Strain identifier
BacDive ID: 6838
Type strain:
Species: Leuconostoc gasicomitatum
Strain Designation: TB1-10
Strain history: LMG 18811 <-- P. Vandamme R-2564 <-- K. J. Björkroth TB1-10.
NCBI tax ID(s): 762550 (strain), 115778 (subspecies)
General
@ref: 6204
BacDive-ID: 6838
DSM-Number: 15947
keywords: genome sequence, 16S sequence, Bacteria, anaerobe
description: Leuconostoc gasicomitatum TB1-10 is an anaerobe bacterium that was isolated from modified-atmosphere packaged, tomato-marinated broiler meat strips.
NCBI tax id
NCBI tax id | Matching level |
---|---|
115778 | subspecies |
762550 | strain |
strain history
@ref | history |
---|---|
6204 | <- D. Janssens, LMG <- P. Vandamme <- J. Bjorkroth; TB1-10 |
67770 | LMG 18811 <-- P. Vandamme R-2564 <-- K. J. Björkroth TB1-10. |
doi: 10.13145/bacdive6838.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Bacilli
- order: Lactobacillales
- family: Lactobacillaceae
- genus: Leuconostoc
- species: Leuconostoc gasicomitatum
- full scientific name: Leuconostoc gasicomitatum Björkroth et al. 2001
synonyms
- @ref: 20215
- synonym: Leuconostoc gelidum subsp. gasicomitatum
@ref: 6204
domain: Bacteria
phylum: Firmicutes
class: Bacilli
order: Not assigned to order
family: Leuconostocaceae
genus: Leuconostoc
species: Leuconostoc gasicomitatum
full scientific name: Leuconostoc gasicomitatum Björkroth et al. 2001
strain designation: TB1-10
type strain: yes
Morphology
cell morphology
@ref | motility | confidence | gram stain |
---|---|---|---|
69480 | no | 97.098 | |
69480 | 100 | positive |
colony morphology
- @ref: 57035
- incubation period: 2 days
Culture and growth conditions
culture medium
- @ref: 6204
- name: MRS pre-reduced (DSMZ Medium 11b)
- growth: yes
- link: https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium11b.pdf
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
57035 | positive | growth | 20-30 | |
67770 | positive | growth | 22 | psychrophilic |
6204 | positive | growth | 22 | psychrophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
6204 | anaerobe |
6204 | microaerophile |
57035 | facultative anaerobe |
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 100 |
murein
- @ref: 6204
- murein short key: A11.05
- type: A3alpha L-Lys-L-Ala2
metabolite utilization
@ref | metabolite | utilization activity | kind of utilization tested | Chebi-ID |
---|---|---|---|---|
68371 | Potassium 5-ketogluconate | - | builds acid from | |
68371 | Potassium 2-ketogluconate | - | builds acid from | |
68371 | gluconate | - | builds acid from | 24265 |
68371 | L-arabitol | - | builds acid from | 18403 |
68371 | D-arabitol | - | builds acid from | 18333 |
68371 | L-fucose | - | builds acid from | 18287 |
68371 | D-fucose | - | builds acid from | 28847 |
68371 | D-tagatose | - | builds acid from | 16443 |
68371 | D-lyxose | - | builds acid from | 62318 |
68371 | turanose | + | builds acid from | 32528 |
68371 | gentiobiose | - | builds acid from | 28066 |
68371 | xylitol | - | builds acid from | 17151 |
68371 | glycogen | - | builds acid from | 28087 |
68371 | starch | - | builds acid from | 28017 |
68371 | raffinose | + | builds acid from | 16634 |
68371 | melezitose | - | builds acid from | 6731 |
68371 | inulin | - | builds acid from | 15443 |
68371 | trehalose | + | builds acid from | 27082 |
68371 | sucrose | + | builds acid from | 17992 |
68371 | melibiose | + | builds acid from | 28053 |
68371 | lactose | - | builds acid from | 17716 |
68371 | maltose | + | builds acid from | 17306 |
68371 | cellobiose | + | builds acid from | 17057 |
68371 | salicin | - | builds acid from | 17814 |
68371 | esculin | + | builds acid from | 4853 |
68371 | arbutin | - | builds acid from | 18305 |
68371 | amygdalin | - | builds acid from | 27613 |
68371 | N-acetylglucosamine | + | builds acid from | 59640 |
68371 | methyl alpha-D-glucopyranoside | + | builds acid from | 320061 |
68371 | methyl alpha-D-mannoside | - | builds acid from | 43943 |
68371 | D-sorbitol | - | builds acid from | 17924 |
68371 | D-mannitol | - | builds acid from | 16899 |
68371 | myo-inositol | - | builds acid from | 17268 |
68371 | galactitol | - | builds acid from | 16813 |
68371 | L-rhamnose | - | builds acid from | 62345 |
68371 | L-sorbose | - | builds acid from | 17266 |
68371 | D-mannose | + | builds acid from | 16024 |
68371 | D-fructose | + | builds acid from | 15824 |
68371 | D-glucose | + | builds acid from | 17634 |
68371 | D-galactose | - | builds acid from | 12936 |
68371 | methyl beta-D-xylopyranoside | - | builds acid from | 74863 |
68371 | ribitol | - | builds acid from | 15963 |
68371 | L-xylose | - | builds acid from | 65328 |
68371 | D-xylose | + | builds acid from | 65327 |
68371 | D-ribose | + | builds acid from | 16988 |
68371 | L-arabinose | + | builds acid from | 30849 |
68371 | D-arabinose | - | builds acid from | 17108 |
68371 | erythritol | - | builds acid from | 17113 |
68371 | glycerol | - | builds acid from | 17754 |
API 50CHac
@ref | Q | GLY | ERY | DARA | LARA | RIB | DXYL | LXYL | ADO | MDX | GAL | GLU | FRU | MNE | SBE | RHA | DUL | INO | MAN | SOR | MDM | MDG | NAG | AMY | ARB | ESC | SAL | CEL | MAL | LAC | MEL | SAC | TRE | INU | MLZ | RAF | AMD | GLYG | XLT | GEN | TUR | LYX | TAG | DFUC | LFUC | DARL | LARL | GNT | 2KG | 5KG |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
