Strain identifier

BacDive ID: 6700

Type strain: Yes

Species: Lactobacillus gigeriorum

Strain Designation: 202

Strain history: <- DSM <- S Cousin, CIP, Genopole, Paris, France, CRBIP 24.85 <- F Gasser, CIP <- INRA, France

NCBI tax ID(s): 1423751 (strain), 1203069 (species)

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General

@ref: 17361

BacDive-ID: 6700

DSM-Number: 23908

keywords: genome sequence, 16S sequence, Bacteria, microaerophile, mesophilic, Gram-positive, rod-shaped

description: Lactobacillus gigeriorum 202 is a microaerophile, mesophilic, Gram-positive bacterium that was isolated from chicken crop.

NCBI tax id

NCBI tax idMatching level
1203069species
1423751strain

strain history

@refhistory
17361<- S. Cousin, CIP, Genopole, Paris, France; CRBIP 24.85 <- F. Gasser, CIP <- INRA, France
67771<- DSM <- S Cousin, CIP, Genopole, Paris, France, CRBIP 24.85 <- F Gasser, CIP <- INRA, France

doi: 10.13145/bacdive6700.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Lactobacillales
  • family: Lactobacillaceae
  • genus: Lactobacillus
  • species: Lactobacillus gigeriorum
  • full scientific name: Lactobacillus gigeriorum Cousin et al. 2012

@ref: 17361

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Lactobacillaceae

genus: Lactobacillus

species: Lactobacillus gigeriorum

full scientific name: Lactobacillus gigeriorum Cousin et al. 2012

strain designation: 202

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell shapemotilityconfidence
30008positive0.59-2.07 µmrod-shapedno
67771rod-shapedno
67771positive
69480no95.892
69480positive100

pigmentation

  • @ref: 30008
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 17361
  • 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
17361positivegrowth37mesophilic
30008positivegrowth20-45
30008positiveoptimum37mesophilic
67771positivegrowth37mesophilic

culture pH

@refabilitytypepHPH range
30008positivegrowth04-07acidophile
30008positiveoptimum6

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
17361microaerophile
30008facultative anaerobe
67771microaerophile

spore formation

@refspore formationconfidence
30008no
67771no
69481no100
69480no99.988

halophily

@refsaltgrowthtested relationconcentration
30008NaClpositivegrowth0-3 %
30008NaClpositiveoptimum1 %

observation

  • @ref: 30008
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3000817057cellobiose+carbon source
3000828757fructose+carbon source
3000828260galactose+carbon source
3000817234glucose+carbon source
3000817306maltose+carbon source
3000837684mannose+carbon source
3000817814salicin+carbon source
3000817992sucrose+carbon source
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
17361-----------+++--------+++++++--+----+--+----------

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentgeographic location
17361chicken cropFranceFRAEurope
67771From chicken cropFranceFRAEuropeInstitut National de Recherche Agronomique, Nantes

isolation source categories

Cat1Cat2Cat3
#Engineered#Agriculture
#Host#Birds#Chicken

taxonmaps

  • @ref: 69479
  • File name: preview.99_4274.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_46;96_1120;97_1315;98_1585;99_4274&stattab=map
  • Last taxonomy: Lactobacillus
  • 16S sequence: FR681899
  • Sequence Identity:
  • Total samples: 400
  • soil counts: 15
  • aquatic counts: 4
  • animal counts: 359
  • plant counts: 22

Safety information

risk assessment

  • @ref: 17361
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 17361
  • description: Lactobacillus gigeriorum partial 16S rRNA gene, strain CRBIP 24.85
  • accession: FR681899
  • length: 1448
  • database: ena
  • NCBI tax ID: 1423751

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Lactobacillus gigeriorum DSM 23908 = CRBIP 24.85 type strain: CRBIP 24.85GCA_000296855contigncbi1423751
66792Lactobacillus gigeriorum CRBIP 24.85872325.3wgspatric1423751
66792Lactobacillus gigeriorum DSM 23908 = CRBIP 24.851423751.3wgspatric1423751
66792Lactobacillus gigeriorum DSM 239082700989126draftimg1423751
66792Lactobacillus gigeriorum CRBIP 24.852597489909draftimg1423751
67771Lactobacillus gigeriorum DSM 23908 = CRBIP 24.85GCA_001436575contigncbi1423751

GC content

@refGC-contentmethod
1736141.9high performance liquid chromatography (HPLC)
6777141.9

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno95.853yes
flagellatedno98.308no
gram-positiveyes94.385yes
anaerobicyes58.377no
halophileyes58.979yes
spore-formingno96.364yes
thermophileno99.43no
glucose-utilyes93.286no
aerobicno97.36no
glucose-fermentyes90.509no

External links

@ref: 17361

culture collection no.: DSM 23908, CRBIP24.85, KCTC 21043

straininfo link

  • @ref: 76174
  • straininfo: 379262

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny21421927Lactobacillus gigeriorum sp. nov., isolated from chicken crop.Cousin S, Gulat-Okalla ML, Motreff L, Gouyette C, Bouchier C, Clermont D, Bizet CInt J Syst Evol Microbiol10.1099/ijs.0.028217-02011Animals, Bacterial Typing Techniques, Chaperonin 60/genetics, Chickens/*microbiology, Crop, Avian/*microbiology, DNA, Bacterial/analysis, DNA-Directed RNA Polymerases/genetics, Genes, rRNA, Lactobacillus/*classification/genetics/*isolation & purification/metabolism, Molecular Sequence Data, Phenotype, Phenylalanine-tRNA Ligase/genetics, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species SpecificityGenetics
Genetics23045490Draft genome sequence of Lactobacillus gigeriorum CRBIP 24.85T, isolated from a chicken crop.Cousin S, Ma L, Creno S, Clermont D, Loux V, Bizet C, Bouchier CJ Bacteriol10.1128/JB.01427-122012Animals, Bacterial Proteins/genetics, Base Composition, Chickens/microbiology, DNA, Bacterial/*chemistry/*genetics, Feces/microbiology, *Genome, Bacterial, Lactobacillus/*genetics/isolation & purification, Molecular Sequence Data, *Sequence Analysis, DNATranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
17361Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23908)https://www.dsmz.de/collection/catalogue/details/culture/DSM-23908
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
30008Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2637228776041
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
68371Automatically annotated from API 50CH acid
69479João 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
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
76174Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID379262.1StrainInfo: A central database for resolving microbial strain identifiers