Strain identifier

BacDive ID: 137568

Type strain: No

Species: Lacticaseibacillus paracasei

Strain history: CIP <- 2003, ATCC <- L.A. Rogers <- J. Sherman

NCBI tax ID(s): 321967 (strain), 1597 (species)

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

@ref: 38234

BacDive-ID: 137568

keywords: genome sequence, Bacteria, microaerophile, mesophilic

description: Lacticaseibacillus paracasei CIP 107868 is a microaerophile, mesophilic bacterium that was isolated from Emmental cheese.

NCBI tax id

NCBI tax idMatching level
321967strain
1597species

strain history

  • @ref: 38234
  • history: CIP <- 2003, ATCC <- L.A. Rogers <- J. Sherman

doi: 10.13145/bacdive137568.20230509.8.1

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 paracasei
  • full scientific name: Lacticaseibacillus paracasei (Collins et al. 1989) Zheng et al. 2020

  • synonyms

    • @ref: 20215
    • synonym: Lactobacillus paracasei

@ref: 38234

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Lactobacillaceae

genus: Lactobacillus

species: Lactobacillus paracasei

type strain: no

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480no97.319
69480100positive
38234nopositiverod-shaped

colony morphology

  • @ref: 68370
  • type of hemolysis: beta
  • hemolysis ability: 1

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
38234MEDIUM 40- for Lactobacillus and LeuconostocyesDistilled water make up to (1000.000 ml);Man Rogosa Sharp agar (68.000 g)
38234CIP Medium 40yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=40

culture temp

@refgrowthtypetemperaturerange
38234positivegrowth37mesophilic
50460positivegrowth37mesophilic
38234positivegrowth10-37
38234nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
50460microaerophile
38234facultative anaerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.954

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
68371L-arabitol-builds acid from18403
68371D-arabitol-builds acid from18333
68371L-fucose-builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose+builds acid from16443
68371D-lyxose-builds acid from62318
68371turanose+builds acid from32528
68371gentiobiose-builds acid from28066
68371xylitol-builds acid from17151
68371glycogen-builds acid from28087
68371starch-builds acid from28017
68371raffinose-builds acid from16634
68371melezitose+builds acid from6731
68371inulin+builds acid from15443
68371trehalose+builds acid from27082
68371sucrose+builds acid from17992
68371melibiose-builds acid from28053
68371lactose+builds acid from17716
68371maltose+builds acid from17306
68371cellobiose+builds acid from17057
68371salicin+builds acid from17814
68371esculin+builds acid from4853
68371arbutin-builds acid from18305
68371amygdalin-builds acid from27613
68371N-acetylglucosamine+builds acid from59640
68371methyl alpha-D-glucopyranoside+builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol-builds acid from17924
68371D-mannitol+builds acid from16899
68371myo-inositol-builds acid from17268
68371galactitol-builds acid from16813
68371L-rhamnose-builds acid from62345
68371L-sorbose-builds acid from17266
68371D-mannose+builds acid from16024
68371D-fructose+builds acid from15824
68371D-glucose+builds acid from17634
68371D-galactose+builds acid from12936
68371methyl beta-D-xylopyranoside-builds acid from74863
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
68371D-xylose-builds acid from65327
68371D-ribose+builds acid from16988
68371L-arabinose-builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
68371glycerol-builds acid from17754
68370glycogen-builds acid from28087
68370starch-builds acid from28017
68370raffinose-builds acid from16634
68370inulin+builds acid from15443
68370trehalose+builds acid from27082
68370lactose+builds acid from17716
68370D-sorbitol-builds acid from17924
68370D-mannitol+builds acid from16899
68370L-arabinose-builds acid from30849
68370D-ribose-builds acid from16988
68370arginine-hydrolysis29016
68370esculin+hydrolysis4853
68370hippurate+hydrolysis606565
38234nitrate-reduction17632
38234nitrite-reduction16301
38234nitrate+respiration17632
68379nitrate-reduction17632
68379esculin+hydrolysis4853
68379urea-hydrolysis16199
68379gelatin-hydrolysis5291
68379D-glucose+fermentation17634
68379D-ribose+fermentation16988
68379D-xylose-fermentation65327
68379D-mannitol+fermentation16899
68379maltose+fermentation17306
68379lactose+fermentation17716
68379sucrose+fermentation17992
68379glycogen-fermentation28087
68380urea-hydrolysis16199
68380arginine-hydrolysis29016
68380D-mannose+fermentation16024
68380raffinose-fermentation16634
68380L-glutamate-degradation29985
68380nitrate-reduction17632
68380tryptophan-energy source27897
68381arginine-hydrolysis29016
68381D-ribose-builds acid from16988
68381D-mannitol+builds acid from16899
68381sorbitol-builds acid from30911
68381lactose+builds acid from17716
68381trehalose+builds acid from27082
68381raffinose-builds acid from16634
68381sucrose+builds acid from17992
68381L-arabinose-builds acid from30849
68381D-arabitol-builds acid from18333
68381alpha-cyclodextrin-builds acid from40585
68381hippurate+hydrolysis606565
68381glycogen-builds acid from28087
68381pullulan-builds acid from27941
68381maltose-builds acid from17306
68381melibiose-builds acid from28053
68381melezitose+builds acid from6731
68381methyl beta-D-glucopyranoside-builds acid from320055
68381D-tagatose-builds acid from16443
68381urea-hydrolysis16199

