Shallow shotgun sequencing is a novel sequencing method, which has the advantages of 16S sequencing and metagenomic sequencing simultaneously. Shallow shotgun sequencing combines more samples into a single sequencing run and uses a modified protocol with a lower volume of reagents to prepare the library.
Compared with amplicon sequencing, shallow shotgun sequencing provides a less biased representation of the microbial community and higher taxonomic resolution. However, it cannot replace full metagenomic research. The cost of shallow shotgun sequencing is slightly higher than that of amplicon sequencing and 16S sequencing but much lower than deep shotgun sequencing. It is an economical way to provide composition and function data.
With the continuous demand for cost-effective and high-quality microbiome data, shallow shotgun sequencing is going to be a widely used technique. The study of microorganisms in known environmental settings (such as the human intestine) has greatly benefited from the data generated by shallow shotgun sequencing.
With the future development of metagenome databases including novel microbial reference genomes, shallow shotgun sequencing will also facilitate the characterization of lesser-studied microbial environments. Finally, with the widespread application of multi-omics analysis, shallow shotgun sequencing will help gain more knowledge about the interaction of the microbiome with other omics, including metabolites, genomes, proteomics, etc.
Each shallow shotgun sequencing project includes,
Our bioinformatics analysis covers a wide range including taxonomic assignment, microbial diversity analysis, function annotations, CAZy, CARD and pathogen prediction, etc.
In general, our turnaround time is 1-3 weeks depending on the size of your project.
Creative Biogene has excellent microbiology experts, well-established high-throughput sequencing platforms, and professional bioinformatics analysis to provide you with a one-stop service in shallow shotgun sequencing. Our services include sample collection, quality control, library construction, sequencing and analysis.
If you are interested in our services, please contact us for more details.