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Microbiota and environmental health monitoring of mouse colonies by metagenomic shotgun sequencing
Metagenomic next-generation sequencing (mNGS) allows the monitoring of microbiota composition of murine colonies employed for scientific purposes in...
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Cloning and Expression of Metagenomic DNA in Streptomyces lividans and Its Subsequent Fermentation for Optimized Production
The choice of an expression system for the metagenomic DNA of interest is of vital importance for the detection of any particular gene or gene...
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Mulches assist degraded soil recovery via stimulating biogeochemical cycling: metagenomic analysis
AbstractSoil degradation of urban greening has caused soil fertility loss and soil organic carbon depletion. Organic mulches are made from natural...
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Improved method for the extraction of high-quality DNA from lignocellulosic compost samples for metagenomic studies
AbstractThe world economy is currently moving towards more sustainable approaches. Lignocellulosic biomass has been widely used as a substitute for...
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BugSplit enables genome-resolved metagenomics through highly accurate taxonomic binning of metagenomic assemblies
A large gap remains between sequencing a microbial community and characterizing all of the organisms inside of it. Here we develop a novel method to...
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Determinants of associations between codon and amino acid usage patterns of microbial communities and the environment inferred based on a cross-biome metagenomic analysis
Codon and amino acid usage were associated with almost every aspect of microbial life. However, how the environment may impact the codon and amino...
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Effect of bacterial DNA enrichment on detection and quantification of bacteria in an infected tissue model by metagenomic next-generation sequencing
Before implementing metagenomic next-generation sequencing (mNGS) in the routine diagnostic laboratory, several challenges need to be resolved. To...
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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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MetaCRS: unsupervised clustering of contigs with the recursive strategy of reducing metagenomic dataset’s complexity
BackgroundMetagenomics technology can directly extract microbial genetic material from the environmental samples to obtain their sequencing reads,...
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Minority report: small-scale metagenomic analysis of the non-bacterial kitchen sponge microbiota
Kitchen sponges are particularly well known to harbor a high number and diversity of bacteria, including pathogens. Viruses, archaea, and eukaryotes...
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Exploring viral infections in honey bee colonies: insights from a metagenomic study in southern Brazil
The decline in honey bee colonies in different parts of the world in recent years is due to different reasons, such as agricultural practices,...
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Anthocyanin Addition to Kefir: Metagenomic Analysis of Microbial Community Structure
The addition of anthocyanin to kefir for the production of more functional and bio-diversified kefir beverages has the potential to increase kefir’s...
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Microbial-enrichment method enables high-throughput metagenomic characterization from host-rich samples
Host–microbe interactions have been linked to health and disease states through the use of microbial taxonomic profiling, mostly via 16S ribosomal...
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Functional metagenomic analysis of quorum sensing signaling in a nitrifying community
Quorum sensing (QS) can function to shape the microbial community interactions, composition, and function. In wastewater treatment systems, acylated...
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Metagenomic assembly reveals hosts and mobility of common antibiotic resistome in animal manure and commercial compost
BackgroundAntibiotics and antibiotic resistance genes (ARGs) used in intensive animal farming threaten human health worldwide; however, the common...
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Analysis of diversity and function of epiphytic bacterial communities associated with macrophytes using a metagenomic approach
Epiphytic bacteria constitute a vital component of aquatic ecosystems, pivotal in regulating elemental cycling. Despite their significance, the...
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Metagenomic analysis reveals wide distribution of phototrophic bacteria in hydrothermal vents on the ultraslow-spreading Southwest Indian Ridge
Deep-sea hydrothermal vents are known as chemosynthetic ecosystems. However, high temperature vents emit light that hypothetically can drive...
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Multi-kingdom microbial signatures in excess body weight colorectal cancer based on global metagenomic analysis
Excess body weight (EBW) increases the risk of colorectal cancer (CRC) and is linked to lower colonoscopy compliance. Here, we extensively analyzed...
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Identifying Novel Antibiotic Resistance Genes (ARGs): Important Aspect of Metagenomic Research
The rapid growth of antimicrobial resistance (also known as AMR) is a major reason for concern when it comes to public health around the world. The...