metabolite production

@refChebi-IDmetaboliteproduction
6837015688acetoinyes
6838035581indoleno
6838115688acetoinyes

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole test
6838115688acetoin+
6838035581indole-
6837015688acetoin+
3823415688acetoin-

enzymes

@refvalueactivityec
68381urease-3.5.1.5
68381beta-mannosidase-3.2.1.25
68381glycyl tryptophan arylamidase-
68381N-acetyl-beta-glucosaminidase-3.2.1.52
68381pyrrolidonyl arylamidase+3.4.19.3
68381beta-galactosidase-3.2.1.23
68381Alanyl-Phenylalanyl-Proline arylamidase+
68381alkaline phosphatase-3.1.3.1
68381alpha-galactosidase-3.2.1.22
68381beta-glucuronidase-3.2.1.31
68381beta-glucosidase-3.2.1.21
68381arginine dihydrolase-3.5.3.6
68380serine arylamidase+
68380glutamyl-glutamate arylamidase-
68380histidine arylamidase+
68380glycin arylamidase+
68380alanine arylamidase+3.4.11.2
68380tyrosine arylamidase+
68380pyrrolidonyl arylamidase+3.4.19.3
68380leucine arylamidase+3.4.11.1
68380phenylalanine arylamidase+
68380leucyl glycin arylamidase-3.4.11.1
68380proline-arylamidase+3.4.11.5
68380L-arginine arylamidase+
68380alkaline phosphatase+3.1.3.1
68380tryptophan deaminase-4.1.99.1
68380alpha-fucosidase-3.2.1.51
68380glutamate decarboxylase-4.1.1.15
68380N-acetyl-beta-glucosaminidase+3.2.1.52
68380beta-glucuronidase-3.2.1.31
68380alpha-arabinosidase-3.2.1.55
68380beta-glucosidase+3.2.1.21
68380alpha-glucosidase+3.2.1.20
68380beta-Galactosidase 6-phosphate-
68380beta-galactosidase+3.2.1.23
68380alpha-galactosidase-3.2.1.22
68380arginine dihydrolase-3.5.3.6
68380urease-3.5.1.5
68379catalase-1.11.1.6
68379gelatinase-
68379urease-3.5.1.5
68379beta-glucosidase+3.2.1.21
68379N-acetyl-beta-glucosaminidase+3.2.1.52
68379alpha-glucosidase+3.2.1.20
68379beta-galactosidase+3.2.1.23
68379beta-glucuronidase-3.2.1.31
68379alkaline phosphatase+3.1.3.1
68379pyrrolidonyl arylamidase+3.4.19.3
68379pyrazinamidase+3.5.1.B15
68370arginine dihydrolase-3.5.3.6
68370leucine arylamidase+3.4.11.1
68370alkaline phosphatase+3.1.3.1
68370beta-galactosidase-3.2.1.23
68370beta-glucuronidase-3.2.1.31
68370alpha-galactosidase-3.2.1.22
68370pyrrolidonyl arylamidase+3.4.19.3
68370beta-glucosidase+3.2.1.21
38234oxidase-
38234alcohol dehydrogenase-1.1.1.1
38234catalase-1.11.1.6
38234lysine decarboxylase-4.1.1.18
38234ornithine decarboxylase-4.1.1.17
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382valine arylamidase+
68382cystine arylamidase+3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase-3.2.1.22
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase+3.2.1.20
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELControlGLURIBXYLMANMALLACSACGLYGCAT
50460-+++-++++---++-++++--

