Strain identifier

BacDive ID: 6413

Type strain: Yes

Species: Lactobacillus amylovorus

Strain Designation: B-4540

Strain history: CIP <- 1987, DSM <- L.K. Nakamura, NRRL: strain B-4540 <- G. Hrubant

NCBI tax ID(s): 1423723 (strain), 1604 (species)

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General

@ref: 8898

BacDive-ID: 6413

DSM-Number: 20531

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, lactate production

description: Lactobacillus amylovorus B-4540 is an anaerobe, mesophilic bacterium that produces lactate and was isolated from cattle waste-corn fermentation.

NCBI tax id

NCBI tax idMatching level
1604species
1423723strain

strain history

@refhistory
8898<- NRRL <- L.K. Nakamura <- G.R. Hrubant
67770NRRL B-4540 <-- L. K. Nakamura <-- G. R. Hrubant.
116364CIP <- 1987, DSM <- L.K. Nakamura, NRRL: strain B-4540 <- G. Hrubant

doi: 10.13145/bacdive6413.20230509.8.1

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: 8898

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Lactobacillaceae

genus: Lactobacillus

species: Lactobacillus amylovorus

full scientific name: Lactobacillus amylovorus Nakamura 1981

strain designation: B-4540

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480no94.258
69480100positive
116364nopositiverod-shaped

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
8898MRS 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
40528MEDIUM 40- for Lactobacillus and LeuconostocyesDistilled water make up to (1000.000 ml);Man Rogosa Sharp agar (68.000 g)
116364CIP Medium 40yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=40

culture temp

@refgrowthtypetemperaturerange
8898positivegrowth37mesophilic
40528positivegrowth37mesophilic
67770positivegrowth37mesophilic
116364positivegrowth30-45
116364nogrowth15psychrophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
8898anaerobe
8898microaerophile
48682anaerobe
48682microaerophile
116364facultative anaerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.997

compound production

  • @ref: 8898
  • compound: DL lactic acid

murein

  • @ref: 8898
  • murein short key: A11.31
  • type: A4alpha L-Lys-D-Asp

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
68371gluconate-builds acid from24265
68371L-arabitol-builds acid from18403
68371D-arabitol-builds acid from18333
68371L-fucose-builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose-builds acid from16443
68371D-lyxose-builds acid from62318
68371xylitol-builds acid from17151
68371glycogen+builds acid from28087
68371starch+builds acid from28017
68371raffinose-builds acid from16634
68371melezitose-builds acid from6731
68371inulin-builds acid from15443
68371trehalose+builds acid from27082
68371melibiose-builds acid from28053
68371maltose+builds acid from17306
68371cellobiose+builds acid from17057
68371esculin+builds acid from4853
68371N-acetylglucosamine+builds acid from59640
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol-builds acid from17924
68371D-mannitol-builds acid from16899
68371myo-inositol-builds acid from17268
68371galactitol-builds acid from16813
68371L-rhamnose-builds acid from62345
68371L-sorbose-builds acid from17266
68371D-mannose+builds acid from16024
68371D-fructose+builds acid from15824
68371D-glucose+builds acid from17634
68371D-galactose+builds acid from12936
68371methyl beta-D-xylopyranoside-builds acid from74863
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
68371D-xylose-builds acid from65327
68371D-ribose-builds acid from16988
68371L-arabinose-builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
68371glycerol-builds acid from17754
116364nitrate-reduction17632
116364nitrite-reduction16301
116364nitrate+respiration17632

metabolite production

  • @ref: 67770
  • Chebi-ID: 24996
  • metabolite: lactate
  • production: yes

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
116364alcohol dehydrogenase-1.1.1.1
116364catalase-1.11.1.6
116364lysine decarboxylase-4.1.1.18
116364ornithine decarboxylase-4.1.1.17

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    48682C14:08.214
    48682C16:030.216
    48682C17:00.717
    48682C18:012.818
    48682C16:1 ω7c215.819
    48682C18:1 ω9c2017.769
    48682C18:2 ω6,9c/C18:0 ANTE22.817.724
    48682C19:0 CYCLO ω9c2.918.87
    48682Unidentified0.513.242
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
116364-++----+--++---++---

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
8898----------++++--------+--+-++---+---++------------
8898----------++++--------+--+-++---+---++-+----------
8898----------++++--------+-+/-++/-++--+/-+---++-+----------
8898----------++++--------+--+++++-++---++-+----------
8898----------++++--------+-+++++--++---++-+----------
8898----------++++--------+-+/-++++---+---++-+----------
116364---------++++-------+/-++/-+/-++/-++--+/-+---++-++/----------

Isolation, sampling and environmental information

isolation

@refsample type
8898cattle waste-corn fermentation
48682Cattle waste-corn fermentation
67770Cattle waste-corn fermentation
116364Environment, Cattle, waste-corn fermentation

isolation source categories

Cat1Cat2Cat3
#Engineered#Waste#Solid waste
#Host#Mammals#Bovinae (Cow, Cattle)

