Strain identifier

BacDive ID: 17129

Type strain: Yes

Species: Megasphaera cerevisiae

Strain history: DSM 20462 <-- H. Seidel PAT1.

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General

@ref: 8833

BacDive-ID: 17129

DSM-Number: 20462

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

description: Megasphaera cerevisiae DSM 20462 is an anaerobe, mesophilic, rod-shaped bacterium that was isolated from spoilt beer.

NCBI tax id

NCBI tax idMatching level
39029species
1122219strain

strain history

@refhistory
8833<- H. Seidel, PAT 1
67770DSM 20462 <-- H. Seidel PAT1.

doi: 10.13145/bacdive17129.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Negativicutes
  • order: Veillonellales
  • family: Veillonellaceae
  • genus: Megasphaera
  • species: Megasphaera cerevisiae
  • full scientific name: Megasphaera cerevisiae Engelmann and Weiss 1986

@ref: 8833

domain: Bacteria

phylum: Firmicutes

class: Negativicutes

order: Selenomonadales

family: Veillonellaceae

genus: Megasphaera

species: Megasphaera cerevisiae

full scientific name: Megasphaera cerevisiae Engelmann and Weiss 1986

type strain: yes

Morphology

cell morphology

@refcell shapegram stainconfidence
68367rod-shaped
68367negative
69480negative99.94

colony morphology

  • @ref: 8833
  • incubation period: 1-2 days

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
8833BIFIDOBACTERIUM MEDIUM (DSMZ Medium 58)yeshttps://mediadive.dsmz.de/medium/58Name: BIFIDOBACTERIUM MEDIUM (DSMZ Medium 58) Composition: Glucose 10.0 g/l Casein peptone 10.0 g/l Bacto Soytone 5.0 g/l Meat extract 5.0 g/l Yeast extract 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l MnSO4 x H2O 0.05 g/l KH2PO4 0.04 g/l K2HPO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Tween 80 Resazurin Distilled water
8833PYG MEDIUM (MODIFIED) (DSMZ Medium 104)yeshttps://mediadive.dsmz.de/medium/104Name: PYG MEDIUM (modified) (DSMZ Medium 104) Composition: Yeast extract 10.0 g/l Peptone 5.0 g/l Trypticase peptone 5.0 g/l Beef extract 5.0 g/l Glucose 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l K2HPO4 0.04 g/l KH2PO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Hemin 0.005 g/l Ethanol 0.0038 g/l Resazurin 0.001 g/l Tween 80 Vitamin K1 NaOH Distilled water

culture temp

@refgrowthtypetemperaturerange
8833positivegrowth30mesophilic
67770positivegrowth30mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
8833anaerobe
69480anaerobe100

spore formation

@refspore formationconfidence
68367no
69481no99
69480no99.99

murein

  • @ref: 8833
  • murein short key: A31
  • type: A1gamma m-Dpm-direct

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836727082trehalose-builds acid from
6836762345L-rhamnose-builds acid from
6836730911sorbitol-builds acid from
6836716634raffinose-builds acid from
683676731melezitose-builds acid from
6836716024D-mannose-builds acid from
6836717057cellobiose-builds acid from
6836717754glycerol-builds acid from
683675291gelatin-hydrolysis
6836765327D-xylose-builds acid from
6836717814salicin-builds acid from
6836717306maltose-builds acid from
6836717992sucrose-builds acid from
6836717716lactose-builds acid from
6836716899D-mannitol-builds acid from
6836717634D-glucose-builds acid from
6836716199urea-hydrolysis
6836727897tryptophan-energy source
6838016199urea-hydrolysis
6838029016arginine-hydrolysis
6838016024D-mannose-fermentation
6838016634raffinose-fermentation
6838029985L-glutamate-degradation
6838017632nitrate-reduction
6838027897tryptophan-energy source

