Strain identifier

BacDive ID: 6595

Type strain: Yes

Species: Levilactobacillus spicheri

Strain history: CIP <- 2004, C. Hertel, Hohenheim Univ., Stuttgart, Germany: strain LTH 5753

NCBI tax ID(s): 1423805 (strain), 216463 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 5817

BacDive-ID: 6595

DSM-Number: 15429

keywords: genome sequence, 16S sequence, Bacteria, microaerophile, mesophilic

description: Levilactobacillus spicheri DSM 15429 is a microaerophile, mesophilic bacterium that was isolated from rice sourdough.

NCBI tax id

NCBI tax idMatching level
216463species
1423805strain

strain history

@refhistory
5817<- C. B. Meroth, Univ. Hohenheim
400262004, C. Hertel, Hohenheim Univ., Stuttgart, Germany: strain LTH 5753
67770LMG 21871 <-- DSM 15429 <-- C. Meroth LTH 5753.
123260CIP <- 2004, C. Hertel, Hohenheim Univ., Stuttgart, Germany: strain LTH 5753

doi: 10.13145/bacdive6595.20230509.8.1

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 spicheri
  • full scientific name: Levilactobacillus spicheri (Meroth et al. 2004) Zheng et al. 2020

  • synonyms

    • @ref: 20215
    • synonym: Lactobacillus spicheri

@ref: 5817

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Lactobacillaceae

genus: Levilactobacillus

species: Levilactobacillus spicheri

full scientific name: Levilactobacillus spicheri (Meroth et al. 2004) Zheng et al. 2020

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480no97.439
69480100positive
123260nopositiverod-shaped

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
5817MRS 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
40026MEDIUM 40- for Lactobacillus and LeuconostocyesDistilled water make up to (1000.000 ml);Man Rogosa Sharp agar (68.000 g)
123260CIP Medium 40yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=40

culture temp

@refgrowthtypetemperaturerange
5817positivegrowth30mesophilic
40026positivegrowth30mesophilic
67770positivegrowth28mesophilic
123260positivegrowth15-37
123260nogrowth10psychrophilic
123260nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 5817
  • oxygen tolerance: microaerophile

spore formation

@refspore formationconfidence
69481no93
69480no99.999

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
68371turanose-builds acid from32528
68371gentiobiose-builds acid from28066
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
68371sucrose-builds acid from17992
68371melibiose+builds acid from28053
68371lactose-builds acid from17716
68371maltose+builds acid from17306
68371cellobiose-builds acid from17057
68371salicin-builds acid from17814
68371arbutin-builds acid from18305
68371amygdalin-builds acid from27613
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
123260nitrate-reduction17632
123260nitrite-reduction16301
123260nitrate-respiration17632

antibiotic resistance

  • @ref: 123260
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite tests

  • @ref: 123260
  • 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
123260oxidase-
123260alcohol dehydrogenase+1.1.1.1
123260catalase-1.11.1.6
123260lysine decarboxylase-4.1.1.18
123260ornithine decarboxylase-4.1.1.17

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
123260-----+----++++-++---

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
5817----+++--++++--------+/-+/---+--+-+----------------+-+
123260---+++--++++---------------+-+----------------+-+

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
5817rice sourdoughGermanyDEUEurope
67770Rice sourdough
123260Food, Rice sourdoughGermanyDEUEurope

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_2771.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_45;96_484;97_1758;98_2151;99_2771&stattab=map
  • Last taxonomy: Levilactobacillus spicheri subclade
  • 16S sequence: LC480813
  • Sequence Identity:
  • Total samples: 916
  • soil counts: 55
  • aquatic counts: 91
  • animal counts: 666
  • plant counts: 104

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
58171Risk group (German classification)
1232601Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
5817Lactobacillus spicheri 16S rRNA gene, type strain LTH 5753TAJ5348441536ena216463
67770Lactobacillus spicheri JCM 15956 gene for 16S ribosomal RNA, partial sequenceLC4808131504ena216463

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Lactobacillus spicheri DSM 154291423805.4wgspatric1423805
66792Lactobacillus spicheri strain NBRC 107155216463.4wgspatric216463
66792Levilactobacillus spicheri DSM 154292700989146draftimg1423805
67770Levilactobacillus spicheri DSM 15429GCA_001435095scaffoldncbi1423805
67770Levilactobacillus spicheri NBRC 107155GCA_007991955contigncbi216463

GC content

@refGC-contentmethod
581755.5
6777055.9genome sequence analysis
6777055thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno93no
motileno93.774no
gram-positiveyes97.95no
anaerobicno89.604yes
halophileyes91.352no
spore-formingno93.54no
thermophileno99.445yes
glucose-utilyes91.745no
aerobicno96.4no
flagellatedno97.786no
glucose-fermentyes82.852no

External links

@ref: 5817

culture collection no.: DSM 15429, LMG 21871, LTH 5753, JCM 15956, BCRC 80775, CIP 108581, NBRC 107155

straininfo link

  • @ref: 76069
  • straininfo: 127684

literature

Pubmed-IDtitleauthorsjournalDOIyear
32245079Textural and Sensory Features Changes of Gluten Free Muffins Based on Rice Sourdough Fermented with Lactobacillus spicheri DSM 15429.Chis MS, Paucean A, Man SM, Muresan V, Socaci SA, Pop A, Stan L, Rusu B, Muste SFoods10.3390/foods90303632020
32580442Effect of Rice Flour Fermentation with Lactobacillus spicheri DSM 15429 on the Nutritional Features of Gluten-Free Muffins.Chis MS, Paucean A, Man SM, Bonta V, Pop A, Stan L, Beldean Tatar BV, Pop CR, Muresan V, Muste SFoods10.3390/foods90608222020

Reference

@idauthorscataloguedoi/urltitle
5817Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15429)https://www.dsmz.de/collection/catalogue/details/culture/DSM-15429
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
40026Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/6225
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
76069Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID127684.1StrainInfo: A central database for resolving microbial strain identifiers
123260Curators of the CIPCollection of Institut Pasteur (CIP 108581)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108581