Strain identifier

BacDive ID: 6667

Type strain: Yes

Species: Levilactobacillus namurensis

Strain history: CIP <- 2007, CCUG <- 2006, LMG

NCBI tax ID(s): 1423773 (strain), 380393 (species)

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General

@ref: 7916

BacDive-ID: 6667

DSM-Number: 19117

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

description: Levilactobacillus namurensis DSM 19117 is a microaerophile, mesophilic, Gram-positive bacterium that was isolated from sourdough, manufactured with wheat, rye and spelt flour.

NCBI tax id

NCBI tax idMatching level
380393species
1423773strain

strain history

@refhistory
7916<- CCUG <- I. Shierlinck
67770CCUG 52843 <-- I. Scheirlinck LMG 23583.
121230CIP <- 2007, CCUG <- 2006, LMG

doi: 10.13145/bacdive6667.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Lactobacillales
  • family: Lactobacillaceae
  • genus: Levilactobacillus
  • species: Levilactobacillus namurensis
  • full scientific name: Levilactobacillus namurensis (Scheirlinck et al. 2007) Zheng et al. 2020

  • synonyms

    • @ref: 20215
    • synonym: Lactobacillus namurensis

@ref: 7916

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Lactobacillaceae

genus: Levilactobacillus

species: Levilactobacillus namurensis

full scientific name: Levilactobacillus namurensis (Scheirlinck et al. 2007) Zheng et al. 2020

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
31892positive6 µm0.75 µmrod-shapedno
69480no97.186
69480positive100
121230positiverod-shapedno

colony morphology

  • @ref: 59682
  • incubation period: 1 day

pigmentation

  • @ref: 31892
  • production: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
7916PEDIOCOCCUS DAMNOSUS MEDIUM (DSMZ Medium 231)yeshttps://mediadive.dsmz.de/medium/231Name: PEDIOCOCCUS DAMNOSUS MEDIUM (DSMZ Medium 231) Composition: Glucose 20.0 g/l Casein peptone 10.0 g/l Meat extract 10.0 g/l Yeast extract 5.0 g/l Na-acetate 5.0 g/l K2HPO4 2.0 g/l (NH4)3 citrate 2.0 g/l Tween 80 1.0 g/l Cysteine hydrochloride 0.5 g/l MgSO4 x 7 H2O 0.2 g/l MnSO4 x H2O 0.05 g/l Distilled water
37563MEDIUM 40- for Lactobacillus and LeuconostocyesDistilled water make up to (1000.000 ml);Man Rogosa Sharp agar (68.000 g)
121230CIP Medium 40yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=40

culture temp

@refgrowthtypetemperaturerange
7916positivegrowth30mesophilic
31892positiveoptimum15psychrophilic
37563positivegrowth30mesophilic
59682positivegrowth30mesophilic
67770positivegrowth30mesophilic
121230positivegrowth15-37
121230nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
7916microaerophile
31892facultative anaerobe
59682aerobe
59682anaerobe

spore formation

@refspore formationconfidence
31892no
69481no100
69480no99.999

halophily

  • @ref: 31892
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 05-07 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3189229016arginine+carbon source
3189228757fructose+carbon source
3189228260galactose+carbon source
3189224265gluconate+carbon source
3189217234glucose+carbon source
3189217306maltose+carbon source
3189229864mannitol+carbon source
3189228053melibiose+carbon source
31892506227N-acetylglucosamine+carbon source
3189233942ribose+carbon source
318924853esculin+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
6837117716lactose-builds acid from
6837117306maltose+builds acid from
6837117057cellobiose-builds acid from
6837117814salicin-builds acid from
6837118305arbutin-builds acid from
6837127613amygdalin-builds acid from
6837143943methyl alpha-D-mannoside-builds acid from
6837117924D-sorbitol-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
6837174863methyl beta-D-xylopyranoside+builds acid from
6837115963ribitol-builds acid from
6837165328L-xylose-builds acid from
6837116988D-ribose+builds acid from
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from
6837117754glycerol-builds acid from
12123017632nitrate-reduction
12123016301nitrite-reduction
12123017632nitrate+respiration

metabolite production

  • @ref: 121230
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 121230
  • Chebi-ID: 15688
  • metabolite: acetoin
  • voges-proskauer-test: -

