Strain identifier

BacDive ID: 24130

Type strain: Yes

Species: Lacticaseibacillus porcinae

Strain Designation: R-42633

Strain history: <- CCUG <- BT Le, Hanoi, Vietnam

NCBI tax ID(s): 1123687 (species)

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

@refhistory
20990<- LMG; LMG 26767 <- B. T. Le, Hanoi Vietnam
67770CCUG 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

@refgram staincell lengthcell widthcell shapemotilityconfidence
30777positive1.75 µm1 µmovoid-shapedno
67771no
67771positive
69480no96.02
69480positive100

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

@refgrowthtypetemperaturerange
20990positivegrowth30mesophilic
30777positivegrowth15-37
62808positivegrowth37mesophilic
67770positivegrowth37mesophilic
67771positivegrowth37mesophilic

culture pH

  • @ref: 30777
  • ability: positive
  • type: growth
  • pH: 3.9-5.4
  • PH range: acidophile

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
20990microaerophile
30777microaerophile
62808microaerophile
67771facultative anaerobe

spore formation

@refspore formationconfidence
30777no
67771no
69481no100
69480no99.992

halophily

  • @ref: 30777
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-6 %

observation

  • @ref: 30777
  • observation: aggregates in clumps

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3077717057cellobiose+carbon source
3077716947citrate+carbon source
3077728757fructose+carbon source
3077728260galactose+carbon source
3077717234glucose+carbon source
3077717306maltose+carbon source
3077737684mannose+carbon source
30777506227N-acetylglucosamine+carbon source
3077717814salicin+carbon source
3077717992sucrose+carbon source
3077727082trehalose+carbon source
307774853esculin+hydrolysis
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
6837124265gluconate-builds acid from
6837118403L-arabitol-builds acid from
6837118333D-arabitol-builds acid from
6837118287L-fucose-builds acid from
6837128847D-fucose-builds acid from
6837116443D-tagatose-builds acid from
6837162318D-lyxose-builds acid from
6837132528turanose-builds acid from
6837128066gentiobiose+builds acid from
6837117151xylitol-builds acid from
6837128087glycogen-builds acid from
6837128017starch+builds acid from
6837116634raffinose-builds acid from
683716731melezitose-builds acid from
6837115443inulin-builds acid from
6837127082trehalose+builds acid from
6837117992sucrose+builds acid from
6837128053melibiose-builds acid from
6837117716lactose-builds acid from
6837117306maltose+builds acid from
6837117057cellobiose+builds acid from
6837117814salicin+builds acid from
683714853esculin+builds acid from
6837118305arbutin+builds acid from
6837127613amygdalin+builds acid from
6837159640N-acetylglucosamine+builds acid from
68371320061methyl alpha-D-glucopyranoside-builds acid from
6837143943methyl alpha-D-mannoside-builds acid from
6837117924D-sorbitol-builds acid from
6837116899D-mannitol-builds acid from
6837117268myo-inositol-builds acid from
6837116813galactitol-builds acid from
6837162345L-rhamnose-builds acid from
6837117266L-sorbose-builds acid from
6837116024D-mannose+builds acid from
6837115824D-fructose+builds acid from
6837117634D-glucose+builds acid from
6837112936D-galactose+builds acid from
6837174863methyl beta-D-xylopyranoside-builds acid from
6837115963ribitol-builds acid from
6837165328L-xylose-builds acid from
6837165327D-xylose-builds acid from
6837116988D-ribose-builds acid from
6837130849L-arabinose-builds acid from
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from
6837117754glycerol-builds acid from

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
20990----------++++--------+++++++--++---+--+----------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling date
20990nem chua samples (fermented pork)Thanhhoa cityVietnamVNMAsia
62808Food,Nem chua (fermented pork)ThanhhoaVietnamVNMAsia2009-08-30
67770Traditional Vietnamese nem chuaThanhhoa CityVietnamVNMAsia
67771From nem chua samples(fermented pork)Thanhhoa cityVietnamVNMAsia

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

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Lactobacillus porcinae strain JCM 196171123687.3wgspatric1123687
67770Lacticaseibacillus porcinae JCM 19617GCA_003946305contigncbi1123687

GC content

@refGC-contentmethod
2099047.6
6777047.6high performance liquid chromatography (HPLC)
6777047.2genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno94.011yes
flagellatedno97.116yes
gram-positiveyes95.646yes
anaerobicno92.8yes
aerobicno98.261no
halophileyes86.589no
spore-formingno92.166no
thermophileno99.767yes
glucose-utilyes89.855no
glucose-fermentyes88.951no

External links

@ref: 20990

culture collection no.: DSM 28071, CCUG 62266, LMG 26767, KCTC 21027, JCM 19617

straininfo link

  • @ref: 88089
  • straininfo: 370591

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny22941299Lactobacillus 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 PInt J Syst Evol Microbiol10.1099/ijs.0.044123-02012Animals, 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, VietnamBiotechnology
Phylogeny33724174Lacticaseibacillus absianus sp. nov., isolated from the cecum of a mini-pig.Bai L, Paek J, Shin Y, Park HY, Chang YHInt J Syst Evol Microbiol10.1099/ijsem.0.0047522021

Reference

@idauthorstitledoi/urlcatalogueID_cross_referencepubmed
20215Parte, 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 DSMZ10.1099/ijsem.0.004332
20990Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-28071Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 28071)
30777Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172710828776041
62808Curators of the CCUGhttps://www.ccug.se/strain?id=62266Culture Collection University of Gothenburg (CCUG) (CCUG 62266)
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
68371Automatically annotated from API 50CH acid
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions 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
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
88089Reimer, 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 identifiers10.60712/SI-ID370591.1