Strain identifier

BacDive ID: 6613

Type strain: Yes

Species: Limosilactobacillus antri

Strain Designation: Kx146A4

Strain history: CIP <- 2009, DSMZ <- S. Roos, Univ. of Agricultural Sciences Swedish, Uppsala, Sweden: strain Kx146A4

NCBI tax ID(s): 525309 (strain), 227943 (species)

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General

@ref: 6157

BacDive-ID: 6613

DSM-Number: 16041

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

description: Limosilactobacillus antri Kx146A4 is an anaerobe, mesophilic, Gram-positive bacterium that was isolated from gastric biopsies, human stomach mucosa.

NCBI tax id

NCBI tax idMatching level
227943species
525309strain

strain history

@refhistory
6157<- S. Roos; Kx146A4
67770LMG 22111 <-- S. Roos Kx146A4.
116417CIP <- 2009, DSMZ <- S. Roos, Univ. of Agricultural Sciences Swedish, Uppsala, Sweden: strain Kx146A4

doi: 10.13145/bacdive6613.20250331.9.3

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Lactobacillales
  • family: Lactobacillaceae
  • genus: Limosilactobacillus
  • species: Limosilactobacillus antri
  • full scientific name: Limosilactobacillus antri (Roos et al. 2005) Zheng et al. 2020

  • synonyms

    • @ref: 20215
    • synonym: Lactobacillus antri

@ref: 6157

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Lactobacillaceae

genus: Limosilactobacillus

species: Limosilactobacillus antri

full scientific name: Limosilactobacillus antri (Roos et al. 2005) Zheng et al. 2020

strain designation: Kx146A4

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
31225positive1.6 µm1 µmrod-shapedno
116417positiverod-shapedno
125438no92
125438positive93.311

pigmentation

  • @ref: 31225
  • production: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6157MRS 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
37887MEDIUM 40- for Lactobacillus and LeuconostocyesDistilled water make up to (1000.000 ml);Man Rogosa Sharp agar (68.000 g)
116417CIP Medium 40yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=40

culture temp

@refgrowthtypetemperature
6157positivegrowth37
31225positivegrowth25-45
31225positiveoptimum35
37887positivegrowth37
58172positivegrowth37
67770positivegrowth37
116417positivegrowth15-45

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
6157anaerobe
6157microaerophile
31225anaerobe
58172anaerobe
116417facultative anaerobe
125439anaerobe99.6

spore formation

@refspore formationconfidence
31225no
125439no98.1

murein

  • @ref: 6157
  • murein short key: A11.31
  • type: A4alpha L-Lys-D-Asp

observation

  • @ref: 31225
  • observation: aggregates in clumps

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3122522599arabinose+carbon source
3122518403L-arabitol+carbon source
3122528757fructose+carbon source
3122528260galactose+carbon source
3122524265gluconate+carbon source
3122517234glucose+carbon source
3122517306maltose+carbon source
3122529864mannitol+carbon source
3122528053melibiose+carbon source
3122516634raffinose+carbon source
3122533942ribose+carbon source
3122517992sucrose+carbon source
3122518222xylose+carbon source
312254853esculin+hydrolysis
11641717632nitrate-reduction
11641716301nitrite-reduction
11641717632nitrate+respiration

metabolite production

  • @ref: 116417
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 116417
  • 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
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase+3.2.1.20
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase+3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382cystine arylamidase+3.4.11.3
68382leucine arylamidase+3.4.11.1
68382valine arylamidase-
68382lipase (C 14)-
68382esterase (C 4)-
68382esterase lipase (C 8)-
68382alkaline phosphatase+3.1.3.1
116417oxidase-
116417alcohol dehydrogenase-1.1.1.1
116417catalase-1.11.1.6
116417lysine decarboxylase-4.1.1.18
116417ornithine decarboxylase-4.1.1.17
116417urease-3.5.1.5
68382alpha-chymotrypsin-3.4.21.1
68382trypsin-3.4.21.4

