Strain identifier

BacDive ID: 6412

Type strain: No

Species: Lactobacillus amylovorus

Strain Designation: OTU-171-1

Strain history: CIP <- 2006, DSMZ, Lactobacillus sobrius

NCBI tax ID(s): 695563 (strain), 1604 (species)

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General

@ref: 6572

BacDive-ID: 6412

DSM-Number: 16698

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

description: Lactobacillus amylovorus OTU-171-1 is a microaerophile, mesophilic, Gram-positive bacterium that was isolated from feces, piglet intestine.

NCBI tax id

NCBI tax idMatching level
695563strain
1604species

strain history

@refhistory
6572<- S.R. Konstantinov
349802006, DSMZ, Lactobacillus sobrius
116363CIP <- 2006, DSMZ, Lactobacillus sobrius

doi: 10.13145/bacdive6412.20230509.8.1

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 amylovorus
  • full scientific name: Lactobacillus amylovorus Nakamura 1981

  • synonyms

    • @ref: 20215
    • synonym: Lactobacillus sobrius

@ref: 6572

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Lactobacillaceae

genus: Lactobacillus

species: Lactobacillus amylovorus

full scientific name: Lactobacillus amylovorus Nakamura 1981

strain designation: OTU-171-1

type strain: no

Morphology

cell morphology

@refgram staincell lengthcell shapemotilityconfidence
31422positive02-20 µmrod-shapedno
69480no91.757
69480positive100
116363positiverod-shapedno

pigmentation

  • @ref: 31422
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6572MRS 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
34980MEDIUM 40- for Lactobacillus and LeuconostocyesDistilled water make up to (1000.000 ml);Man Rogosa Sharp agar (68.000 g)
116363CIP Medium 40yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=40

culture temp

@refgrowthtypetemperaturerange
6572positivegrowth37mesophilic
31422positivegrowth37mesophilic
31422positiveoptimum37mesophilic
34980positivegrowth37mesophilic

culture pH

@refabilitytypepH
31422positivegrowth7
31422positiveoptimum7

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
6572microaerophile
31422facultative anaerobe
116363facultative anaerobe

spore formation

@refspore formationconfidence
31422no
69481no100
69480no99.999

observation

  • @ref: 31422
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3142217057cellobiose+carbon source
3142228757fructose+carbon source
3142228260galactose+carbon source
3142217234glucose+carbon source
3142228087glycogen+carbon source
3142217716lactose+carbon source
3142217306maltose+carbon source
3142229864mannitol+carbon source
3142237684mannose+carbon source
31422506227N-acetylglucosamine+carbon source
3142233942ribose+carbon source
3142217814salicin+carbon source
3142217992sucrose+carbon source
3142227082trehalose+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
6837117151xylitol-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
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
6837117268myo-inositol-builds acid from
6837116813galactitol-builds acid from
6837162345L-rhamnose-builds acid from
6837117266L-sorbose-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
11636317632nitrate-reduction
11636316301nitrite-reduction

metabolite production

  • @ref: 116363
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

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
116363oxidase-
116363catalase-1.11.1.6
116363urease-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
116363-+---+----++++-++---

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
6572----------++++----+/----+--++/-++++++--+++-+----------
116363---------++++/---------+----+++-++--++--+/-----------

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
6572feces, piglet intestineNetherlandsNLDEurope
116363Animal, Pig intestine

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Suidae (Pig,Swine)
#Host Body Product#Gastrointestinal tract#Feces (Stool)

taxonmaps

  • @ref: 69479
  • File name: preview.99_1025.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_46;96_146;97_157;98_801;99_1025&stattab=map
  • Last taxonomy: Lactobacillus
  • 16S sequence: AY700063
  • Sequence Identity:
  • Total samples: 64584
  • soil counts: 2681
  • aquatic counts: 3832
  • animal counts: 57081
  • plant counts: 990

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
65721Risk group (German classification)
1163631Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Lactobacillus sobrius strain DSM 16698 16S ribosomal RNA gene, partial sequenceEF468103634ena1604
6572Lactobacillus sobrius strain OTU171-001 16S ribosomal RNA gene, partial sequenceAY7000631565ena1604

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Lactobacillus amylovorus DSM 16698GCA_001437365scaffoldncbi695563
66792Lactobacillus amylovorus DSM 16698695563.3wgspatric695563
66792Lactobacillus amylovorus DSM 166982700989266draftimg695563