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: LC064891
  • 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
88981Risk group (German classification)
1163641Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Lactobacillus amylovorus 16S ribosomal RNA gene, partial sequenceAF133264501ena1604
20218Lactobacillus amylovorus ATCC 33620 16S ribosomal RNA gene, partial sequenceAF429495504ena1604
20218Lactobacillus amylovorus strain ATCC 33620 16S ribosomal RNA gene, partial sequence; 16S-23S intergenic spacer, complete sequence; and 23S ribosomal RNA gene, partial sequenceAF429582520ena1604
20218Lactobacillus amylovorus partial 16S rRNA gene, type strain DSM 20531TFR6830891516ena1604
20218Lactobacillus amylovorus strain DSM 20531 16S ribosomal RNA gene, partial sequenceAY9444081504ena1604
20218Lactobacillus amylovorus strain DSM 20531 16S ribosomal RNA gene, partial sequenceEF468092628ena1604
20218Lactobacillus amylovorus 16S ribosomal RNAM588051512ena1604
20218Lactobacillus amylovorus gene for 16S rRNA, partial sequence, strain: JCM 1126AB289031702ena1604
20218Lactobacillus amylovorus 16S ribosomal RNA, partial sequence; 16S/23S intergenic spacer region, complete sequence; and 23S ribosomal RNA partial sequenceAF182732660ena1604
67770Lactobacillus amylovorus gene for 16S ribosomal RNA, partial sequence, strain: JCM 1126LC0648911463ena1423723

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Lactobacillus amylovorus DSM 20531GCA_002706375completencbi1423723
66792Lactobacillus amylovorus DSM 205311423723.10wgspatric1423723
66792Lactobacillus amylovorus DSM 205311423723.12completepatric1423723
66792Lactobacillus amylovorus DSM 205312822017380completeimg1423723
66792Lactobacillus amylovorus DSM 205312681813110draftimg1423723
67770Lactobacillus amylovorus DSM 20531GCA_001433985scaffoldncbi1423723

GC content

@refGC-contentmethod
889840.4
6777037.8genome sequence analysis
6777040.4thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedno98.488no
gram-positiveyes94.683no
anaerobicyes77.761no
aerobicno98.616no
halophileyes81.29no
spore-formingno96.742no
glucose-utilyes92.631no
thermophileno99.426yes
motileno96.659no
glucose-fermentyes90.877no

External links

@ref: 8898

culture collection no.: DSM 20531, ATCC 33620, NRRL B-4540, CCUG 27201, JCM 1126, BCRC 11648, CCM 4380, CECT 4132, CGMCC 1.3395, CIP 102989, KCTC 3597, LMG 17752, LMG 9496, NCAIM B.01458, NCFB 2657, NCIMB 13276, VTT E-95576, NCDO 2657

straininfo link

@refstraininfo
75887264237
75888317563

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Metabolism11080387Characterization of a mutant from Lactobacillus amylovorus JCM 1126(T) with improved utilization of sucrose.Oda Y, Ito MCurr Microbiol10.1007/s0028400101562000Gene Expression Regulation, Enzymologic/genetics, Glycoside Hydrolases/*metabolism, Lactobacillus/*genetics/*metabolism, *Mutation, Sucrose/*metabolism, beta-Fructofuranosidase
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
Enzymology21429613Lactobacillus amylovorus DSM 19280 as a novel food-grade antifungal agent for bakery products.Ryan LA, Zannini E, Dal Bello F, Pawlowska A, Koehler P, Arendt EKInt J Food Microbiol10.1016/j.ijfoodmicro.2011.02.0362011Antifungal Agents/isolation & purification/*pharmacology, Bread/*microbiology, Chromatography, High Pressure Liquid, Fermentation, Food Contamination/*prevention & control, Food Industry, Food Preservation/*methods, Fungi/*drug effects, Lactobacillus acidophilus/*chemistry, Microbial Sensitivity Tests, Propionates/pharmacologyPhylogeny
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
Biotechnology25583336Application of Lactobacillus amylovorus DSM19280 in gluten-free sourdough bread to improve the microbial shelf life.Axel C, Rocker B, Brosnan B, Zannini E, Furey A, Coffey A, Arendt EKFood Microbiol10.1016/j.fm.2014.10.0052014Antibiosis, Antifungal Agents/analysis/metabolism, Bread/analysis/*microbiology, *Chenopodium quinoa, Coumaric Acids/analysis, Fermentation, Food Microbiology, *Food Preservatives, Fungi/*growth & development, Glutens/analysis, Lactates/analysis, Lactic Acid, Lactobacillus/growth & development/*physiology, Phenylpropionates/analysis, TriticumMetabolism
Metabolism25617683Production of lactate and acetate by Lactobacillus coryniformis subsp. torquens DSM 20004(T) in comparison with Lactobacillus amylovorus DSM 20531(T).Slavica A, Trontel A, Jelovac N, Kosovec Z, Santek B, Novak SJ Biotechnol10.1016/j.jbiotec.2015.01.0142015Acetic Acid/isolation & purification/*metabolism, Chromatography, High Pressure Liquid/methods, Culture Media/*analysis, Glucose/metabolism, Lactic Acid/isolation & purification/*metabolism, Lactobacillus/chemistry/classification/*growth & development/*metabolism, Maltose/metabolism, Models, BiologicalPhylogeny

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
8898Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20531)https://www.dsmz.de/collection/catalogue/details/culture/DSM-20531
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
40528Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/14736
48682Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 27201)https://www.ccug.se/strain?id=27201
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
75887Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID264237.1StrainInfo: A central database for resolving microbial strain identifiers
75888Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID317563.1StrainInfo: A central database for resolving microbial strain identifiers
116364Curators of the CIPCollection of Institut Pasteur (CIP 102989)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20102989