metabolite production

@refChebi-IDmetaboliteproduction
6836735581indoleno
6838035581indoleno

metabolite tests

@refChebi-IDmetaboliteindole test
6838035581indole-
6836735581indole-

enzymes

@refvalueactivityec
68380serine arylamidase-
68380glutamyl-glutamate arylamidase-
68380histidine arylamidase-
68380glycin arylamidase-
68380alanine arylamidase-3.4.11.2
68380tyrosine arylamidase-
68380pyrrolidonyl arylamidase-3.4.19.3
68380leucine arylamidase-3.4.11.1
68380phenylalanine arylamidase-
68380leucyl glycin arylamidase-3.4.11.1
68380proline-arylamidase-3.4.11.5
68380L-arginine arylamidase-
68380alkaline phosphatase-3.1.3.1
68380tryptophan deaminase-4.1.99.1
68380alpha-fucosidase-3.2.1.51
68380glutamate decarboxylase-4.1.1.15
68380N-acetyl-beta-glucosaminidase-3.2.1.52
68380beta-glucuronidase-3.2.1.31
68380alpha-arabinosidase-3.2.1.55
68380beta-glucosidase-3.2.1.21
68380alpha-glucosidase-3.2.1.20
68380beta-Galactosidase 6-phosphate-
68380beta-galactosidase-3.2.1.23
68380alpha-galactosidase-3.2.1.22
68380arginine dihydrolase-3.5.3.6
68380urease-3.5.1.5
68367catalase-1.11.1.6
68367gelatinase-
68367urease-3.5.1.5

API 20A

@refINDUREGLUMANLACSACMALSALXYLARAGELESCGLYCELMNEMLZRAFSORRHATRECATSPORGRAMCOCC
8833---------+/---------------
8833---------+-----------
8833--------+-+--------

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
8833-----------------------------

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
8833spoilt beerGermanyDEUEurope
67770Spoiled beer

isolation source categories

Cat1Cat2Cat3
#Engineered#Food production#Fermented
#Environmental#Microbial community
#Engineered#Food production#Beverage

taxonmaps

  • @ref: 69479
  • File name: preview.99_970.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_37;96_564;97_654;98_756;99_970&stattab=map
  • Last taxonomy: Staphylococcus
  • 16S sequence: LC037207
  • Sequence Identity:
  • Total samples: 10645
  • soil counts: 153
  • aquatic counts: 2151
  • animal counts: 8271
  • plant counts: 70

Safety information

risk assessment

  • @ref: 8833
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Megasphaera cerevisiae gene for 16S rRNA, partial sequence, strain: DSM 20462AB6097061178ena39029
20218Megasphaera cerevisiae 16S ribosomal RNA gene, partial sequence; 16S-23S ribosomal RNA integenic spacer gene, complete sequence; and 23S ribosomal RNA gene, partial sequenceDQ314276589ena39029
8833Megasphaera cerevisiae 16S ribosomal RNA (16S rRNA) geneL370401377ena39029
67770Megasphaera cerevisiae gene for 16S ribosomal RNA, partial sequence, strain: JCM 6130LC0372071528ena1122219

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Megasphaera cerevisiae DSM 204621122219.6wgspatric1122219
66792Megasphaera cerevisiae DSM 204621122219.3wgspatric1122219
66792Megasphaera cerevisiae DSM 204621122219.7wgspatric1122219
66792Megasphaera cerevisiae DSM 20462 strain DSM 204621122219.5wgspatric1122219
66792Megasphaera cerevisiae DSM 204622518645616draftimg1122219
66792Megasphaera cerevisiae DSM 204622636415931draftimg1122219
67770Megasphaera cerevisiae DSM 20462GCA_900167325scaffoldncbi1122219
67770Megasphaera cerevisiae DSM 20462GCA_001045675contigncbi1122219

GC content

@refGC-contentmethod
883342.5
6777042.4thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno99no
motileno91.541no
flagellatedno94.555no
gram-positiveno96.055yes
anaerobicyes98.905yes
aerobicno97.988no
halophileno87.85no
spore-formingno89.008yes
thermophileno99.426no
glucose-utilyes72.281no
glucose-fermentyes72.636no

External links

@ref: 8833

culture collection no.: DSM 20462, ATCC 43254, PAT 1, JCM 6130, VTT E-79111

straininfo link

  • @ref: 86128
  • straininfo: 46319

literature

  • topic: Genetics
  • Pubmed-ID: 26358606
  • title: Draft Genome Sequence of the Beer Spoilage Bacterium Megasphaera cerevisiae Strain PAT 1T.
  • authors: Kutumbaka KK, Pasmowitz J, Mategko J, Reyes D, Friedrich A, Han S, Martens-Habbena W, Neal-McKinney J, Janagama HK, Nadala C, Samadpour M
  • journal: Genome Announc
  • DOI: 10.1128/genomeA.01045-15
  • year: 2015

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
8833Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20462)https://www.dsmz.de/collection/catalogue/details/culture/DSM-20462
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
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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68367Automatically annotated from API 20A
68380Automatically annotated from API rID32A
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
86128Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID46319.1StrainInfo: A central database for resolving microbial strain identifiers