GC content

@refGC-content
657235
3142235-36

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedno97.6no
gram-positiveyes94.953yes
anaerobicyes73.308no
aerobicno98.068no
halophileyes84.385no
spore-formingno97.42yes
glucose-utilyes92.672no
motileno95.024yes
thermophileno99.523yes
glucose-fermentyes90.715no

External links

@ref: 6572

culture collection no.: DSM 16698, CIP 109151, NCCB 100067

straininfo link

  • @ref: 75886
  • straininfo: 289863

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny16403862Lactobacillus sobrius sp. nov., abundant in the intestine of weaning piglets.Konstantinov SR, Poznanski E, Fuentes S, Akkermans AD, Smidt H, de Vos WMInt J Syst Evol Microbiol10.1099/ijs.0.63508-02006Animals, Animals, Suckling/*microbiology, Base Composition, DNA, Bacterial, Intestines/*microbiology, Lactobacillus/*classification/isolation & purification/physiology, Molecular Sequence Data, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Species Specificity, Swine/*microbiologyGenetics
Metabolism18029488The novel porcine Lactobacillus sobrius strain protects intestinal cells from enterotoxigenic Escherichia coli K88 infection and prevents membrane barrier damage.Roselli M, Finamore A, Britti MS, Konstantinov SR, Smidt H, de Vos WM, Mengheri EJ Nutr10.1093/jn/137.12.27092007Animals, Bacterial Adhesion, Cell Line, Cell Membrane, Enterotoxigenic Escherichia coli/*physiology, Epithelial Cells/cytology/*microbiology, Escherichia coli Infections/*microbiology, Interleukin-1/metabolism, Interleukin-10/metabolism, Lactobacillus/*classification/*physiology, Membrane Proteins/metabolism, Occludin, Phosphoproteins/metabolism, Signal Transduction, Swine/microbiology, Zonula Occludens-1 ProteinPhylogeny
Phylogeny18398193Lactobacillus sobrius Konstantinov et al. 2006 is a later synonym of Lactobacillus amylovorus Nakamura 1981.Jakava-Viljanen M, Murros A, Palva A, Bjorkroth KJInt J Syst Evol Microbiol10.1099/ijs.0.65432-02008Animals, DNA, Bacterial/genetics, DNA-Directed RNA Polymerases/genetics, Finland, Genes, Bacterial, Lactobacillus/*classification/genetics/isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, Phenylalanine-tRNA Ligase/genetics, Phylogeny, Ribotyping, Species Specificity, Sus scrofa/microbiology, Terminology as TopicGenetics
Enzymology18537838Feeding of Lactobacillus sobrius reduces Escherichia coli F4 levels in the gut and promotes growth of infected piglets.Konstantinov SR, Smidt H, Akkermans AD, Casini L, Trevisi P, Mazzoni M, De Filippi S, Bosi P, de Vos WMFEMS Microbiol Ecol10.1111/j.1574-6941.2008.00517.x2008Animals, Body Fluids/immunology, Colony Count, Microbial, Enterotoxigenic Escherichia coli/growth & development/isolation & purification/*physiology, Escherichia coli Infections/microbiology/*veterinary, Gastrointestinal Contents/chemistry, Gastrointestinal Tract/*microbiology, Hydrogen-Ion Concentration, Ilium/microbiology, Immunoglobulin A/analysis/blood, Lactobacillus/*physiology, Probiotics/administration & dosage, Swine/*growth & development/immunology/*microbiology, Swine Diseases/*microbiology/prevention & controlPhylogeny
Pathogenicity21741105In vitro evaluation of gastrointestinal survival of Lactobacillus amylovorus DSM 16698 alone and combined with galactooligosaccharides, milk and/or Bifidobacterium animalis subsp. lactis Bb-12.Martinez RC, Aynaou AE, Albrecht S, Schols HA, De Martinis EC, Zoetendal EG, Venema K, Saad SM, Smidt HInt J Food Microbiol10.1016/j.ijfoodmicro.2011.06.0102011Animals, Bifidobacterium/*growth & development, DNA Fingerprinting, Gastrointestinal Tract/*microbiology, Humans, Lactobacillus acidophilus/*growth & development, Milk/microbiology, Models, Biological, Oligosaccharides/*metabolism, *Prebiotics, *ProbioticsMetabolism
