Strain identifier
BacDive ID: 5110
Type strain: 
Species: Salmonella enterica subsp. enterica
Strain Designation: 16
Strain history: <- ATCC <- P.R. Edwards (Salmonella sp.) <- Int. Salmonella Center; 16
NCBI tax ID(s): 59201 (subspecies)
version 9.1 (current version)
General
@ref: 3562
BacDive-ID: 5110
DSM-Number: 9379
keywords: genome sequence, 16S sequence, Bacteria, Gram-negative
description: Salmonella enterica subsp. enterica 16 is a Gram-negative bacterium of the family Enterobacteriaceae.
NCBI tax id
- NCBI tax id: 59201
- Matching level: subspecies
strain history
- @ref: 3562
- history: <- ATCC <- P.R. Edwards (Salmonella sp.) <- Int. Salmonella Center; 16
doi: 10.13145/bacdive5110.20240916.9.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Enterobacterales
- family: Enterobacteriaceae
- genus: Salmonella
- species: Salmonella enterica subsp. enterica
- full scientific name: Salmonella enterica subsp. enterica (ex Kauffmann and Edwards 1952) Le Minor and Popoff 1987
synonyms
- @ref: 20215
- synonym: Salmonella choleraesuis subsp. choleraesuis
@ref: 3562
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Enterobacteriales, not validated
family: Enterobacteriaceae
genus: Salmonella
species: Salmonella enterica subsp. enterica
full scientific name: Salmonella enterica subsp. enterica (ex Kauffmann and Edwards 1952) Le Minor and Popoff 1987
strain designation: 16
type strain: no
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 100
Culture and growth conditions
culture medium
- @ref: 3562
- name: NUTRIENT AGAR (DSMZ Medium 1)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1
- composition: Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
culture temp
- @ref: 3562
- growth: positive
- type: growth
- temperature: 37
Physiology and metabolism
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 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 | 5291 | gelatin | - | hydrolysis |
| 68368 | 27897 | tryptophan | - | energy source |
| 68368 | 16199 | urea | - | hydrolysis |
| 68368 | 16947 | citrate | + | assimilation |
| 68368 | 18257 | ornithine | + | degradation |
| 68368 | 25094 | lysine | + | degradation |
| 68368 | 29016 | arginine | + | hydrolysis |
metabolite production
| @ref | Chebi-ID | metabolite | production |
|---|---|---|---|
| 68368 | 15688 | acetoin | yes |
| 68368 | 35581 | indole | no |
| 68368 | 16136 | hydrogen sulfide | yes |
metabolite tests
| @ref | Chebi-ID | metabolite | voges-proskauer-test | indole test |
|---|---|---|---|---|
| 68368 | 15688 | acetoin | + | |
| 68368 | 35581 | indole | - |
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 68368 | cytochrome oxidase | - | 1.9.3.1 |
| 68368 | gelatinase | - | |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 3562 | - | + | + | + | + | + | - | - | - | + | - | + | + | + | + | + | - | + | - | + | - |
Isolation, sampling and environmental information
isolation
- @ref: 3562
- geographic location: Heidelberg
- country: Germany
- origin.country: DEU
- continent: Europe
taxonmaps
- @ref: 69479
- File name: preview.99_9.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_6;96_7;97_7;98_8;99_9&stattab=map
- Last taxonomy: Salmonella enterica
- 16S sequence: JQ228521
- Sequence Identity:
- Total samples: 28103
- soil counts: 1084
- aquatic counts: 2005
- animal counts: 23018
- plant counts: 1996
Safety information
risk assessment
- @ref: 3562
- biosafety level: 2
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 20218
- description: Salmonella enterica subsp. enterica serovar Heidelberg strain ATCC 8326 16S ribosomal RNA gene, partial sequence
- accession: JQ228521
- length: 1334
- database: nuccore
- NCBI tax ID: 611
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Salmonella enterica subsp. enterica serovar Typhi 16 | GCA_003005885 | contig | ncbi | 90370 |
| 66792 | Salmonella enterica subsp. enterica serovar Anatum 16 | GCA_003117635 | contig | ncbi | 58712 |
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | no | 100 | no |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 95.002 | no |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | no | 73.838 | no |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 89.032 | no |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 98 | yes |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | yes | 76.05 | no |
External links
@ref: 3562
culture collection no.: DSM 9379, ATCC 8326
straininfo link
- @ref: 74603
- straininfo: 34941
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Enzymology | 23571354 | Reduction of Salmonella in skinless chicken breast fillets by lauric arginate surface application. | Sharma CS, Ates A, Joseph P, Nannapaneni R, Kiess A | Poult Sci | 10.3382/ps.2012-02837 | 2013 | Animals, Anti-Bacterial Agents/*pharmacology, Arginine/*analogs & derivatives/pharmacology, Bacteria/drug effects/growth & development/isolation & purification, Chickens, Food Contamination/*prevention & control, Food Handling/*methods, Meat/*microbiology/*standards, Pectoralis Muscles/physiology, Salmonella/*drug effects/growth & development/isolation & purification | Phylogeny |
| Stress | 30586327 | Effect of Chlorine-Induced Sublethal Oxidative Stress on the Biofilm-Forming Ability of Salmonella at Different Temperatures, Nutrient Conditions, and Substrates. | Dhakal J, Sharma CS, Nannapaneni R, McDANIEL CD, Kim T, Kiess A | J Food Prot | 10.4315/0362-028X.JFP-18-119 | 2019 | Biofilms/*growth & development, *Chlorine/pharmacology, Colony Count, Microbial, *Nutrients, *Oxidative Stress, Salmonella/*physiology, Stainless Steel, Temperature | |
| 31827464 | Rugose Morphotype in Salmonella Typhimurium and Salmonella Heidelberg Induced by Sequential Exposure to Subinhibitory Sodium Hypochlorite Aids in Biofilm Tolerance to Lethal Sodium Hypochlorite on Polystyrene and Stainless Steel Surfaces. | Bansal M, Nannapaneni R, Kode D, Chang S, Sharma CS, McDaniel C, Kiess A | Front Microbiol | 10.3389/fmicb.2019.02704 | 2019 |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 3562 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 9379) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-9379 | |||
| 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 | |||
| 20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
| 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) | |||
| 68368 | Automatically annotated from API 20E | |||||
| 69479 | João 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 | |||
| 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) | |||
| 74603 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID34941.1 | StrainInfo: A central database for resolving microbial strain identifiers |