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Overview of bioinformatic methods for analysis of antibiotic resistome from genome and metagenome data
Whole genome and metagenome sequencing are powerful approaches that enable comprehensive cataloging and profiling of antibiotic resistance genes at...
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Expanding the taxonomic range in the fecal metagenome
BackgroundExcept for bacteria, the taxonomic diversity of the human fecal metagenome has not been widely studied, despite the potential importance of...
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Mining the equine gut metagenome: poorly-characterized taxa associated with cardiovascular fitness in endurance athletes
Emerging evidence indicates that the gut microbiome contributes to endurance exercise performance. Still, the extent of its functional and metabolic...
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Benchmarking different approaches for Norovirus genome assembly in metagenome samples
BackgroundGenome assembly of viruses with high mutation rates, such as Norovirus and other RNA viruses, or from metagenome samples, poses a challenge...
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Effects of Bacillus subtilis subsp. on the microbial community and aroma components of flue-cured tobacco leaves based on metagenome analysis
To improve the sensory quality of aged flue-cured tobacco (FCT), Bacillus subtilis subsp, H11 was inoculated on aged FCT leaves named **dingshan...
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Metagenome-mining indicates an association between bacteriocin presence and strain diversity in the infant gut
BackgroundOur knowledge about the ecological role of bacterial antimicrobial peptides (bacteriocins) in the human gut is limited, particularly in...
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Gut metagenome profile of the Nunavik Inuit youth is distinct from industrial and non-industrial counterparts
Comparative metagenomics studies have highlighted differences in microbiome community structure among human populations over diverse lifestyles and...
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MetaVelvet-DL: a MetaVelvet deep learning extension for de novo metagenome assembly
BackgroundThe increasing use of whole metagenome sequencing has spurred the need to improve de novo assemblers to facilitate the discovery of unknown...
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Baseline metagenome-assembled genome (MAG) data of Sikkim hot springs from Indian Himalayan geothermal belt (IHGB) showcasing its potential CAZymes, and sulfur-nitrogen metabolic activity
Here we present the construction and characterization of metagenome assembled genomes (MAGs) from two hot springs residing in the vicinity of Indian...
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HiCBin: binning metagenomic contigs and recovering metagenome-assembled genomes using Hi-C contact maps
Recovering high-quality metagenome-assembled genomes (MAGs) from complex microbial ecosystems remains challenging. Recently, high-throughput...
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In Silico Analysis of Phylogeny, Structure, and Function of Flavohemoproteins from Metagenomic Data
AbstractIn this study, flavohemoproteins from protist, bacterial and fungal sources as well those available in metagenome data have been...
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Production, purification, characterization and application of two novel endoglucanases from buffalo rumen metagenome
BackgroundLignocellulose biomass is the most abundant and renewable material in nature. The objectives of this study were to characterize two...
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Functional characterization of the ABC transporters and transposable elements of an uncultured Paracoccus sp. recovered from a hydrocarbon-polluted soil metagenome
Environmental microorganisms usually exhibit a high level of genomic plasticity and metabolic versatility that allow them to be well-adapted to...
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Isolation and biochemical characterization of a novel serine protease identified from solid tannery waste metagenome
Metagenomics facilitates the isolation of novel enzymes from the unculturable microorganisms inhabiting a particular ecosystem. In the present study,...
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Metagenome-genome-wide association studies reveal human genetic impact on the oral microbiome
The oral microbiota contains billions of microbial cells, which could contribute to diseases in many body sites. Challenged by eating, drinking, and...
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An Introduction to Whole-Metagenome Shotgun Sequencing Studies
Microbial communities are found across diverse environments, including within and across the human body. As many microbes are unculturable in the...
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Metagenome-assembled genomes and gene catalog from the chicken gut microbiome aid in deciphering antibiotic resistomes
Gut microbial reference genomes and gene catalogs are necessary for understanding the chicken gut microbiome. Here, we assembled 12,339 microbial...
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Insights from metagenome-assembled genomes on the genetic stability and safety of over-the-counter probiotic products
The demand for and acceptance of probiotics is determined by their quality and safety. Illumina NGS sequencing and analytics were used to examine...
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Compendium of 530 metagenome-assembled bacterial and archaeal genomes from the polar Arctic Ocean
The role of the Arctic Ocean ecosystem in climate regulation may depend on the responses of marine microorganisms to environmental change. We applied...
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Reveal the microbial communities and functional prediction during the fermentation of Fen-flavor Baijiu via metagenome combining amplicon sequencing
PurposeMicrobial resources are abundant in fermented grains of the Chinese Fen-flavor Baijiu , which is closely related to the quality of Baijiu . The...