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
116417-+---+-+--+++--++---

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
6157gastric biopsies, human stomach mucosaKalixSwedenSWEEurope
58172Human stomach biopsy,mucosa of healthy individualKalixSwedenSWEEurope
67770Human stomach mucosa
116417Human, Stomach mucosaKalixSwedenSWEEurope

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_5951.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_45;96_1693;97_2027;98_2492;99_5951&stattab=map
  • Last taxonomy: Limosilactobacillus
  • 16S sequence: LC480809
  • Sequence Identity:
  • Total samples: 788
  • soil counts: 3
  • aquatic counts: 29
  • animal counts: 744
  • plant counts: 12

Safety information

risk assessment

  • @ref: 116417
  • biosafety level: 1
  • biosafety level comment: Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
31225Lactobacillus antri 16S ribosomal RNA gene, complete sequenceAY2536591520nuccore227943
67770Lactobacillus antri JCM 15950 gene for 16S ribosomal RNA, partial sequenceLC4808091515nuccore227943

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Lactobacillus antri DSM 16041525309.8wgspatric525309
66792Lactobacillus antri DSM 16041525309.3wgspatric525309
66792Limosilactobacillus antri DSM 160412671180689draftimg525309
66792Limosilactobacillus antri DSM 16041645951838draftimg525309
67770Limosilactobacillus antri DSM 16041GCA_000160835scaffoldncbi525309
67770Limosilactobacillus antri DSM 16041GCA_001435475contigncbi525309

GC content

@refGC-contentmethod
615744.9
6777051.1genome sequence analysis
6777044.9high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125438gram-positivegram-positivePositive reaction to Gram-stainingyes93.311yes
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no67.279no
125438spore-formingspore-formingAbility to form endo- or exosporesno89.243yes
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)no92.814no
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno97yes
125438motile2+flagellatedAbility to perform flagellated movementno92yes
125439BacteriaNetspore_formationAbility to form endo- or exosporesno98.1
125439BacteriaNetmotilityAbility to perform movementno79.2
125439BacteriaNetgram_stainReaction to gram-stainingpositive75.7
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthanaerobe99.6

External links

@ref: 6157

culture collection no.: DSM 16041, CCUG 48456, CIP 109960, LMG 22111, JCM 15950

straininfo link

  • @ref: 76087
  • straininfo: 129725

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny15653856Lactobacillus gastricus sp. nov., Lactobacillus antri sp. nov., Lactobacillus kalixensis sp. nov. and Lactobacillus ultunensis sp. nov., isolated from human stomach mucosa.Roos S, Engstrand L, Jonsson HInt J Syst Evol Microbiol10.1099/ijs.0.63083-02005Bacterial 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, DNAPathogenicity
Enzymology31986559Functional Expression and Characterization of Acetyl Xylan Esterases CE Family 7 from Lactobacillus antri and Bacillus halodurans.Kim MJ, Jang MU, Nam GH, Shin H, Song JR, Kim TJJ Microbiol Biotechnol10.4014/jmb.2001.010042020Acetylesterase/chemistry/*genetics/isolation & purification/*metabolism, Amino Acid Sequence, Bacillus/*enzymology/*genetics, Cloning, Molecular, Enzyme Activation, *Gene Expression, Hydrogen-Ion Concentration, Hydrolysis, Lactobacillus/chemistry/*enzymology/*genetics/isolation & purification, Temperature, Xylans/metabolismPhylogeny

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
6157Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16041)https://www.dsmz.de/collection/catalogue/details/culture/DSM-16041
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
31225Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2755128776041
37887Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7762
58172Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 48456)https://www.ccug.se/strain?id=48456
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/
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
76087Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID129725.1StrainInfo: A central database for resolving microbial strain identifiers
116417Curators of the CIPCollection of Institut Pasteur (CIP 109960)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109960
125438Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann10.1101/2024.08.12.607695Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets
125439Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardyhttps://github.com/GenomeNet/deepGdeepG: Deep Learning for Genome Sequence Data. R package version 0.3.1