Strain identifier

BacDive ID: 17133

Type strain: Yes

Species: Megasphaera micronuciformis

Strain history: CIP <- 2001, J.P. Carlier, Inst. Pasteur, Paris, France: strain AIP 412.00 <- 2000, Montpellier Hosp., Montpellier, France

NCBI tax ID(s): 187326 (species)

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General

@ref: 6825

BacDive-ID: 17133

DSM-Number: 17226

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

description: Megasphaera micronuciformis DSM 17226 is an anaerobe, mesophilic, Gram-negative human pathogen that was isolated from human, liver abscess.

NCBI tax id

  • NCBI tax id: 187326
  • Matching level: species

strain history

@refhistory
6825<- CCUG <- CIP <- JP Carlier, Institue Pasteur AIP 412.00
120949CIP <- 2001, J.P. Carlier, Inst. Pasteur, Paris, France: strain AIP 412.00 <- 2000, Montpellier Hosp., Montpellier, France

doi: 10.13145/bacdive17133.20230509.8.1

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 micronuciformis
  • full scientific name: Megasphaera micronuciformis Marchandin et al. 2003

@ref: 6825

domain: Bacteria

phylum: Firmicutes

class: Negativicutes

order: Selenomonadales

family: Veillonellaceae

genus: Megasphaera

species: Megasphaera micronuciformis

full scientific name: Megasphaera micronuciformis Marchandin et al. 2003

type strain: yes

Morphology

cell morphology

  • @ref: 120949
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: no

colony morphology

@refincubation period
68252-3 days
569992-3 days

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6825COLUMBIA 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
38195MEDIUM 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)
6825PYG 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
6825MRS pre-reduced (DSMZ Medium 11b)yeshttps://mediadive.dsmz.de/medium/11bName: MRS MEDIUM (pre-reduced) (DSMZ Medium 11b) 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 L-Cysteine HCl x H2O 0.5 g/l MgSO4 x 7 H2O 0.2 g/l MnSO4 x H2O 0.05 g/l Resazurin 0.001 g/l Distilled water
120949CIP Medium 20yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=20

culture temp

@refgrowthtypetemperaturerange
38195positivegrowth37mesophilic
56999positivegrowth37mesophilic
6825positivegrowth37mesophilic
120949positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
6825anaerobe
56999anaerobe
120949anaerobe

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
12094917632nitrate-reduction
12094916301nitrite-reduction
12094917632nitrate+respiration
6838016199urea-hydrolysis
6838029016arginine-hydrolysis
6838016024D-mannose-fermentation
6838016634raffinose+fermentation
6838029985L-glutamate-degradation
6838017632nitrate-reduction
6838027897tryptophan-energy source

metabolite production

  • @ref: 68380
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

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

enzymes

@refvalueactivityec
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
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
120949beta-galactosidase-3.2.1.23
120949gamma-glutamyltransferase-2.3.2.2
120949urease-3.5.1.5

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
6825--++-++/-----+-----++-----++--+/-

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation date
6825human, liver abscessParisFranceFRAEurope
56999Human liver abscessMontpellier,CHU Arnaud de V.FranceFRAEurope
120949Human, Liver abscessMontpellierFranceFRAEurope2000

isolation source categories

Cat1Cat2Cat3
#Host#Human
#Host Body-Site#Other#Abscess
#Host Body-Site#Organ#Liver

taxonmaps

  • @ref: 69479
  • File name: preview.99_3290.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_37;96_1715;97_2054;98_2523;99_3290&stattab=map
  • Last taxonomy: Megasphaera micronuciformis subclade
  • 16S sequence: AF473834
  • Sequence Identity:
  • Total samples: 73487
  • soil counts: 673
  • aquatic counts: 1197
  • animal counts: 71231
  • plant counts: 386

Safety information

risk assessment

@refpathogenicity humanbiosafety levelbiosafety level comment
6825yes, in single cases1Risk group (German classification)
1209491Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Megasphaera micronuciformis gene for 16S rRNA, partial sequence, strain: DSM 17226AB6097071180ena187326
20218Megasphaera micronuciformis strain AIP 412.00 16S ribosomal RNA gene, partial sequenceAF4738341411ena187326
6825Megasphaera micronuciformis strain AIP 49.01 16S ribosomal RNA gene, partial sequenceAF4738331416ena187326

GC content

  • @ref: 6825
  • GC-content: 46.4

External links

@ref: 6825

culture collection no.: DSM 17226, CCUG 45952, CIP 107280, AIP 412.00

straininfo link

  • @ref: 86132
  • straininfo: 87921

literature

  • topic: Phylogeny
  • Pubmed-ID: 12710625
  • title: Phylogenetic analysis of some Sporomusa sub-branch members isolated from human clinical specimens: description of Megasphaera micronuciformis sp. nov.
  • authors: Marchandin H, Jumas-Bilak E, Gay B, Teyssier C, Jean-Pierre H, Simeon de Buochberg M, Carriere C, Carlier JP
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.02378-0
  • year: 2003
  • mesh: Base Composition, Gram-Negative Anaerobic Bacteria/*classification/genetics/isolation & purification, Gram-Negative Bacterial Infections/microbiology, Humans, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/*analysis/genetics
  • topic2: Pathogenicity

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
6825Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17226)https://www.dsmz.de/collection/catalogue/details/culture/DSM-17226
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
38195Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/4698
56999Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 45952)https://www.ccug.se/strain?id=45952
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
86132Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID87921.1StrainInfo: A central database for resolving microbial strain identifiers
120949Curators of the CIPCollection of Institut Pasteur (CIP 107280)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107280