Strain identifier

BacDive ID: 6562

Type strain: Yes

Species: Limosilactobacillus pontis

Strain history: CIP <- 1994, P. Stolz, Inst. für Lebensmitteltechnol., Germany: strain LTH 2587 <- Hohenheim Univ., Germany

NCBI tax ID(s): 1423794 (strain), 35787 (species)

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General

@ref: 3288

BacDive-ID: 6562

DSM-Number: 8475

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

description: Limosilactobacillus pontis DSM 8475 is an anaerobe, mesophilic, Gram-positive bacterium that was isolated from rye sourdough.

NCBI tax id

NCBI tax idMatching level
1423794strain
35787species

strain history

@refhistory
3288<- P. Stolz <- G. Böcker, LTH 2587
67770DSM 8475 <-- P. Stolz <-- G. Böcker LTH 2587.
121939CIP <- 1994, P. Stolz, Inst. für Lebensmitteltechnol., Germany: strain LTH 2587 <- Hohenheim Univ., Germany

doi: 10.13145/bacdive6562.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Lactobacillales
  • family: Lactobacillaceae
  • genus: Limosilactobacillus
  • species: Limosilactobacillus pontis
  • full scientific name: Limosilactobacillus pontis (Vogel et al. 1994) Zheng et al. 2020

  • synonyms

    • @ref: 20215
    • synonym: Lactobacillus pontis

@ref: 3288

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Lactobacillaceae

genus: Limosilactobacillus

species: Limosilactobacillus pontis

full scientific name: Limosilactobacillus pontis (Vogel et al. 1994) Zheng et al. 2020

type strain: yes

Morphology

cell morphology

  • @ref: 121939
  • gram stain: positive
  • cell shape: rod-shaped
  • motility: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
3288LACTOBACILLUS MEDIUM III (DSMZ Medium 638)yeshttps://mediadive.dsmz.de/medium/638Name: LACTOBACILLUS MEDIUM III (DSMZ Medium 638) Composition: Tryptone 10.0 g/l Glucose 7.0 g/l Maltose 7.0 g/l Fructose 7.0 g/l Na-acetate x 3 H2O 5.0 g/l Yeast extract 5.0 g/l Meat extract 5.0 g/l K2HPO4 x 3 H2O 2.6 g/l (NH4)2 citrate 2.0 g/l Na-gluconate 2.0 g/l L-Cysteine HCl x H2O 0.5 g/l MgSO4 x 7 H2O 0.1 g/l MnSO4 x 4 H2O 0.05 g/l Tween 80 Distilled water
38168MEDIUM 42 - for Lactobacillus pontisyesDistilled water make up to (1000.000 ml);Man Rogosa Sharp broth (55.000 g);Lactobacillus pontis solution - M0209 (18.000 ml)
121939CIP Medium 42yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=42

culture temp

@refgrowthtypetemperaturerange
3288positivegrowth30mesophilic
38168positivegrowth30mesophilic
51530positivegrowth37mesophilic
67770positivegrowth30mesophilic
121939positivegrowth15-45

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
51530anaerobe
121939facultative anaerobe

murein

  • @ref: 3288
  • murein short key: A21.04
  • type: A4ß L-Orn-D-Asp

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
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
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
68371esculin-builds acid from4853
68371arbutin-builds acid from18305
68371amygdalin-builds acid from27613
68371N-acetylglucosamine-builds acid from59640
68371methyl alpha-D-glucopyranoside-builds acid from320061
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-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
121939nitrate-reduction17632
121939nitrite-reduction16301
121939nitrate+respiration17632

metabolite tests

  • @ref: 121939
  • Chebi-ID: 15688
  • metabolite: acetoin
  • voges-proskauer-test: -

enzymes

@refvalueactivityec
121939oxidase-
121939alcohol dehydrogenase+1.1.1.1
121939catalase-1.11.1.6
121939lysine decarboxylase-4.1.1.18
121939ornithine decarboxylase-4.1.1.17

