Spatio-temporal transcriptome construction of early mouse embryo with Geo-seq and Auto-seq

Abstract The regionalization of cell fates heralding the formation of the basic body plan is conserved in vertebrate embryos, the mechanisms of which is instrumental for understanding embryonic programming and stem cell-based translational study. However, a comprehensive genome-wide molecular annotation of the mechanism that determines the lineage specification and cell fate decision has not been clarified. Here, we combined laser microdissection-based spatial transcriptome analysis (Geo-seq) and automated platform-based low-input RNA sequencing (Auto-seq), and generated a series of spatial transcriptome dataset that encompass mouse embryos from pre-gastrulation (E5.5) to late gastrulation (E7.5) on all germ layers in the embryo proper.