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A Beginner’s Guide to Microbial Sequencing – 16S/18S/ITS Amplicon Sequencing vs. Shotgun Metagenomic Sequencing

10 Nov 2021
A Beginner’s Guide to Microbial Sequencing - 16S/18S/ITS Amplicon Sequencing vs. Shotgun Metagenomic Sequencing

Xiaorui Han Novogene Corporation Inc. Senior Product Manager


16S/18S/ITS Amplicon Metagenomic Sequencing is an ultra-deep DNA sequencing method that focuses on sequencing specific target regions. It can efficiently screen variants or target organisms and describe as well as compare the diversity of multiple complex environments. The approach is frequently used in population and community microbial ecology studies, phylogenetic reconstruction of target microbial groups, identification of individual species in pure cultures, and detection of organisms of interest (pathogens or beneficial), among many others.

Shotgun metagenomic sequencing provides information on the total genomic DNA from all organisms in a sample, avoiding the need for isolation and cultivation of microorganisms or amplification of target regions. This is crucial because it is believed that nearly 99% of all microorganisms cannot be cultivated in the laboratory. Differently from the targeted approach used in the 16S/18S/ITS amplicon sequencing, shotgun metagenomic sequencing uses next-generation sequencing (NGS) technology to provide not only information on the taxonomic annotations of each organism, but also the functional profiling, gene prediction and microbial interaction of the whole community.

In this webinar, we will walk you through a general analysis of both 16S/18S/ITS amplicon metagenomic sequencing and shotgun metagenomic sequencing, including their mechanisms, notable differences, applications in real cases, and limitations. By the end of this session, you will gain insights into a variety of research strategies and potential future use of the two approaches. This webinar will consist of a presentation and a live Q&A module.

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