Strain identifier

BacDive ID: 17126

Type strain: Yes

Species: Megamonas funiformis

Strain Designation: YITM815

Strain history: H. Sakon YIT 11815 <-- H. Sakon and T. Nagai M2.

NCBI tax ID(s): 437897 (species)

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General

@ref: 8060

BacDive-ID: 17126

DSM-Number: 19343

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

description: Megamonas funiformis YITM815 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from human faeces .

NCBI tax id

  • NCBI tax id: 437897
  • Matching level: species

strain history

@refhistory
8060<- H. Sakon {2007}
67770H. Sakon YIT 11815 <-- H. Sakon and T. Nagai M2.

doi: 10.13145/bacdive17126.20250331.9.3

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 funiformis
  • full scientific name: Megamonas funiformis Sakon et al. 2008

@ref: 8060

domain: Bacteria

phylum: Firmicutes

class: Negativicutes

order: Selenomonadales

family: Selenomonadaceae

genus: Megamonas

species: Megamonas funiformis

full scientific name: Megamonas funiformis Sakon et al. 2008

strain designation: YITM815

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
32412negative7.5 µm1 µmrod-shapedno
125439positive91.1

colony morphology

  • @ref: 8060
  • incubation period: 2-3 days

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
8060COLUMBIA 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
8060PYG 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
8060CHOPPED 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

culture temp

@refgrowthtypetemperature
8060positivegrowth37
67770positivegrowth37

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
8060anaerobe
32412anaerobe
125439microaerophile95.6

spore formation

@refspore formationconfidence
32412no
125439no90.7

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3241222599arabinose+carbon source
3241217234glucose+carbon source
3241217716lactose+carbon source
3241217306maltose+carbon source
3241229864mannitol+carbon source
3241237684mannose+carbon source
3241216634raffinose+carbon source
3241217814salicin+carbon source
3241230911sorbitol+carbon source
3241217992sucrose+carbon source
3241227082trehalose+carbon source
3241218222xylose+carbon source
6838017632nitrate-reduction
6838016634raffinose+fermentation
6838029985L-glutamate-degradation
6838029016arginine-hydrolysis
6838016024D-mannose+fermentation
6838016199urea-hydrolysis
6838027897tryptophan-energy source
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
683674853esculin+hydrolysis
683675291gelatin-hydrolysis
6836730849L-arabinose+builds acid from
6836765327D-xylose+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

metabolite production

@refChebi-IDmetaboliteproduction
6838035581indoleno
6836735581indoleno

metabolite tests

@refChebi-IDmetaboliteindole test
6838035581indole-
6836735581indole-

enzymes

@refvalueactivityec
32412acid phosphatase+3.1.3.2
32412alpha-galactosidase+3.2.1.22
68380serine arylamidase-
68380tyrosine arylamidase-
68380phenylalanine arylamidase-
68380leucyl glycin arylamidase-3.4.11.1
68380proline-arylamidase-3.4.11.5
68380alkaline phosphatase-3.1.3.1
68380tryptophan deaminase-4.1.99.1
68380glutamate decarboxylase-4.1.1.15
68380glutamyl-glutamate arylamidase-
68380histidine arylamidase-
68380glycin arylamidase-
68380alanine arylamidase-3.4.11.2
68380pyrrolidonyl arylamidase-3.4.19.3
68380leucine arylamidase-3.4.11.1
68380L-arginine arylamidase-
68380alpha-fucosidase-3.2.1.51
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
68367beta-glucosidase+3.2.1.21
68367gelatinase-
68367urease-3.5.1.5

API 20A

@refINDUREGLUMANLACSACMALSALXYLARAGELESCGLYCELMNEMLZRAFSORRHATRE
8060--++++++/-++-+--+-++-+

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
8060--++-++---++-----------------

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
8060human faeces (healthy adult)JapanJPNAsia
67770Human feces

isolation source categories

Cat1Cat2Cat3
#Host#Human
#Host Body Product#Gastrointestinal tract#Feces (Stool)

taxonmaps

  • @ref: 69479
  • File name: preview.99_3278.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_388;96_1710;97_2047;98_2514;99_3278&stattab=map
  • Last taxonomy: Megamonas funiformis
  • 16S sequence: AB300988
  • Sequence Identity:
  • Total samples: 111368
  • soil counts: 2560
  • aquatic counts: 10488
  • animal counts: 97515
  • plant counts: 805

Safety information

risk assessment

  • @ref: 8060
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 8060
  • description: Megamonas funiformis gene for 16S ribosomal RNA, partial sequence, strain: YIT 11815 (= JCM 14723, = DSM 19343)
  • accession: AB300988
  • length: 1342
  • database: nuccore
  • NCBI tax ID: 742816

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Megamonas funiformis JCM 14723GCA_010669225completencbi437897
66792Megamonas funiformis strain JCM 14723437897.465completepatric437897

GC content

@refGC-contentmethod
3241232.9
6777032.9high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125438gram-positivegram-positivePositive reaction to Gram-stainingno86.269yes
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)yes89.531yes
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)no93.676yes
125438spore-formingspore-formingAbility to form endo- or exosporesno81.371yes
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno90.661yes
125438motile2+flagellatedAbility to perform flagellated movementno85.031no
125439BacteriaNetspore_formationAbility to form endo- or exosporesno90.7
125439BacteriaNetmotilityAbility to perform movementno65.3
125439BacteriaNetgram_stainReaction to gram-stainingpositive91.1
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthmicroaerophile95.6

External links

@ref: 8060

culture collection no.: DSM 19343, JCM 14723

straininfo link

  • @ref: 86125
  • straininfo: 343806

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny18398204Sutterella parvirubra sp. nov. and Megamonas funiformis sp. nov., isolated from human faeces.Sakon H, Nagai F, Morotomi M, Tanaka RInt J Syst Evol Microbiol10.1099/ijs.0.65456-02008Alcaligenaceae/*classification/genetics/*isolation & purification/metabolism, Base Sequence, DNA Primers/genetics, DNA, Bacterial/genetics, Feces/microbiology, Genes, Bacterial, Humans, Microscopy, Electron, Scanning, Microscopy, Electron, Transmission, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Species Specificity, Terminology as Topic, Veillonellaceae/*classification/genetics/*isolation & purification/metabolismEnzymology
Genetics32299874Complete Genome Sequence of Megamonas funiformis JCM 14723(T).Tourlousse DM, Sakamoto M, Miura T, Narita K, Ohashi A, Uchino Y, Yamazoe A, Kameyama K, Terauchi J, Ohkuma M, Kawasaki H, Sekiguchi YMicrobiol Resour Announc10.1128/MRA.00142-202020

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
8060Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19343)https://www.dsmz.de/collection/catalogue/details/culture/DSM-19343
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
32412Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2863628776041
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/
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
86125Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID343806.1StrainInfo: A central database for resolving microbial strain identifiers
125438Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann10.1101/2024.08.12.607695Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets
125439Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardyhttps://github.com/GenomeNet/deepGdeepG: Deep Learning for Genome Sequence Data. R package version 0.3.1