Shotgun metagenomics is the right tool for obtaining a detailed characterization into a microbial community. This technology offers a precise strain-level and functional annotation of the microbiome. The name shotgun metagenomics refers to the process in which the total DNA from a sample is fragmented in a random manner followed by next-generation sequencing. This generates primer-independent and unbiased sequencing data which can be analyzed using various reference-based and reference-free methods. Shotgun metagenomics targets all DNA material in a sample and produces relative abundance information for all genes, functions and organisms including bacteria, fungi, archaea, and viruses (phages).
Shotgun metagenomics powered by our MGS bioinformatics platform will give you the highest taxonomical (species/strain) and functional resolution (genes) possible. To get the maximum insights out of your data we have a strong bioinformatics and science team available for your assistance. We have in-house experience with state-of-the-art bioinformatic approaches such as multi-omics integration, advanced statistical models, machine learning, antibiotic resistance detection, SNV-based strain tracking, responder/non-responder models, FMT/probiotic persistence probability, phage discovery, and much more.
Ultra-high resolution microbiomics
In 2014 Nature Biotechnology featured the metagenomic species (MGS) concept as high-resolution microbiomics, since then the method have been refined and sequencing technologies have improved allowing accurate profiling at subspecies level.
Ultra-high resolution microbiomics distinguish between microbial populations from individual subjects (strains) and describe these strains at the nucleotide level. This level of resolution challenges current comparative microbiomics analysis because the biological entities are unique to the subject. To overcome this, we employ statistical strategies that rely on phylogenetic distances between sample-specific strains to find associations that links subspecies clades to host phenotypes etc. These associations can be visualized on phylogenetic threes, and common ancestors of phenotype associated strains can be reconstructed and examined for functional clues at the nucleotide level. Moreover, most accessory genes can be linked to the species phylogeny and provide further functional insight to phenotype-associations.