A bioinformatics workflow is described integrating predictive metagenomics profiling with specific application to food microbiology data to investigate the functional potential, alterations, and interactions of a microbial community.
This work presents a novel, integrative framework that connects strategic omics and sequencing technologies to combine sophisticated metagenomics studies with customized next-generation sequencing techniques to lay the groundwork for next-generation ecological predictions and precise microbiome engineering with proper...
P. Kumari, Gaurav Sharma, M. Gupta et al.· Chemical biology letters· 0 citations
Metagenomic next-generation sequencing for identifying pathogens has been increasingly utilized as a diagnostic tool. Prior research mostly emphasizes the selection of classification software based on reads above 100bp, neglecting the influence of sequencing data pre- and post-processing stages. Independently assessmen...
Jun Ma, T. Hao, Ya-Hong Bai et al.· Journal of Molecular Diagnos...· 0 citations
High-throughput sequencing has transformed microbiome study by enabling cost-efficient, high-resolution profiling of microbial communities using 16S rRNA gene amplicons. Despite its widespread adoption, taxonomic inference remains highly dependent on the choice of reference database and bioinformatic pipeline. To pro...
Chao Li, Liang Zhu, Lisa Axe et al.· ISME Communications· 0 citations
A dual-strategy bioinformatics pipeline that leverages publicly available 16S rRNA gene amplicon sequencing data to reliably and inexpensively confirm target bacterial presence and distinguished target-positive from negative samples, with phylogenetic support for specificity is described.
Jian Zhou, T. Gu, Shi-Jun Li· Journal of Microbiological M...· 0 citations
Abstract Bacteria are an important component of environmental microbiomes, contributing to animal, plant, and soil health. The 16S rRNA gene is used as a barcode for taxonomic classification of bacteria and analysis of bacterial diversity in environmental samples. The 16S barcode region is ~1500 bp and has nine hyperva...
This chapter presents protocols for high-throughput, sequence-based analysis of AMF communities, covering the complete workflow from DNA extraction in plant or soil samples to the bioinformatic processing of sequencing data.
Francesco Berruto, M. Bortolot, Erica Lumini et al.· Methods in molecular biology· 0 citations
We use cookies to run the site and, with your consent, for analytics and to show ads.
See our Cookie Policy.
