Strain identifier
BacDive ID: 24130
Type strain:
Species: Lacticaseibacillus porcinae
Strain Designation: R-42633
Strain history: <- CCUG <- BT Le, Hanoi, Vietnam
NCBI tax ID(s): 1123687 (species)
General
@ref: 20990
BacDive-ID: 24130
DSM-Number: 28071
keywords: genome sequence, 16S sequence, Bacteria, microaerophile, mesophilic, Gram-positive, ovoid-shaped
description: Lacticaseibacillus porcinae R-42633 is a microaerophile, mesophilic, Gram-positive bacterium that was isolated from nem chua samples .
NCBI tax id
- NCBI tax id: 1123687
- Matching level: species
strain history
@ref | history |
---|---|
20990 | <- LMG; LMG 26767 <- B. T. Le, Hanoi Vietnam |
67770 | CCUG 62266 <-- B. T. Le R-42633. |
67771 | <- CCUG <- BT Le, Hanoi, Vietnam |
doi: 10.13145/bacdive24130.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Bacilli
- order: Lactobacillales
- family: Lactobacillaceae
- genus: Lacticaseibacillus
- species: Lacticaseibacillus porcinae
- full scientific name: Lacticaseibacillus porcinae (Nguyen et al. 2013) Zheng et al. 2020
synonyms
- @ref: 20215
- synonym: Lactobacillus porcinae
@ref: 20990
domain: Bacteria
phylum: Firmicutes
class: Bacilli
order: Lactobacillales
family: Lactobacillaceae
genus: Lacticaseibacillus
species: Lacticaseibacillus porcinae
full scientific name: Lacticaseibacillus porcinae (Nguyen et al. 2013) Zheng et al. 2020
strain designation: R-42633
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell length | cell width | cell shape | motility | confidence |
---|---|---|---|---|---|---|
30777 | positive | 1.75 µm | 1 µm | ovoid-shaped | no | |
67771 | no | |||||
67771 | positive | |||||
69480 | no | 96.02 | ||||
69480 | positive | 100 |
pigmentation
- @ref: 30777
- production: yes
Culture and growth conditions
culture medium
- @ref: 20990
- name: MRS MEDIUM (DSMZ Medium 11)
- growth: yes
- link: https://mediadive.dsmz.de/medium/11
- composition: Name: MRS MEDIUM (DSMZ Medium 11) Composition: Glucose 20.0 g/l Casein peptone 10.0 g/l Meat extract 10.0 g/l Na-acetate 5.0 g/l Yeast extract 5.0 g/l (NH4)3 citrate 2.0 g/l K2HPO4 2.0 g/l Tween 80 1.0 g/l MgSO4 x 7 H2O 0.2 g/l MnSO4 x H2O 0.05 g/l Distilled water
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
20990 | positive | growth | 30 | mesophilic |
30777 | positive | growth | 15-37 | |
62808 | positive | growth | 37 | mesophilic |
67770 | positive | growth | 37 | mesophilic |
67771 | positive | growth | 37 | mesophilic |
culture pH
- @ref: 30777
- ability: positive
- type: growth
- pH: 3.9-5.4
- PH range: acidophile
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
20990 | microaerophile |
30777 | microaerophile |
62808 | microaerophile |
67771 | facultative anaerobe |
spore formation
@ref | spore formation | confidence |
---|---|---|
30777 | no | |
67771 | no | |
69481 | no | 100 |
69480 | no | 99.992 |
halophily
- @ref: 30777
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: 0-6 %
observation
- @ref: 30777
- observation: aggregates in clumps
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
30777 | 17057 | cellobiose | + | carbon source |
30777 | 16947 | citrate | + | carbon source |
30777 | 28757 | fructose | + | carbon source |
30777 | 28260 | galactose | + | carbon source |
30777 | 17234 | glucose | + | carbon source |
30777 | 17306 | maltose | + | carbon source |
30777 | 37684 | mannose | + | carbon source |
30777 | 506227 | N-acetylglucosamine | + | carbon source |
30777 | 17814 | salicin | + | carbon source |
30777 | 17992 | sucrose | + | carbon source |
30777 | 27082 | trehalose | + | carbon source |
30777 | 4853 | esculin | + | hydrolysis |
68371 | Potassium 5-ketogluconate | - | builds acid from | |
68371 | Potassium 2-ketogluconate | - | builds acid from | |
68371 | 24265 | gluconate | - | builds acid from |
68371 | 18403 | L-arabitol | - | builds acid from |
68371 | 18333 | D-arabitol | - | builds acid from |
68371 | 18287 | L-fucose | - | builds acid from |
68371 | 28847 | D-fucose | - | builds acid from |
68371 | 16443 | D-tagatose | - | builds acid from |
68371 | 62318 | D-lyxose | - | builds acid from |
68371 | 32528 | turanose | - | builds acid from |
68371 | 28066 | gentiobiose | + | builds acid from |
68371 | 17151 | xylitol | - | builds acid from |
68371 | 28087 | glycogen | - | builds acid from |
68371 | 28017 | starch | + | builds acid from |
68371 | 16634 | raffinose | - | builds acid from |
68371 | 6731 | melezitose | - | builds acid from |
68371 | 15443 | inulin | - | builds acid from |
68371 | 27082 | trehalose | + | builds acid from |
68371 | 17992 | sucrose | + | builds acid from |
68371 | 28053 | melibiose | - | builds acid from |
68371 | 17716 | lactose | - | builds acid from |
68371 | 17306 | maltose | + | builds acid from |
68371 | 17057 | cellobiose | + | builds acid from |
68371 | 17814 | salicin | + | builds acid from |
68371 | 4853 | esculin | + | builds acid from |
68371 | 18305 | arbutin | + | builds acid from |
68371 | 27613 | amygdalin | + | builds acid from |
68371 | 59640 | N-acetylglucosamine | + | builds acid from |
68371 | 320061 | methyl alpha-D-glucopyranoside | - | builds acid from |