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
50460-+++-+++--++-+-+++--
38234--++-+++--++---+-+--

API 20STR

@refVPHIPESCPYRAalpha GALbeta GURbeta GALPALLAPADHRIBARAMANSORLACTREINURAFAMDGLYGbeta HEM
50460++++---++---+-+++---+

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
50460-----+----++++----+--++--+++++-++++-----+-+-------
38234----+----++++----+--++--+++++-++++-----+-+----+--

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
50460---+-++--++-----+++-+++++++-+

API rID32STR

@refADH Argbeta GLUbeta GARbeta GURalpha GALPALRIBMANSORLACTRERAFSACLARADARLCDEXVPAPPAbeta GALPyrAbeta NAGGTAHIPGLYGPULMALMELMLZMbeta DGTAGbeta MANURE
50460--+----+-++-+---++-+--+----+----

Isolation, sampling and environmental information

isolation

@refsample type
50460Emmental cheese
38234Food, Emmental cheese

isolation source categories

  • Cat1: #Engineered
  • Cat2: #Food production
  • Cat3: #Dairy product

Safety information

risk assessment

  • @ref: 38234
  • biosafety level: 1
  • biosafety level comment: Risk group (French classification)

Sequence information

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Lacticaseibacillus paracasei ATCC 334GCA_000014525completencbi321967
66792Lactobacillus casei ATCC 334321967.11completepatric321967
66792Lactobacillus paracasei ATCC 334321967.30plasmidpatric321967
66792Lacticaseibacillus paracasei ATCC 334639633028completeimg321967

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno94.537no
flagellatedno97.949no
gram-positiveyes94.886no
anaerobicno94.011yes
halophileyes77.199no
spore-formingno91.427no
thermophileno96.742yes
glucose-utilyes91.887no
aerobicno96.214no
glucose-fermentyes89.719no

