Ultra-high-throughput microbial single-cell whole genome sequencing for genome-resolved metagenomics

Abstract

Microbes exist widely in nature. However, less than 1% of the species of microorganisms have been discovered so far, and more than 99% of microorganisms still remain unknown, which is called microbial dark matter. Unravelling microbial dark matter is not only helpful for exploring the unknown microbial world, but also of great significance for human health research. Ever since a long time ago, due to technical limitations, the microbiome, to a great extent, is still a black box. The traditional population-based metagenomic analysis tools are without single microbial resolution and they are stretched when studying rare and unknown microbial species. Here, we use high-throughput microdroplet technology to achieve the whole genome amplification of microbial single-cell genomes in pico-litter sized microdroplets, and develop subsequent library preparation steps such as indexing of the genome, to achieve the development of ultra-high-throughput microbial single-cell whole genome sequencing for genome-resolved metagenomics, aiming to provide a powerful new weapon for exploring microbial dark matter and other microbiological studies.

Single-cell 3D genome structure reveals distinct human pluripotent states

“…Raw sequencing data reported in this paper were uploaded into NCBI with accession number PRJNA739271 [55]. And all the RNA-seq, CUT&Tag-seq and ATAC-seq processed data are available from Gene Expression Omnibus under accession number GEO: GSE260995 [56].…”