Shotgun metagenomic sequencing allows researchers to comprehensively sample all genes in all organisms present in a given complex sample. The method enables microbiologists to evaluate bacterial diversity and detect the abundance of microbes in various environments. Shotgun metagenomics also provides a means to study unculturable microorganisms that are otherwise difficult or impossible to analyze.
Unlike capillary sequencing or PCR-based approaches, next-generation sequencing (NGS) allows researchers to sequence thousands of organisms in parallel. With the ability to combine many samples in a single sequencing run and obtain high sequence coverage per sample, NGS-based metagenomic sequencing can detect very low abundance members of the microbial community that may be missed or are too expensive to identify using other methods.
16S rRNA Sequencing is another method used for metagenomics studies.
There are multiple ways to perform these experiments, but these are some suggested products for each step of the workflow.
Click on the below to view products for each workflow step.
A fast, integrated workflow for a wide range of applications, from human whole-genome sequencing to amplicons, plasmids, and microbial species.Nextera XT Library Prep Kit
Prepare sequencing-ready libraries for small genomes (bacteria, archaea, viruses), amplicons, and plasmids in less than 90 minutes.
Simple, all-inclusive library preparation for whole-genome sequencing applications. Researchers can sequence a wide variety of organisms, from small genomes such as bacteria to whole-human genomes.
Desktop Sequencing SystemsMiSeq System
Speed, accuracy and simplicity for far reaching applications in microbiology.MiSeq v3 Reagents Kits
Improved chemistry to increase cluster density and read length. Enables up to 15 Gb of output.MiSeq v2 Reagents Kits
Ideal for sequencing microbial transcripts in less than 6 hours. Micro and nano formats available for low-throughput applications.NextSeq 550 System
Flexible desktop sequencer for exome, transcriptome, and whole-genome sequencing.NextSeq 500/550 v2 Kits
Enhanced clustering chemistry yields even higher data quality. Provides 130 or 400 million reads and up to 120 Gb output per run.
High-Throughput Sequencing System
Power for shotgun metagenomics and flexibility to scale based on your project or workflow needs.
Maximum throughput, lowest cost for production-scale genomics.HiSeq 4000 SBS Kit and PE Cluster Kit
Leverage patterned flow cell technology to generate up to 1500 Gb (1.5 Tb) of output per dual flow cell run.
BaseSpace Apps for k-mer alignments and taxonomic classificationKraken Metagenomics
Assigns taxonomic labels to short DNA sequences with high sensitivity and speed using exact alignments of k-mers and a novel classification algorithm.
Enables metagenomics analysis by rapidly assessing your samples from BaseSpace Sequence Hub with a fast, comprehensive, accurate data platformGENIUS Metagenomics: Know Now
Uses CosmosID's curated genome database and high performance algorithms to provide rapid, accurate, and actionable bacterial identification at the species, subspecies, and strain level.