External links

@ref: 38234

culture collection no.: CIP 107868, ATCC 334, CCUG 31169

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny8573516Reclassification of Lactobacillus casei subsp. casei ATCC 393 and Lactobacillus rhamnosus ATCC 15820 as Lactobacillus zeae nom. rev., designation of ATCC 334 as the neotype of L. casei subsp. casei, and rejection of the name Lactobacillus paracasei.Dicks LM, Du Plessis EM, Dellaglio F, Lauer EInt J Syst Bacteriol10.1099/00207713-46-1-3371996Base Sequence, DNA Primers, DNA, Bacterial/genetics, Lactobacillus/*classification/genetics, Lactobacillus casei/*classification/genetics, Molecular Sequence Data, Phylogeny, Polymorphism, Genetic, Random Amplified Polymorphic DNA TechniqueGenetics
Phylogeny8995801Comparative sequence analyses of the genes coding for 16S rRNA of Lactobacillus casei-related taxa.Mori K, Yamazaki K, Ishiyama T, Katsumata M, Kobayashi K, Kawai Y, Inoue N, Shinano HInt J Syst Bacteriol10.1099/00207713-47-1-541997DNA Primers, DNA, Bacterial/*analysis, Lactobacillus/*classification/*genetics, Lactobacillus casei/*classification/*genetics, Molecular Sequence Data, Nucleic Acid Conformation, Nucleic Acid Hybridization, Phylogeny, Polymerase Chain Reaction, RNA, Ribosomal, 16S/*genetics, Sequence Analysis, DNATranscriptome
Phylogeny10758849Comparative analysis of the genes encoding 23S-5S rRNA intergenic spacer regions of Lactobacillus casei-related strains.Chen H, Lim CK, Lee YK, Chan YNInt J Syst Evol Microbiol10.1099/00207713-50-2-4712000Base Sequence, Cloning, Molecular, *Genes, rRNA, Genetic Variation, Lactobacillus/*classification/*genetics, Lactobacillus casei/classification/*genetics, Molecular Sequence Data, Nucleic Acid Hybridization, Polymerase Chain Reaction, Polymorphism, Restriction Fragment Length, RNA, Ribosomal, 23S/*genetics, RNA, Ribosomal, 5S/*genetics, Sequence Analysis, DNAEnzymology
Phylogeny11760954Comparative sequence analysis of a recA gene fragment brings new evidence for a change in the taxonomy of the Lactobacillus casei group.Felis GE, Dellaglio F, Mizzi L, Torriani SInt J Syst Evol Microbiol10.1099/00207713-51-6-21132001DNA, Bacterial/genetics, Lactobacillus casei/*classification/genetics, Molecular Sequence Data, Phylogeny, Rec A Recombinases/*genetics, *Sequence Analysis, DNA, Species SpecificityTranscriptome
Phylogeny11837314The status of the species Lactobacillus casei (Orla-Jensen 1916) Hansen and Lessel 1971 and Lactobacillus paracasei Collins et al. 1989. Request for an opinion.Dellaglio F, Felis GE, Torriani SInt J Syst Evol Microbiol10.1099/00207713-52-1-2852002Lactobacillus/*classification, Lactobacillus casei/*classification, *Terminology as Topic
Phylogeny12656154Significant differences between Lactobacillus casei subsp. casei ATCC 393T and a commonly used plasmid-cured derivative revealed by a polyphasic study.Acedo-Felix E, Perez-Martinez GInt J Syst Evol Microbiol10.1099/ijs.0.02325-02003Base Sequence, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Lactobacillus casei/*classification/*genetics, Molecular Sequence Data, Phenotype, Plasmids/genetics, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Random Amplified Polymorphic DNA Technique, Ribotyping, Species SpecificityGenetics
Phylogeny16295661Ribotyping of Lactobacillus casei group strains isolated from dairy products.Svec P, Drab V, Sedlacek IFolia Microbiol (Praha)10.1007/BF029315702005Dairy Products/*microbiology, Lactobacillus casei/*classification/*isolation & purification, Lactobacillus rhamnosus/classification/isolation & purification, Phenotype, Ribotyping, Species SpecificityEnzymology
Phylogeny17704267Multilocus sequence typing of Lactobacillus casei reveals a clonal population structure with low levels of homologous recombination.Diancourt L, Passet V, Chervaux C, Garault P, Smokvina T, Brisse SAppl Environ Microbiol10.1128/AEM.01095-072007Bacterial Proteins/*genetics/metabolism, Bacterial Typing Techniques, Base Sequence, DNA, Bacterial/analysis, Lactobacillus casei/*classification/*genetics, Molecular Sequence Data, Phylogeny, *Recombination, Genetic, Ribosomal Proteins/*genetics/metabolism, *Sequence Analysis, DNAMetabolism
