Strain identifier

BacDive ID: 17849

Type strain: Yes

Species: Akkermansia muciniphila

Strain Designation: Muc, MucT

Strain history: CIP <- 2003, M. Derrien, Wageningen, The Netherlands: strain MucT

NCBI tax ID(s): 239935 (species)

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General

@ref: 16637

BacDive-ID: 17849

DSM-Number: 22959

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

description: Akkermansia muciniphila Muc is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from human intestinal tract .

NCBI tax id

  • NCBI tax id: 239935
  • Matching level: species

strain history

@refhistory
16637<- CIP <- M. Derrien, Lab. Microbiology, Wageningen Univ., Netherlands; Muc
407372003, M. Derrien, Wageningen, The Netherlands: strain MucT
67770DSM 22959 <-- CIP 107961 <-- M. Derrien; Lab. Microbiol, Wageningen Univ., Netherlands; Muc.
121158CIP <- 2003, M. Derrien, Wageningen, The Netherlands: strain MucT

doi: 10.13145/bacdive17849.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/verrucomicrobiota
  • domain: Bacteria
  • phylum: Verrucomicrobiota
  • class: Verrucomicrobiia
  • order: Verrucomicrobiales
  • family: Akkermansiaceae
  • genus: Akkermansia
  • species: Akkermansia muciniphila
  • full scientific name: Akkermansia muciniphila Derrien et al. 2004

@ref: 16637

domain: Bacteria

phylum: Verrucomicrobia

class: Verrucomicrobiae

order: Verrucomicrobiales

family: Akkermansiaceae

genus: Akkermansia

species: Akkermansia muciniphila

full scientific name: Akkermansia muciniphila Derrien et al. 2004 emend. Hahnke et al. 2016

strain designation: Muc, MucT

type strain: yes

Morphology

cell morphology

  • @ref: 121158
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: no

colony morphology

  • @ref: 16637
  • incubation period: 3-7 days

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
16637PYG 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
16637SCHAEDLER BROTH (ROTH; 5772) (DSMZ Medium 1669)yeshttps://mediadive.dsmz.de/medium/1669Name: SCHAEDLER BROTH (Roth; 5772) (DSMZ Medium 1669) Composition: Glucose 5.83 g/l Casein peptone 5.66 g/l Yeast extract 5.0 g/l Peptone mixture 5.0 g/l Tris 3.0 g/l NaCl 1.66 g/l Soy peptone 1.0 g/l K2HPO4 0.83 g/l L-Cysteine HCl x H2O 0.4 g/l Hemin 0.01 g/l Resazurin 0.001 g/l Distilled water
40737MEDIUM 187 - for anaerobic bacteriayesDistilled water make up to (1000.000 ml);Glucose (5.000 g);Yeast extract(20.000 g);Tryptone (30.000 g);Cysteine hydrochloride (0.500 g);Hemin solution - M00149(25.000 ml)
121158CIP Medium 20yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=20
121158CIP Medium 486yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=486
121158CIP Medium 187yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=187

culture temp

@refgrowthtypetemperaturerange
16637positivegrowth37mesophilic
40737positivegrowth37mesophilic
63059positivegrowth37mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
16637anaerobe
63059anaerobe

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
12115817632nitrate-reduction
12115816301nitrite-reduction
6838016199urea-hydrolysis
6838029016arginine-hydrolysis
6838016024D-mannose-fermentation
6838016634raffinose-fermentation
6838017632nitrate-reduction
6838027897tryptophan-energy source

metabolite production

@refChebi-IDmetaboliteproduction
12115835581indoleno
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
68380alkaline phosphatase-3.1.3.1
68380tryptophan deaminase-4.1.99.1
68380alpha-fucosidase-3.2.1.51
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-
68380arginine dihydrolase-3.5.3.6
68380urease-3.5.1.5
121158oxidase-
121158catalase-1.11.1.6
121158urease-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
121158-------------+---+--

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
16637--++-----+--+----------------
16637--++-----+-------------------
16637---+/------+-------------------
16637--++-----+--+----+-----------
16637--++-----+-------------------
16637--++-----+-------------------
16637--+/-+-----+--+----+/------------
16637--++-----+/---+----+/------------
16637--++-----+--+----------------
16637--++-----+--+----+-----------

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentsampling dateisolation date
16637human intestinal tract (feces)NetherlandsNLDEurope
63059Human fecesNetherlandsNLDEurope2002-03-01
67770Human feces from a healthy adult volunteerNetherlandsNLDEurope
121158Human, FecesNetherlandsNLDEurope2002

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_2521.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_61;96_130;97_140;98_1962;99_2521&stattab=map
  • Last taxonomy: Akkermansia muciniphila subclade
  • 16S sequence: AY271254
  • Sequence Identity:
  • Total samples: 135537
  • soil counts: 1656
  • aquatic counts: 4383
  • animal counts: 128875
  • plant counts: 623

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
166371Risk group (German classification)
1211581Risk group (French classification)

Sequence information

16S sequences

  • @ref: 16637
  • description: Akkermansia muciniphila strain Muc 16S ribosomal RNA gene, complete sequence
  • accession: AY271254
  • length: 1433
  • database: ena
  • NCBI tax ID: 349741

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Akkermansia muciniphila DSM 22959GCA_008000975completencbi239935
66792Akkermansia muciniphila strain DSM 22959239935.2131completepatric239935
67770Akkermansia muciniphila ATCC BAA-835GCA_000020225completencbi349741

