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   Articles with "metagenome assembled" as a keyword



Metagenome-assembled genomes: concepts, analogies, and challenges.

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recommendations! 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

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recommendations! 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
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Expanded catalog of microbial genes and metagenome-assembled genomes from the pig gut microbiome

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recommendations! 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

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recommendations! 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

Recovery of 1887 metagenome-assembled genomes from the South China Sea

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recommendations! Published in 2024 at "Scientific Data"

DOI: 10.1038/s41597-024-03050-4

Abstract: The South China Sea (SCS) is a marginal sea characterized by strong land-sea biogeochemical interactions. SCS has a distinctive landscape with a multitude of seamounts in its basin. Seamounts create “seamount effects” that influence the… read more here.

Keywords: south china; china sea; sea; metagenome assembled ... See more keywords

Metagenome-assembled-genomes recovered from the Arctic drift expedition MOSAiC

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recommendations! Published in 2025 at "Scientific Data"

DOI: 10.1038/s41597-025-04525-8

Abstract: The Multidisciplinary Observatory for Study of the Arctic Climate (MOSAiC) expedition consisted of a year-long drifting survey of the Central Arctic Ocean. The ecosystems component of MOSAiC included the sampling of molecular data, with metagenomes… read more here.

Keywords: expedition; recovered arctic; genomes recovered; metagenome assembled ... See more keywords

Depth-dependent Metagenome-Assembled Genomes of Agricultural Soils under Managed Aquifer Recharge

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recommendations! Published in 2025 at "Scientific Data"

DOI: 10.1038/s41597-025-05218-y

Abstract: Managed Aquifer Recharge (MAR) systems, which intentionally replenish groundwater aquifers with excess water, are critical for addressing water scarcity exacerbated by demographic shifts and climate variability. To date, little is known about the functional diversity… read more here.

Keywords: aquifer recharge; agricultural soils; soil; managed aquifer ... See more keywords

MarkerMAG: linking metagenome-assembled genomes (MAGs) with 16S rRNA marker genes using paired-end short reads

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recommendations! 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
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Deep‐sea hydrothermal vent metagenome‐assembled genomes provide insight into the phylum Nanoarchaeota

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recommendations! 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

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recommendations! 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

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recommendations! 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