6204 | - | - | - | - | + | + | + | - | - | - | - | + | + | + | - | - | - | - | - | - | - | + | + | - | - | + | - | + | + | - | + | + | + | - | - | + | - | - | - | - | + | - | - | - | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent |
---|---|---|---|---|---|
6204 | modified-atmosphere packaged, tomato-marinated broiler meat strips | Helsinki | Finland | FIN | Europe |
57035 | Tomato-marinated broiler meat strips | Helsinki | Finland | FIN | Europe |
67770 | MA-packaged, tomato-marinated broiler meat strips |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Engineered | #Food production | #Bottled, canned, packed food |
#Engineered | #Food production | #Meat |
#Host | #Birds | #Chicken |
taxonmaps
- @ref: 69479
- File name: preview.99_561.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_22;96_35;97_36;98_457;99_561&stattab=map
- Last taxonomy: Leuconostoc
- 16S sequence: LC483550
- Sequence Identity:
- Total samples: 3429
- soil counts: 427
- aquatic counts: 487
- animal counts: 2225
- plant counts: 290
Safety information
risk assessment
- @ref: 6204
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
6204 | Leuconostoc gasicomitatum strain LMG 18811 16S small subunit ribosomal RNA gene, partial sequence | AF231131 | 1494 | ena | 762550 |
67770 | Leuconostoc gelidum subsp. gasicomitatum gene for 16S ribosomal RNA, partial sequence | LC483550 | 1489 | ena | 115778 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Leuconostoc gasicomitatum LMG 18811 type strain: LMG 18811 | GCA_000196855 | complete | ncbi | 762550 |
66792 | Leuconostoc gasicomitatum LMG 18811 | 762550.4 | complete | patric | 762550 |
66792 | Leuconostoc gelidum gasicomitatum LMG 18811 | 649633064 | complete | img | 762550 |
GC content
@ref | GC-content | method |
---|---|---|
6204 | 37 | |
67770 | 37 | thermal denaturation, midpoint method (Tm) |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | no | 95.912 | no |
flagellated | no | 98.012 | no |
gram-positive | yes | 96.661 | no |
anaerobic | no | 90.681 | no |
aerobic | no | 96.438 | yes |
halophile | yes | 94.74 | no |
spore-forming | no | 94.633 | no |
thermophile | no | 99.871 | yes |
glucose-util | yes | 86.171 | no |
glucose-ferment | yes | 91.255 | no |
External links
@ref: 6204
culture collection no.: DSM 15947, CCUG 46042, LMG 18811, JCM 12535, CECT 5767
straininfo link
- @ref: 76303
- straininfo: 12467
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Genetics | 21571876 | Genome sequence of a food spoilage lactic acid bacterium, Leuconostoc gasicomitatum LMG 18811T, in association with specific spoilage reactions. | Johansson P, Paulin L, Sade E, Salovuori N, Alatalo ER, Bjorkroth KJ, Auvinen P | Appl Environ Microbiol | 10.1128/AEM.00102-11 | 2011 | Base Composition, Chromosomes, Bacterial, DNA, Bacterial/*chemistry/*genetics, *Food Microbiology, Genome, Bacterial, Leuconostoc/*genetics/isolation & purification/metabolism, Metabolic Networks and Pathways, Molecular Sequence Data, *Sequence Analysis, DNA | Biotechnology |
Phylogeny | 21705441 | Leuconostoc miyukkimchii sp. nov., isolated from brown algae (Undaria pinnatifida) kimchi. | Lee SH, Park MS, Jung JY, Jeon CO | Int J Syst Evol Microbiol | 10.1099/ijs.0.032367-0 | 2011 | Anaerobiosis, Bacterial Typing Techniques, Base Composition, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, *Food Microbiology, Hydrogen-Ion Concentration, Korea, Leuconostoc/*classification/genetics/*isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Temperature, Undaria/*microbiology | Biotechnology |
Phylogeny | 24431060 | Reclassification of Leuconostoc gasicomitatum as Leuconostoc gelidum subsp. gasicomitatum comb. nov., description of Leuconostoc gelidum subsp. aenigmaticum subsp. nov., designation of Leuconostoc gelidum subsp. gelidum subsp. nov. and emended description of Leuconostoc gelidum. | Rahkila R, De Bruyne K, Johansson P, Vandamme P, Bjorkroth J | Int J Syst Evol Microbiol | 10.1099/ijs.0.058263-0 | 2014 | Animals, Chickens, DNA, Bacterial/genetics, Genes, Bacterial, Leuconostoc/*classification/genetics/isolation & purification, Meat/*microbiology, Molecular Sequence Data, Multilocus Sequence Typing, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Ribotyping, Sequence Analysis, DNA, Swine, Turkeys | Genetics |
Reference
@id | authors | catalogue | doi/url | title |
---|---|---|---|---|
6204 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15947) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-15947 | |
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 | |
57035 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 46042) | https://www.ccug.se/strain?id=46042 | |
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/ | ||
68371 | Automatically annotated from API 50CH acid | |||
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) | |
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 | |
76303 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID12467.1 | StrainInfo: A central database for resolving microbial strain identifiers |