trehalose | + | carbon source |
31918 | 18222 | xylose | + | carbon source |
31918 | 4853 | esculin | + | hydrolysis |
68368 | 30849 | L-arabinose | + | fermentation |
68368 | 27613 | amygdalin | + | fermentation |
68368 | 28053 | melibiose | + | fermentation |
68368 | 17992 | sucrose | - | fermentation |
68368 | 62345 | L-rhamnose | + | fermentation |
68368 | 30911 | sorbitol | - | fermentation |
68368 | 17268 | myo-inositol | - | fermentation |
68368 | 16899 | D-mannitol | + | fermentation |
68368 | 17634 | D-glucose | + | fermentation |
68368 | 27897 | tryptophan | - | energy source |
68368 | 16199 | urea | - | hydrolysis |
68368 | 18257 | ornithine | - | degradation |
68368 | 25094 | lysine | - | degradation |
68368 | 29016 | arginine | - | hydrolysis |
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
68368 | 35581 | indole | no |
68368 | 16136 | hydrogen sulfide | no |
metabolite tests
- @ref: 68368
- Chebi-ID: 35581
- metabolite: indole
- indole test: -
enzymes
@ref | value | activity | ec |
---|---|---|---|
31918 | catalase | + | 1.11.1.6 |
31918 | cytochrome oxidase | + | 1.9.3.1 |
68368 | cytochrome oxidase | - | 1.9.3.1 |
68368 | tryptophan deaminase | - | 4.1.99.1 |
68368 | urease | - | 3.5.1.5 |
68368 | ornithine decarboxylase | - | 4.1.1.17 |
68368 | lysine decarboxylase | - | 4.1.1.18 |
68368 | arginine dihydrolase | - | 3.5.3.6 |
68368 | beta-galactosidase | + | 3.2.1.23 |
API 20E
@ref | ONPG | ADH Arg | LDC Lys | ODC | CIT | H2S | URE | TDA Trp | IND | VP | GEL | GLU | MAN | INO | Sor | RHA | SAC | MEL | AMY | ARA | OX |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
7524 | + | - | - | - | + | - | - | - | - | +/- | + | + | + | - | - | + | - | + | + | + | - |
7524 | + | - | - | - | - | - | - | - | - | - | - | + | + | - | - | + | - | + | + | + | - |
7524 | + | - | - | - | - | - | - | - | - | - | + | + | + | - | - | + | - | + | + | + | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | country | origin.country | continent |
---|---|---|---|---|
7524 | fruit powder | Switzerland | CHE | Europe |
60404 | Fruit powder | Switzerland | CHE | Europe |
67770 | Fruit 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
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
7524 | Enterobacter helveticus strain LMG 23732 16S ribosomal RNA gene, partial sequence | DQ273688 | 1245 | ena | 357240 |
67770 | Enterobacter helveticus strain LMG 23732 16S ribosomal RNA gene, partial sequence | JX986978 | 1418 | ena | 357240 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Franconibacter helveticus LMG 23732 | 1387568.4 | wgs | patric | 1387568 |
66792 | Franconibacter helveticus strain 513 (LMG 23732) | 1405120.4 | wgs | patric | 1405120 |
66792 | Franconibacter helveticus LMG 23732 | 2617271155 | draft | img | 1405120 |
67770 | Franconibacter helveticus LMG 23732 LMG23732T | GCA_000463115 | scaffold | ncbi | 1387568 |
66792 | Franconibacter helveticus 513 513 (LMG 23732) | GCA_000485945 | contig | ncbi | 1405120 |
GC content
@ref | GC-content | method |
---|---|---|
7524 | 55.2 | |
67770 | 55.2 | high performance liquid chromatography (HPLC) |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | yes | 89.361 | yes |
gram-positive | no | 98.146 | no |
anaerobic | no | 97.076 | no |
halophile | no | 89.667 | no |
spore-forming | no | 92.965 | yes |
thermophile | no | 99.434 | no |
glucose-util | yes | 95.575 | yes |
aerobic | yes | 76.437 | no |
flagellated | no | 69.99 | no |
glucose-ferment | yes | 90.551 | yes |
External links
@ref: 7524
culture collection no.: DSM 18396, CCUG 54944, CIP 109630, LMG 23732, JCM 16470
straininfo link
- @ref: 73868
- straininfo: 302750
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 17392213 | Enterobacter 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 A | Int J Syst Evol Microbiol | 10.1099/ijs.0.64650-0 | 2007 | DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Enterobacter/*classification/genetics/isolation & purification, Fruit/*microbiology, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics | Genetics |
Genetics | 24072872 | Draft 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 S | Genome Announc | 10.1128/genomeA.00783-13 | 2013 | ||
Phylogeny | 25028159 | Re-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 BD | Int J Syst Evol Microbiol | 10.1099/ijs.0.059832-0 | 2014 | Bacterial 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, DNA | Genetics |
Enzymology | 27288973 | Structural characterization of the O-polysaccharide isolated from Franconibacter helveticus LMG23732(T). | Szulta S, Czerwicka M, Forsythe SJ, Ossowska K, Dziadziuszko H, Kaczynski Z | Carbohydr Res | 10.1016/j.carres.2016.05.005 | 2016 | Carbohydrate Sequence, Enterobacteriaceae/chemistry/*metabolism, Molecular Structure, Nuclear Magnetic Resonance, Biomolecular, O Antigens/*chemistry/*isolation & purification, Polysaccharides, Bacterial/chemistry/isolation & purification | Phylogeny |
Enzymology | 27966630 | Arsenic resistance strategy in Pantoea sp. IMH: Organization, function and evolution of ars genes. | Wang L, Zhuang X, Zhuang G, Jing C | Sci Rep | 10.1038/srep39195 | 2016 | Adaptation, 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, Temperature | Transcriptome |
Phylogeny | 29034856 | Franconibacter 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 C | Int J Syst Evol Microbiol | 10.1099/ijsem.0.002358 | 2017 | Bacterial 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/chemistry | Biotechnology |
29525186 | Efficient synthesis of a 6-deoxy-talose containing tetrasccharide found in Franconibacter helveticus LMG23732(T). | Xu Y, Xu T, Zhang J | Carbohydr Res | 10.1016/j.carres.2018.01.002 | 2018 | Enterobacteriaceae/*chemistry, Lipopolysaccharides/*chemistry, Polysaccharides, Bacterial/*chemistry |
Reference
@id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
---|---|---|---|---|---|---|
7524 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18396) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-18396 | |||
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
31918 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 28175 | 28776041 | |
34214 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/7395 | ||||
60404 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 54944) | https://www.ccug.se/strain?id=54944 | |||
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
68368 | Automatically annotated from API 20E | |||||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |||
73868 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID302750.1 | StrainInfo: A central database for resolving microbial strain identifiers |