68371 | 43943 | methyl alpha-D-mannoside | - | builds acid from |
68371 | 17924 | D-sorbitol | - | builds acid from |
68371 | 16899 | D-mannitol | - | builds acid from |
68371 | 17268 | myo-inositol | - | builds acid from |
68371 | 16813 | galactitol | - | builds acid from |
68371 | 62345 | L-rhamnose | - | builds acid from |
68371 | 17266 | L-sorbose | - | builds acid from |
68371 | 16024 | D-mannose | + | builds acid from |
68371 | 15824 | D-fructose | + | builds acid from |
68371 | 17634 | D-glucose | + | builds acid from |
68371 | 12936 | D-galactose | + | builds acid from |
68371 | 74863 | methyl beta-D-xylopyranoside | - | builds acid from |
68371 | 15963 | ribitol | - | builds acid from |
68371 | 65328 | L-xylose | - | builds acid from |
68371 | 65327 | D-xylose | - | builds acid from |
68371 | 16988 | D-ribose | - | builds acid from |
68371 | 30849 | L-arabinose | - | builds acid from |
68371 | 17108 | D-arabinose | - | builds acid from |
68371 | 17113 | erythritol | - | builds acid from |
68371 | 17754 | glycerol | - | builds acid from |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
20990 | - | - | - | - | - | - | - | - | - | - | + | + | + | + | - | - | - | - | - | - | - | - | + | + | + | + | + | + | + | - | - | + | + | - | - | - | + | - | - | + | - | - | - | - | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | sampling date |
---|---|---|---|---|---|---|
20990 | nem chua samples (fermented pork) | Thanhhoa city | Vietnam | VNM | Asia | |
62808 | Food,Nem chua (fermented pork) | Thanhhoa | Vietnam | VNM | Asia | 2009-08-30 |
67770 | Traditional Vietnamese nem chua | Thanhhoa City | Vietnam | VNM | Asia | |
67771 | From nem chua samples(fermented pork) | Thanhhoa city | Vietnam | VNM | Asia |
isolation source categories
- Cat1: #Engineered
- Cat2: #Food production
- Cat3: #Meat
Safety information
risk assessment
- @ref: 20990
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 20990
- description: Lactobacillus porcinae partial 16S rRNA gene, type strain R-42633T, isolate DH 7.6
- accession: HE616585
- length: 1507
- database: ena
- NCBI tax ID: 1123687
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Lactobacillus porcinae strain JCM 19617 | 1123687.3 | wgs | patric | 1123687 |
67770 | Lacticaseibacillus porcinae JCM 19617 | GCA_003946305 | contig | ncbi | 1123687 |
GC content
@ref | GC-content | method |
---|---|---|
20990 | 47.6 | |
67770 | 47.6 | high performance liquid chromatography (HPLC) |
67770 | 47.2 | genome sequence analysis |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | no | 94.011 | yes |
flagellated | no | 97.116 | yes |
gram-positive | yes | 95.646 | yes |
anaerobic | no | 92.8 | yes |
aerobic | no | 98.261 | no |
halophile | yes | 86.589 | no |
spore-forming | no | 92.166 | no |
thermophile | no | 99.767 | yes |
glucose-util | yes | 89.855 | no |
glucose-ferment | yes | 88.951 | no |
External links
@ref: 20990
culture collection no.: DSM 28071, CCUG 62266, LMG 26767, KCTC 21027, JCM 19617
straininfo link
- @ref: 88089
- straininfo: 370591
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 22941299 | Lactobacillus porcinae sp. nov., isolated from traditional Vietnamese nem chua. | Nguyen DTL, Cnockaert M, Van Hoorde K, De Brandt E, Snauwaert I, Snauwaert C, De Vuyst L, Le BT, Vandamme P | Int J Syst Evol Microbiol | 10.1099/ijs.0.044123-0 | 2012 | Animals, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fermentation, *Food Microbiology, Lactobacillus/*classification/genetics/isolation & purification, Meat/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/analysis, Phenylalanine-tRNA Ligase/genetics, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Swine, Vietnam | Biotechnology |
Phylogeny | 33724174 | Lacticaseibacillus absianus sp. nov., isolated from the cecum of a mini-pig. | Bai L, Paek J, Shin Y, Park HY, Chang YH | Int J Syst Evol Microbiol | 10.1099/ijsem.0.004752 | 2021 |
Reference
@id | authors | title | doi/url | catalogue | ID_cross_reference | pubmed |
---|---|---|---|---|---|---|
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | 10.1099/ijsem.0.004332 | |||
20990 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-28071 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 28071) | |||
30777 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 10.1128/mSphere.00237-17 | 27108 | 28776041 | |
62808 | Curators of the CCUG | https://www.ccug.se/strain?id=62266 | Culture Collection University of Gothenburg (CCUG) (CCUG 62266) | |||
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |||
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
67771 | Curators of the KCTC | https://kctc.kribb.re.kr/En/Kctc | ||||
68371 | Automatically annotated from API 50CH acid | |||||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |||
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | Predictions based on the model GenomeNet Sporulation v. 1 | 10.21203/rs.3.rs-2527258/v1 | |||
88089 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | StrainInfo: A central database for resolving microbial strain identifiers | 10.60712/SI-ID370591.1 |