Phylogeny18599731The type strain of Lactobacillus casei is ATCC 393, ATCC 334 cannot serve as the type because it represents a different taxon, the name Lactobacillus paracasei and its subspecies names are not rejected and the revival of the name 'Lactobacillus zeae' contravenes Rules 51b (1) and (2) of the International Code of Nomenclature of Bacteria. Opinion 82.Int J Syst Evol Microbiol10.1099/ijs.0.2008/005330-02008Bacteriology/*standards, Lactobacillus/*classification, Lactobacillus casei/classification, *Terminology as Topic
Phylogeny19833402Development of a PCR assay for the strain-specific identification of probiotic strain Lactobacillus paracasei IMPC2.1.Sisto A, De Bellis P, Visconti A, Morelli L, Lavermicocca PInt J Food Microbiol10.1016/j.ijfoodmicro.2009.09.0172009Amplified Fragment Length Polymorphism Analysis, Bacterial Typing Techniques/*methods, Biodiversity, DNA, Bacterial/genetics, *Food Microbiology, Lactobacillus/classification/*genetics/growth & development/isolation & purification, Molecular Sequence Data, Phylogeny, Polymerase Chain Reaction/*methods, *Probiotics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species SpecificityBiotechnology
Metabolism22032349Growth of Lactobacillus paracasei ATCC 334 in a cheese model system: a biochemical approach.Budinich MF, Perez-Diaz I, Cai H, Rankin SA, Broadbent JR, Steele JLJ Dairy Sci10.3168/jds.2009-25122011Bacterial Load, Cheese/analysis/*microbiology, Citric Acid/metabolism, Fermentation, *Food Microbiology, Galactose/metabolism, Kinetics, Lactobacillus/*growth & development/metabolism, Lactose/metabolism, *Models, Biological, Oxidation-Reduction, Oxygen/analysis, Time FactorsBiotechnology
Biotechnology24674930Transcription profiling of interactions between Lactococcus lactis subsp. cremoris SK11 and Lactobacillus paracasei ATCC 334 during Cheddar cheese simulation.Desfosses-Foucault E, LaPointe G, Roy DInt J Food Microbiol10.1016/j.ijfoodmicro.2014.03.0042014Animals, Cheese/analysis/*microbiology, Cluster Analysis, *Food Microbiology, Gene Expression Profiling, Gene Expression Regulation, Bacterial, Genes, Bacterial/genetics, Lactobacillus/*genetics/metabolism, Lactococcus lactis/*genetics/metabolism, Milk/microbiology, Polymerase Chain Reaction, TasteMetabolism
28243547Analysis of gene expression profiles of Lactobacillus paracasei induced by direct contact with Saccharomyces cerevisiae through recognition of yeast mannan.Yamasaki-Yashiki S, Sawada H, Kino-Oka M, Katakura YBiosci Microbiota Food Health10.12938/bmfh.BMFH-2016-0152016
Pathogenicity32751457Resveratrol Favors Adhesion and Biofilm Formation of Lacticaseibacillus paracasei subsp. paracasei Strain ATCC334.Al Azzaz J, Al Tarraf A, Heumann A, Da Silva Barreira D, Laurent J, Assifaoui A, Rieu A, Guzzo J, Lapaquette PInt J Mol Sci10.3390/ijms211554232020Bacterial Adhesion/*drug effects, HCT116 Cells, HT29 Cells, Humans, *Lactobacillus paracasei/drug effects/growth & development, Probiotics/*metabolism, Resveratrol/*pharmacologyMetabolism
Metabolism33116127Intestinal release of biofilm-like microcolonies encased in calcium-pectinate beads increases probiotic properties of Lacticaseibacillus paracasei.Heumann A, Assifaoui A, Da Silva Barreira D, Thomas C, Briandet R, Laurent J, Beney L, Lapaquette P, Guzzo J, Rieu ANPJ Biofilms Microbiomes10.1038/s41522-020-00159-32020Animals, Biofilms/*growth & development, Capsules, Colitis/chemically induced/*diet therapy, Dextran Sulfate/adverse effects, Disease Models, Animal, Drug Compounding, Extracellular Polymeric Substance Matrix/metabolism, Freeze Drying, Lactobacillus paracasei/*physiology, Male, Mice, Osmotic Pressure, Pectins/*chemistry, Probiotics/*administration & dosage/pharmacology, Treatment Outcome

Reference

@idauthorstitledoi/urlcatalogue
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
38234Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107868Collection of Institut Pasteur (CIP 107868)
50460Curators of the CCUGhttps://www.ccug.se/strain?id=31169Culture Collection University of Gothenburg (CCUG) (CCUG 31169)
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
68370Automatically annotated from API 20STR
68371Automatically annotated from API 50CH acid
68379Automatically annotated from API Coryne
68380Automatically annotated from API rID32A
68381Automatically annotated from API rID32STR
68382Automatically annotated from API zym
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