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
3288-----+----------------------+--+------------------
121939----+------+---------------+--+---+/------------+/---

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation date
3288rye sourdoughGermany, StuttgartGermanyDEUEurope
51530Sour doughStuttgartGermanyDEUEurope
67770Sourdough
121939Rye sourdoughGermanyDEUEurope1988

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_8168.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_45;96_369;97_416;98_5944;99_8168&stattab=map
  • Last taxonomy: Limosilactobacillus
  • 16S sequence: LC145562
  • Sequence Identity:
  • Total samples: 38681
  • soil counts: 1269
  • aquatic counts: 1526
  • animal counts: 35132
  • plant counts: 754

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
32881Risk group (German classification)
1219391Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Lactobacillus pontis gene for 16S rRNA, partial sequence, strain: JCM 11051AB289267731ena35787
20218Lactobacillus pontis 16S rRNA gene, type strain LMG 14187AJ4220321480ena35787
3288L.pontis (LTH 2587) 16S rRNA geneX763291570ena35787
67770Lactobacillus pontis gene for 16S ribosomal RNA, partial sequence, strain: JCM 11051LC1455621458ena35787

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Lactobacillus pontis DSM 84751423794.3wgspatric1423794
66792Limosilactobacillus pontis DSM 84752700989158draftimg1423794
67770Limosilactobacillus pontis DSM 8475GCA_001435345scaffoldncbi1423794

GC content

@refGC-contentmethod
328853high performance liquid chromatography (HPLC)
6777053.3high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno96.181no
gram-positiveyes96.693no
anaerobicno50yes
halophileyes94.029no
spore-formingno97.198no
glucose-utilyes88.84no
thermophileno99.771yes
aerobicno97.39yes
flagellatedno98.582no
glucose-fermentyes89.004no

External links

@ref: 3288

culture collection no.: DSM 8475, ATCC 51518, JCM 11051, LMG 14187, CCUG 33456, LTH 2587, CIP 104232

straininfo link

  • @ref: 76034
  • straininfo: 8943

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny8186088Identification of lactobacilli from sourdough and description of Lactobacillus pontis sp. nov.Vogel RF, Bocker G, Stolz P, Ehrmann M, Fanta D, Ludwig W, Pot B, Kersters K, Schleifer KH, Hammes WPInt J Syst Bacteriol10.1099/00207713-44-2-2231994Bacterial Proteins/analysis, Base Sequence, Bread/*microbiology, *Food Microbiology, Lactobacillus/*classification/cytology/isolation & purification/ultrastructure, Molecular Sequence Data, Nucleic Acid Hybridization, Oligonucleotide Probes, RNA, Ribosomal, 16S/genetics, Sequence Analysis, RNABiotechnology
Metabolism17496130Glutathione reductase from Lactobacillus sanfranciscensis DSM20451T: contribution to oxygen tolerance and thiol exchange reactions in wheat sourdoughs.Jansch A, Korakli M, Vogel RF, Ganzle MGAppl Environ Microbiol10.1128/AEM.02322-062007Aerobiosis, Anaerobiosis, Anti-Bacterial Agents/metabolism/pharmacology, Biological Transport, Cysteine/metabolism, Cystine/metabolism, DNA, Bacterial/chemistry/genetics, Fermentation, Flour/analysis/*microbiology, Glutathione Reductase/*genetics/*physiology, Lactobacillus/*enzymology/growth & development/*physiology, Molecular Sequence Data, Mutagenesis, Insertional, Oxygen/*metabolism/pharmacology, Paraquat/pharmacology, Sequence Analysis, DNA, Sulfhydryl Compounds/*metabolism, *Triticum/metabolismEnzymology

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
3288Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 8475)https://www.dsmz.de/collection/catalogue/details/culture/DSM-8475
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
38168Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/16118
51530Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 33456)https://www.ccug.se/strain?id=33456
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
76034Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID8943.1StrainInfo: A central database for resolving microbial strain identifiers
121939Curators of the CIPCollection of Institut Pasteur (CIP 104232)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104232