GC content

@refGC-contentmethod
1663747.6
1663755.8sequence analysis
6777047.6high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno90.651no
flagellatedno97.163no
gram-positiveno98.439no
anaerobicyes96.724yes
aerobicno94.053yes
halophileno92.474no
spore-formingno98.358no
glucose-utilyes75.797no
thermophileno97.819yes
glucose-fermentno59.736no

External links

@ref: 16637

culture collection no.: DSM 22959, ATCC BAA 835, CIP 107961, CCUG 64013, JCM 33894, BCRC 81048

straininfo link

  • @ref: 86840
  • straininfo: 134273

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny15388697Akkermansia muciniphila gen. nov., sp. nov., a human intestinal mucin-degrading bacterium.Derrien M, Vaughan EE, Plugge CM, de Vos WMInt J Syst Evol Microbiol10.1099/ijs.0.02873-02004Acetylgalactosamine/metabolism, Acetylglucosamine/metabolism, Bacterial Capsules/biosynthesis/ultrastructure, Base Composition, Carbon, Culture Media/chemistry, DNA, Bacterial/chemistry/isolation & purification, DNA, Ribosomal/chemistry/isolation & purification, Feces/*microbiology, Gastric Mucins/*metabolism, Genes, rRNA/genetics, Glucose/metabolism, Gram-Negative Anaerobic Bacteria/*classification/genetics/*isolation & purification/physiology/ultrastructure, Humans, Intestines/*microbiology, Molecular Sequence Data, Movement, Nitrogen/metabolism, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Spores, Bacterial/cytologyMetabolism
Metabolism30362482Viability of microencapsulated Akkermansia muciniphila and Lactobacillus plantarum during freeze-drying, storage and in vitro simulated upper gastrointestinal tract passage.Marcial-Coba MS, Cieplak T, Cahu TB, Blennow A, Knochel S, Nielsen DSFood Funct10.1039/c8fo01331d2018*Freeze Drying, Lactobacillus plantarum/*growth & development, *Microbial Viability, Polysaccharides, Bacterial/chemistry, *Probiotics, Upper Gastrointestinal Tract/metabolism/microbiology, Verrucomicrobia/*growth & development
32019075Preliminary Evaluation of the Safety and Probiotic Potential of Akkermansia muciniphila DSM 22959 in Comparison with Lactobacillus rhamnosus GG.Cozzolino A, Vergalito F, Tremonte P, Iorizzo M, Lombardi SJ, Sorrentino E, Luongo D, Coppola R, Di Marco R, Succi MMicroorganisms10.3390/microorganisms80201892020
Metabolism33678110Akkermansia muciniphila and environmental enrichment reverse cognitive impairment associated with high-fat high-cholesterol consumption in rats.Higarza SG, Arboleya S, Arias JL, Gueimonde M, Arias NGut Microbes10.1080/19490976.2021.18802402021Akkermansia, Animals, Brain/metabolism, Brain-Gut Axis, Cholesterol, Dietary/*adverse effects, Cognitive Dysfunction/diet therapy/etiology/*therapy, Diet, High-Fat/*adverse effects, Environment, *Gastrointestinal Microbiome, Lactobacillaceae, Male, Non-alcoholic Fatty Liver Disease/*complications, *Probiotics, Rats, Rats, Sprague-Dawley
35631454Spray-Drying Encapsulation of the Live Biotherapeutic Candidate Akkermansia muciniphila DSM 22959 to Survive Aerobic Storage.Barbosa JC, Almeida D, Machado D, Sousa S, Freitas AC, Andrade JC, Gomes AMPharmaceuticals (Basel)10.3390/ph150506282022
Metabolism35948738Genome analysis and 2'-fucosyllactose utilization characteristics of a new Akkermansia muciniphila strain isolated from mice feces.Gao W, Xiao M, Gu Z, Fu X, Ren X, Yu Y, Liu Z, Zhu C, Kong Q, Mou HMol Genet Genomics10.1007/s00438-022-01937-82022Mice, Animals, Humans, *Lactose/metabolism, *Squalene/metabolism, Verrucomicrobia/genetics/metabolism, Feces, Oligosaccharides/metabolism, beta-Galactosidase/metabolism, Transferases/metabolism, Membrane Proteins/metabolism, gamma-Aminobutyric Acid/metabolismPathogenicity
Phylogeny35954507Insights into the Antimicrobial Resistance Profile of a Next Generation Probiotic Akkermansia muciniphila DSM 22959.Machado D, Barbosa JC, Almeida D, Andrade JC, Freitas AC, Gomes AMInt J Environ Res Public Health10.3390/ijerph191591522022Akkermansia, Anti-Bacterial Agents/pharmacology, *Anti-Infective Agents/pharmacology, Base Composition, Drug Resistance, Bacterial/genetics, Phylogeny, *Probiotics, RNA, Ribosomal, 16S, Sequence Analysis, DNA, Verrucomicrobia/genetics, Virulence FactorsTranscriptome
Pathogenicity36371559Characterization of antibiotic-resistance traits in Akkermansia muciniphila strains of human origin.Filardi R, Gargari G, Mora D, Arioli SSci Rep10.1038/s41598-022-23980-62022Humans, *Verrucomicrobia, *Akkermansia, Anti-Bacterial Agents/pharmacology, Ciprofloxacin

Reference

@idauthorscataloguedoi/urltitle
16637Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22959)https://www.dsmz.de/collection/catalogue/details/culture/DSM-22959
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
40737Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5530
63059Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 64013)https://www.ccug.se/strain?id=64013
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/
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
86840Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID134273.1StrainInfo: A central database for resolving microbial strain identifiers
121158Curators of the CIPCollection of Institut Pasteur (CIP 107961)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107961