Metagenome-assembled genomes: concepts, analogies, and challenges.
Sign Up to like & getrecommendations! Published in 2021 at "Biophysical reviews"
DOI: 10.1007/s12551-021-00865-y
Abstract: Metagenome-assembled genomes (MAGs) are microbial genomes reconstructed from metagenome data. In the last few years, many thousands of MAGs have been reported in the literature, for a variety of environments and host-associated microbiota, including humans.… read more here.
Keywords: analogies challenges; assembled genomes; genomes concepts; metagenome assembled ... See more keywords
MetaLab-MAG: A Metaproteomic Data Analysis Platform for Genome-Level Characterization of Microbiomes from the Metagenome-Assembled Genomes Database
Sign Up to like & getrecommendations! Published in 2022 at "Journal of Proteome Research"
DOI: 10.1021/acs.jproteome.2c00554
Abstract: The studies of microbial communities have drawn increased attention in various research fields such as agriculture, environment, and human health. Recently, metaproteomics has become a powerful tool to interpret the roles of the community members… read more here.
Keywords: metalab mag; metagenome assembled; characterization microbiomes; metaproteomic data ... See more keywords
Expanded catalog of microbial genes and metagenome-assembled genomes from the pig gut microbiome
Sign Up to like & getrecommendations! Published in 2021 at "Nature Communications"
DOI: 10.1038/s41467-021-21295-0
Abstract: Gut microbiota plays an important role in pig health and production. Still, availability of sequenced genomes and functional information for most pig gut microbes remains limited. Here we perform a landscape survey of the swine… read more here.
Keywords: metagenome assembled; assembled genomes; catalog; pig gut ... See more keywords
Generating lineage-resolved, complete metagenome-assembled genomes from complex microbial communities
Sign Up to like & getrecommendations! Published in 2022 at "Nature Biotechnology"
DOI: 10.1038/s41587-021-01130-z
Abstract: Microbial communities might include distinct lineages of closely related organisms that complicate metagenomic assembly and prevent the generation of complete metagenome-assembled genomes (MAGs). Here we show that deep sequencing using long (HiFi) reads combined with… read more here.
Keywords: closely related; metagenome assembled; complete metagenome; microbial communities ... See more keywords
MarkerMAG: linking metagenome-assembled genomes (MAGs) with 16S rRNA marker genes using paired-end short reads
Sign Up to like & getrecommendations! Published in 2022 at "Bioinformatics"
DOI: 10.1093/bioinformatics/btac398
Abstract: MOTIVATION Metagenome-assembled genomes (MAGs) have substantially extended our understanding of microbial functionality. However, 16S rRNA genes, which are commonly used in phylogenetic analysis and environmental surveys, are often missing from MAGs. Here, we developed MarkerMAG,… read more here.
Keywords: rrna genes; mags 16s; 16s rrna; metagenome assembled ... See more keywords
Deep‐sea hydrothermal vent metagenome‐assembled genomes provide insight into the phylum Nanoarchaeota
Sign Up to like & getrecommendations! Published in 2019 at "Environmental Microbiology Reports"
DOI: 10.1111/1758-2229.12740
Abstract: Ectosymbiotic Nanoarchaeota live on the surface of diverse archaeal hosts. Despite being broadly distributed in global geothermal systems, only three Nanoarchaeota have been successfully co-cultivated with their hosts, and until now no nanoarchaeotal cultures or… read more here.
Keywords: metagenome assembled; deep sea; sea hydrothermal; assembled genomes ... See more keywords
Composite Metagenome-Assembled Genomes Reduce the Quality of Public Genome Repositories
Sign Up to like & getrecommendations! Published in 2019 at "mBio"
DOI: 10.1128/mbio.00725-19
Abstract: In their recent study, Espinoza et al. employ genome-resolved metagenomics to investigate supragingival plaque metagenomes of 88 individuals (1). The 34 metagenome-assembled genomes (MAGs) that the authors report include those that resolve to clades that… read more here.
Keywords: metagenome assembled; genome; quality; assembled genomes ... See more keywords
Long-Read Metagenome-Assembled Genomes Improve Identification of Novel Complete Biosynthetic Gene Clusters in a Complex Microbial Activated Sludge Ecosystem
Sign Up to like & getrecommendations! Published in 2022 at "mSystems"
DOI: 10.1128/msystems.00632-22
Abstract: Cataloguing secondary metabolite (SM) potential using genome mining of metagenomic data has become the method of choice in bioprospecting for novel compounds. However, accurate biosynthetic gene cluster (BGC) detection requires unfragmented genomic assemblies, which have… read more here.
Keywords: metagenome assembled; long read; biosynthetic gene; gene clusters ... See more keywords
Phylogenomic Analysis of Metagenome-Assembled Genomes Deciphered Novel Acetogenic Nitrogen-Fixing Bathyarchaeota from Hot Spring Sediments
Sign Up to like & getrecommendations! Published in 2022 at "Microbiology Spectrum"
DOI: 10.1128/spectrum.00352-22
Abstract: We describe the Bathyarchaeota bins that are likely to be acetogens with a wide range of metabolic potential. These bins did not exhibit methanogenic machinery, suggesting methane production may not occur by all subgroup lineages… read more here.
Keywords: ils200 ils300; bathyarchaeota; metagenome assembled; analysis ... See more keywords
Optimizing and evaluating the reconstruction of Metagenome-assembled microbial genomes
Sign Up to like & getrecommendations! Published in 2017 at "BMC Genomics"
DOI: 10.1186/s12864-017-4294-1
Abstract: BackgroundMicrobiome/host interactions describe characteristics that affect the host's health. Shotgun metagenomics includes sequencing a random subset of the microbiome to analyze its taxonomic and metabolic potential. Reconstruction of DNA fragments into genomes from metagenomes (called… read more here.
Keywords: reconstruction; metagenome assembled; binning tools; assembled genomes ... See more keywords
Identification of 146 Metagenome-assembled Genomes from the Rumen Microbiome of Cattle in Japan
Sign Up to like & getrecommendations! Published in 2022 at "Microbes and Environments"
DOI: 10.1264/jsme2.me22039
Abstract: The rumen contains a complex microbial ecosystem that degrades plant materials, such as cellulose and hemicellulose. We herein reconstructed 146 nonredundant, rumen-specific metagenome-assembled genomes (MAGs), with ≥50% completeness and read more here.
Keywords: cattle japan; assembled genomes; metagenome assembled; 146 metagenome ... See more keywords