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase+3.2.1.21
68382alpha-glucosidase+3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase+3.2.1.23
68382alpha-galactosidase+3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin+3.4.21.1
68382trypsin-3.4.21.4
68382cystine arylamidase+3.4.11.3
68382valine arylamidase-
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
121230oxidase-
121230alcohol dehydrogenase+1.1.1.1
121230catalase-1.11.1.6
121230lysine decarboxylase-4.1.1.18
121230ornithine decarboxylase-4.1.1.17
121230urease-3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
121230-+++-+-+-+++++-++---

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
7916----+++--++++-----+/---++--+--+-+----------------+--
121230---+/-+---++/-+/-+--------+/-+/---+/---+-+/-----------------+--

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling dateisolation date
7916sourdough, manufactured with wheat, rye and spelt flourNamurBelgiumBELEurope
59682Sourdough based on wheat,rye and spelt flourNamurBelgiumBELEurope2004-08-30
67770Belgian sourdough
121230Food, Sourdough based on wheat, rye and spelt flourNamurBelgiumBELEurope2004

isolation source categories

Cat1Cat2Cat3
#Engineered#Food production#Food
#Host#Plants#Herbaceous plants (Grass,Crops)

taxonmaps

  • @ref: 69479
  • File name: preview.99_2940.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_45;96_484;97_1758;98_2271;99_2940&stattab=map
  • Last taxonomy: Levilactobacillus namurensis
  • 16S sequence: LC483562
  • Sequence Identity:
  • Total samples: 1761
  • soil counts: 222
  • aquatic counts: 82
  • animal counts: 1349
  • plant counts: 108

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
79161Risk group (German classification)
1212301Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Lactobacillus namurensis partial 16S rRNA gene, type strain LMG 23583TAM2591181518ena380393
31892Lactobacillus namurensis partial 16S rRNA gene, type strain LMG 23584TAM2591191518nuccore380393
7916Lactobacillus namurensis partial pheS gene for phenylalanyl-tRNA synthetase alpha chain, type strain LMG 23583TAM259120392ena380393
67770Lactobacillus namurensis gene for 16S ribosomal RNA, partial sequenceLC4835621509ena380393

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Lactobacillus namurensis DSM 191171423773.3wgspatric1423773
66792Lactobacillus namurensis strain NBRC 107158380393.5wgspatric380393
66792Levilactobacillus namurensis DSM 191172695420716draftimg1423773
67770Levilactobacillus namurensis DSM 19117GCA_001434785scaffoldncbi1423773
67770Levilactobacillus namurensis NBRC 107158GCA_007992015contigncbi380393

GC content

@refGC-contentmethod
791652
6777052high performance liquid chromatography (HPLC)
6777052genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno93.827yes
gram-positiveyes97.823yes
anaerobicno88.29no
halophileyes93.643no
spore-formingno94.213yes
thermophileno99.43yes
glucose-utilyes90.61yes
aerobicno95.775no
flagellatedno98.158yes
glucose-fermentyes86.288no

External links

@ref: 7916

culture collection no.: DSM 19117, CCUG 52843, CIP 109498, LMG 23583, JCM 15612, BCRC 80773, NBRC 107158

straininfo link

  • @ref: 76141
  • straininfo: 133812

literature

  • topic: Phylogeny
  • Pubmed-ID: 17267954
  • title: Lactobacillus namurensis sp. nov., isolated from a traditional Belgian sourdough.
  • authors: Scheirlinck I, Van der Meulen R, Van Schoor A, Cleenwerck I, Huys G, Vandamme P, De Vuyst L, Vancanneyt M
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.64607-0
  • year: 2007
  • mesh: Bacterial Proteins/analysis, Bacterial Typing Techniques, Base Composition, Belgium, DNA Fingerprinting, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Electrophoresis, Polyacrylamide Gel, Flour/*microbiology, *Food Microbiology, Genes, rRNA/genetics, Lactobacillus/*classification/genetics/*isolation & purification/physiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phenylalanine-tRNA Ligase/genetics, Phylogeny, Polymorphism, Restriction Fragment Length, Proteome/analysis, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
  • topic2: Enzymology

Reference

@idauthorscataloguedoi/urltitlejournalpubmedID_cross_reference
7916Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19117)https://www.dsmz.de/collection/catalogue/details/culture/DSM-19117
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
31892Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2877604128151
37563Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7249
59682Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 52843)https://www.ccug.se/strain?id=52843
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
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
76141Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID133812.1StrainInfo: A central database for resolving microbial strain identifiers
121230Curators of the CIPCollection of Institut Pasteur (CIP 109498)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109498