Strain identifier

BacDive ID: 6615

Type strain: Yes

Species: Lactobacillus kalixensis

Strain Designation: Kx127A2

Strain history: CIP <- 2008, DSMZ <- S. Roos, Uppsala Univ., Uppsala, Sweden: strain Kx127A2

NCBI tax ID(s): 1423763 (strain), 227944 (species)

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General

@ref: 6159

BacDive-ID: 6615

DSM-Number: 16043

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

description: Lactobacillus kalixensis Kx127A2 is an anaerobe, mesophilic, Gram-positive bacterium that was isolated from gastric biopsies, human stomach mucosa.

NCBI tax id

NCBI tax idMatching level
1423763strain
227944species

strain history

@refhistory
6159<- S. Roos; Kx127A2
67770LMG 22115 <-- S. Roos Kx127A2.
120373CIP <- 2008, DSMZ <- S. Roos, Uppsala Univ., Uppsala, Sweden: strain Kx127A2

doi: 10.13145/bacdive6615.20230509.8.1

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 kalixensis
  • full scientific name: Lactobacillus kalixensis Roos et al. 2005

@ref: 6159

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Lactobacillaceae

genus: Lactobacillus

species: Lactobacillus kalixensis

full scientific name: Lactobacillus kalixensis Roos et al. 2005

strain designation: Kx127A2

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
31225positive5.75 µm1 µmrod-shapedno
69480no93.427
69480positive100

pigmentation

  • @ref: 31225
  • production: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6159MRS MEDIUM (DSMZ Medium 11)yeshttps://mediadive.dsmz.de/medium/11Name: 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
37872MEDIUM 40- for Lactobacillus and LeuconostocyesDistilled water make up to (1000.000 ml);Man Rogosa Sharp agar (68.000 g)
120373CIP Medium 40yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=40

culture temp

@refgrowthtypetemperaturerange
6159positivegrowth37mesophilic
31225positivegrowth25-45
31225positiveoptimum35mesophilic
37872positivegrowth37mesophilic
58174positivegrowth37mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
6159anaerobe
31225anaerobe
58174anaerobe

spore formation

@refspore formationconfidence
31225no
69481no100
69480no99.967

murein

  • @ref: 6159
  • murein short key: A11.31
  • type: A4alpha L-Lys-D-Asp

observation

  • @ref: 31225
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3122517057cellobiose+carbon source
3122528757fructose+carbon source
3122528260galactose+carbon source
3122517234glucose+carbon source
3122517716lactose+carbon source
3122517306maltose+carbon source
3122529864mannitol+carbon source
3122537684mannose+carbon source
3122528053melibiose+carbon source
31225506227N-acetylglucosamine+carbon source
3122516634raffinose+carbon source
3122517814salicin+carbon source
3122517992sucrose+carbon source
3122527082trehalose+carbon source
312254853esculin+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

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
120373-------------------------------------------------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
6159gastric biopsies, human stomach mucosaKalixSwedenSWEEurope
58174Human stomach biopsy,mucosa of healthy individualKalixSwedenSWEEurope
67770Human stomach mucosa
120373Human, Stomach gastric biopsies mucosaSwedenSWEEurope

isolation source categories

Cat1Cat2Cat3
#Infection#Patient#Biopsy
#Host#Human
#Host Body-Site#Gastrointestinal tract#Stomach

taxonmaps

  • @ref: 69479
  • File name: preview.99_5547.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_46;96_1120;97_3289;98_4139;99_5547&stattab=map
  • Last taxonomy: Lactobacillus kalixensis subclade
  • 16S sequence: LC483553
  • Sequence Identity:
  • Total samples: 1419
  • soil counts: 11
  • aquatic counts: 24
  • animal counts: 1372
  • plant counts: 12

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
61591Risk group (German classification)
1203731Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Lactobacillus kalixensis partial 16S rRNA gene, type strain CCUG 48459TFR6830961513ena227944
31225Lactobacillus kalixensis 16S ribosomal RNA gene, complete sequenceAY2536571555nuccore227944
67770Lactobacillus kalixensis gene for 16S ribosomal RNA, partial sequenceLC4835531506ena227944

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Lactobacillus kalixensis DSM 160431423763.3wgspatric1423763
66792Lactobacillus kalixensis DSM 160432660238416draftimg1423763
67770Lactobacillus kalixensis DSM 16043GCA_001434335scaffoldncbi1423763

GC content

@refGC-contentmethod
615935.5
6777036.1genome sequence analysis
6777035.5high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno94.89yes
gram-positiveyes95.778yes
anaerobicyes70.242yes
halophileyes82.896no
spore-formingno96.016yes
glucose-utilyes93.492yes
thermophileno99.29yes
aerobicno97.943yes
flagellatedno97.985no
glucose-fermentyes92.473no

External links

@ref: 6159

culture collection no.: DSM 16043, CCUG 48459, CIP 109909, LMG 22115, JCM 15954

straininfo link

  • @ref: 76089
  • straininfo: 129729

literature

  • topic: Phylogeny
  • Pubmed-ID: 15653856
  • title: Lactobacillus gastricus sp. nov., Lactobacillus antri sp. nov., Lactobacillus kalixensis sp. nov. and Lactobacillus ultunensis sp. nov., isolated from human stomach mucosa.
  • authors: Roos S, Engstrand L, Jonsson H
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.63083-0
  • year: 2005
  • mesh: Bacterial Typing Techniques, DNA, Ribosomal/analysis, Gastric Mucosa/*microbiology, Genes, rRNA, Humans, Lactobacillus/*classification/genetics/*isolation & purification, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
  • topic2: Pathogenicity

Reference

@idauthorscataloguedoi/urltitlejournalpubmedID_cross_reference
6159Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16043)https://www.dsmz.de/collection/catalogue/details/culture/DSM-16043
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
31225Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2877604127551
37872Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7706
58174Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 48459)https://www.ccug.se/strain?id=48459
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
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
76089Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID129729.1StrainInfo: A central database for resolving microbial strain identifiers
120373Curators of the CIPCollection of Institut Pasteur (CIP 109909)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109909