Strain identifier

BacDive ID: 17127

Type strain: Yes

Species: Megamonas rupellensis

Strain Designation: FM1025

Strain history: CIP <- 2008, E. Rosenfeld, CNRS, La Rochelle, France: strain FM1025

NCBI tax ID(s): 1122217 (strain), 491921 (species)

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General

@ref: 8401

BacDive-ID: 17127

DSM-Number: 19944

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

description: Megamonas rupellensis FM1025 is an anaerobe, mesophilic, Gram-variable bacterium that was isolated from caecum of a duck.

NCBI tax id

NCBI tax idMatching level
491921species
1122217strain

strain history

@refhistory
378372008, E. Rosenfeld, CNRS, La Rochelle, France: strain FM1025
8401<- E. Rosenfeld; FM1025 {2007} <- V Portrait
122316CIP <- 2008, E. Rosenfeld, CNRS, La Rochelle, France: strain FM1025

doi: 10.13145/bacdive17127.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Negativicutes
  • order: Selenomonadales
  • family: Selenomonadaceae
  • genus: Megamonas
  • species: Megamonas rupellensis
  • full scientific name: Megamonas rupellensis Chevrot et al. 2008

@ref: 8401

domain: Bacteria

phylum: Firmicutes

class: Negativicutes

order: Selenomonadales

family: Selenomonadaceae

genus: Megamonas

species: Megamonas rupellensis

full scientific name: Megamonas rupellensis Chevrot et al. 2008

strain designation: FM1025

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell shapemotilityconfidence
31206variable1-6 µmrod-shapedno
69480negative99.806
122316rod-shapedno

pigmentation

  • @ref: 31206
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
8401COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yeshttps://mediadive.dsmz.de/medium/693Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base
8401CHOPPED MEAT MEDIUM (DSMZ Medium 78)yeshttps://mediadive.dsmz.de/medium/78Name: CHOPPED MEAT MEDIUM (DSMZ Medium 78) Composition: Ground beef 500.0 g/l Casitone 30.0 g/l Agar 15.0 g/l Ethanol 9.5 g/l (optional) K2HPO4 5.0 g/l Yeast extract 5.0 g/l L-Cysteine HCl 0.5 g/l Haemin 0.005 g/l (optional) Resazurin 0.001 g/l Vitamin K3 0.0005 g/l (optional) Vitamin K1 (optional) NaOH (optional) Distilled water
37837MEDIUM 20 - for Anaerobic bacteriayesAgar (15.000 g);Glucose (5.000 g);Yeast extract (20.000 g);Tryptone (30.000 g);Cysteine hydrochloride (0.500 g);distilled water (1000.000 ml);Hemin solution -M00149 (25.000 ml)
122316CIP Medium 20yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=20

culture temp

@refgrowthtypetemperaturerange
8401positivegrowth37mesophilic
31206positivegrowth37mesophilic
31206positiveoptimum37mesophilic
37837positivegrowth37mesophilic

culture pH

@refabilitytypepHPH range
31206positivegrowth05-09alkaliphile
31206positiveoptimum7

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
8401anaerobe
31206anaerobe
69480anaerobe100
122316anaerobe

spore formation

@refspore formationconfidence
31206no
69481no100
69480no99.643

observation

  • @ref: 31206
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3120622599arabinose+carbon source
3120617057cellobiose+carbon source
3120617234glucose+carbon source
3120617754glycerol+carbon source
3120617716lactose+carbon source
3120617306maltose+carbon source
3120629864mannitol+carbon source
3120637684mannose+carbon source
3120616634raffinose+carbon source
3120617814salicin+carbon source
3120630911sorbitol+carbon source
3120617992sucrose+carbon source
3120627082trehalose+carbon source
12231617632nitrate-reduction
12231616301nitrite-reduction
6838016199urea-hydrolysis
6838029016arginine-hydrolysis
6838016024D-mannose+fermentation
6838016634raffinose+fermentation
6838029985L-glutamate-degradation
6838017632nitrate-reduction
6838027897tryptophan-energy source

metabolite production

@refChebi-IDmetaboliteproduction
12231635581indoleno
6838035581indoleno

metabolite tests

  • @ref: 68380
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

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
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
122316oxidase-
122316catalase-1.11.1.6
122316urease-3.5.1.5
68382alkaline phosphatase-3.1.3.1
68382esterase (C 4)-
68382esterase lipase (C 8)-
68382lipase (C 14)-
68382leucine arylamidase-3.4.11.1
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase-3.1.3.2
68382naphthol-AS-BI-phosphohydrolase-
68382alpha-galactosidase+3.2.1.22
68382beta-galactosidase+3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase+3.2.1.20
68382beta-glucosidase-3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
122316------------++-+----

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
8401--++-+++/---++-----------------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation date
8401caecum of a duckLa RochelleFranceFRAEurope
122316Animal, Duck, intestineLa RochelleFranceFRAEurope1998

isolation source categories

Cat1Cat2Cat3
#Host#Birds
#Host Body-Site#Gastrointestinal tract#Large intestine

taxonmaps

  • @ref: 69479
  • File name: preview.99_23575.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_388;96_1710;97_2047;98_2514;99_23575&stattab=map
  • Last taxonomy: Megamonas
  • 16S sequence: EU346729
  • Sequence Identity:
  • Total samples: 52960
  • soil counts: 863
  • aquatic counts: 3117
  • animal counts: 48658
  • plant counts: 322

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
84011Risk group (German classification)
1223161Risk group (French classification)

Sequence information

16S sequences

  • @ref: 8401
  • description: Megamonas rupellensis strain FM1025 16S ribosomal RNA gene, partial sequence
  • accession: EU346729
  • length: 1399
  • database: ena
  • NCBI tax ID: 491921

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Megamonas rupellensis DSM 19944GCA_000378365scaffoldncbi1122217
66792Megamonas rupellensis DSM 199441122217.3wgspatric1122217
66792Megamonas rupellensis DSM 199442519899689draftimg1122217

GC content

  • @ref: 31206
  • GC-content: 31-35

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno92.909no
flagellatedno97.176no
gram-positiveno95.449yes
anaerobicyes99.229yes
halophileno91.001no
spore-formingno92.384yes
thermophileno92.45yes
glucose-utilyes88.911no
aerobicno98.003yes
glucose-fermentyes67.056no

External links

@ref: 8401

culture collection no.: DSM 19944, CIP 109788

straininfo link

  • @ref: 86126
  • straininfo: 360276

literature

  • topic: Phylogeny
  • Pubmed-ID: 19060083
  • title: Megamonas rupellensis sp. nov., an anaerobe isolated from the caecum of a duck.
  • authors: Chevrot R, Carlotti A, Sopena V, Marchand P, Rosenfeld E
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.2008/001297-0
  • year: 2008
  • mesh: Anaerobiosis, Animals, Cecum/*microbiology, Ducks/*microbiology, Microscopy, Electron, Scanning, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Species Specificity, Veillonellaceae/*classification/genetics/*physiology/ultrastructure
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
8401Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19944)https://www.dsmz.de/collection/catalogue/details/culture/DSM-19944
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
31206Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2753328776041
37837Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7571
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)
68380Automatically annotated from API rID32A
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
86126Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID360276.1StrainInfo: A central database for resolving microbial strain identifiers
122316Curators of the CIPCollection of Institut Pasteur (CIP 109788)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109788