Enzymology23167835Effect of galactooligosaccharides and Bifidobacterium animalis Bb-12 on growth of Lactobacillus amylovorus DSM 16698, microbial community structure, and metabolite production in an in vitro colonic model set up with human or pig microbiota.Martinez RC, Cardarelli HR, Borst W, Albrecht S, Schols H, Gutierrez OP, Maathuis AJ, de Melo Franco BD, De Martinis EC, Zoetendal EG, Venema K, Saad SM, Smidt HFEMS Microbiol Ecol10.1111/1574-6941.120412012Animals, Bacteria/genetics/isolation & purification/metabolism, *Bifidobacterium/genetics, Chromatography, Ion Exchange, Colon/*microbiology, Denaturing Gradient Gel Electrophoresis, Fatty Acids, Volatile/metabolism, Feces/microbiology, Galactose/chemistry, Humans, Lactobacillus/genetics/isolation & purification, *Lactobacillus acidophilus/genetics/growth & development, Metagenome, Oligosaccharides/*administration & dosage/metabolism, Polymerase Chain Reaction, *Prebiotics, Probiotics/*administration & dosage, RNA, Ribosomal, 16S/genetics, Sus scrofaPhylogeny
Metabolism24733511Lactobacillus amylovorus inhibits the TLR4 inflammatory signaling triggered by enterotoxigenic Escherichia coli via modulation of the negative regulators and involvement of TLR2 in intestinal Caco-2 cells and pig explants.Finamore A, Roselli M, Imbinto A, Seeboth J, Oswald IP, Mengheri EPLoS One10.1371/journal.pone.00948912014Animals, Caco-2 Cells, Cell Nucleus/metabolism, Cytokines/biosynthesis, Enterotoxigenic Escherichia coli/*physiology, HSP72 Heat-Shock Proteins/metabolism, HSP90 Heat-Shock Proteins/metabolism, Humans, Inflammation/*pathology, Inflammation Mediators/metabolism, Intestinal Mucosa/*metabolism, Intestines/microbiology, Lactobacillus acidophilus/*physiology, Protein Transport, *Signal Transduction, Sus scrofa, Toll-Like Receptor 2/*metabolism, Toll-Like Receptor 4/*metabolism, Transcription Factor RelA/metabolism, Up-RegulationPathogenicity
Enzymology25070625Functional characterization of probiotic surface layer protein-carrying Lactobacillus amylovorus strains.Hynonen U, Kant R, Lahteinen T, Pietila TE, Beganovic J, Smidt H, Uroic K, Avall-Jaaskelainen S, Palva ABMC Microbiol10.1186/1471-2180-14-1992014Animals, *Antibiosis, *Bacterial Adhesion, Cells, Cultured, Epithelial Cells/microbiology, Escherichia coli/physiology, Intestines/microbiology, Lactobacillus acidophilus/*chemistry/isolation & purification/*physiology, Listeria/growth & development, Membrane Glycoproteins/*analysis/*pharmacology, Mucus/microbiology, *Probiotics, Salmonella/growth & development, Swine, Yersinia/growth & developmentPhylogeny
Metabolism26615853In vitro fermentation of prebiotic carbohydrates by intestinal microbiota in the presence of Lactobacillus amylovorus DSM 16998.Cardarelli HR, Martinez RC, Albrecht S, Schols H, Franco BD, Saad SM, Smidt HBenef Microbes10.3920/BM2014.01512015Animals, Chromatography, Ion Exchange, Dietary Carbohydrates/*metabolism, Fatty Acids, Volatile/metabolism, Feces/microbiology, Fermentation, Fructose/metabolism, Galactose/metabolism, *Gastrointestinal Microbiome, Humans, Hydrogen-Ion Concentration, Lactobacillus acidophilus/*metabolism, Mannans/metabolism, Oligosaccharides/metabolism, *Prebiotics, SwinePathogenicity
27688074Differential protection by cell wall components of Lactobacillus amylovorus DSM 16698(T)against alterations of membrane barrier and NF-kB activation induced by enterotoxigenic F4(+) Escherichia coli on intestinal cells.Roselli M, Finamore A, Hynonen U, Palva A, Mengheri EBMC Microbiol10.1186/s12866-016-0847-82016

Reference

@idauthorscataloguedoi/urltitlejournalpubmedID_cross_reference
6572Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16698)https://www.dsmz.de/collection/catalogue/details/culture/DSM-16698
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
31422Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2877604127729
34980Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/6860
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)
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
75886Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID289863.1StrainInfo: A central database for resolving microbial strain identifiers
116363Curators of the CIPCollection of Institut Pasteur (CIP 109151)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109151