An Integrated Metagenome Catalog Reveals New Insights into the Murine Gut Microbiome.

Cell Reports
Till Robin LeskerTill Strowig

Abstract

The complexity of host-associated microbial ecosystems requires host-specific reference catalogs to survey the functions and diversity of these communities. We generate a comprehensive resource, the integrated mouse gut metagenome catalog (iMGMC), comprising 4.6 million unique genes and 660 metagenome-assembled genomes (MAGs), many (485 MAGs, 73%) of which are linked to reconstructed full-length 16S rRNA gene sequences. iMGMC enables unprecedented coverage and taxonomic resolution of the mouse gut microbiota; i.e., more than 92% of MAGs lack species-level representatives in public repositories (<95% ANI match). The integration of MAGs and 16S rRNA gene data allows more accurate prediction of functional profiles of communities than predictions based on 16S rRNA amplicons alone. Accompanying iMGMC, we provide a set of MAGs representing 1,296 gut bacteria obtained through complementary assembly strategies. We envision that integrated resources such as iMGMC, together with MAG collections, will enhance the resolution of numerous existing and future sequencing-based studies.

Citations

Jul 25, 2020·Nature Communications·N van BestM W Hornef
Dec 5, 2020·Journal of Pharmaceutical and Biomedical Analysis·Maria Muñoz-BenaventAmparo Latorre
Jan 19, 2021·International Journal of Medical Microbiology : IJMM·Aida IljazovicTill Strowig
Feb 26, 2021·MSphere·Jiahui ZhuLiang Xiao
Mar 6, 2021·Frontiers in Nutrition·Josep Bassaganya-RieraMauro Serafini
Mar 11, 2021·International Journal of Medical Microbiology : IJMM·Thomas C A HitchThomas Clavel
Apr 2, 2021·Bioinformatics·Seth CommichauxMihai Pop
Jul 15, 2021·Mammalian Genome : Official Journal of the International Mammalian Genome Society·Sandi Yen, Jethro S Johnson

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Datasets Mentioned

BETA
PRJEB32890

Methods Mentioned

BETA
profilers
amplicon sequencing
PCR
amplicon

Software Mentioned

FastANI
BlastP
CAT ( Contig annotation tool )
metaSPAdes
STAR
PhyloPythiaS
BLAST
R Core Team
DIAMOND
BlastN

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