Flysta3D:A single-cell 3D spatiotemporal multi-omics atlas from embryogenesis to metamorphosis

The development of a multicellular organism is a highly intricate process tightly requlated by numerousgenes and pathways in both spatial and temporal manners. Here, we present a comprehensive multi-omicsatlas of the model organism Drosophila, spanning its entire developmental lifespan from embryo to pupa, Ourdatasets encompass 3D single-cell spatial transcriptomic, single-cell transcriptomic, and single-nucleuschromatin accessibility information, By integrating these multi-omics data, we constructed cell statetrajectories that uncover the meticulous profiles of tissue development, With a focus on the central nervoussystem (CNS) and midgut, we dissected the spatiotemporal dynamics of gene regulatory networks, cell typedifferentiation, and morpholoqical changes from a multi-omics perspective. This extensive atlas provides anunprecendentedly rich resource and serves as a systematic platform for stuaying Drosophila development withintegrated multi-omics data at a ultra-high spatiotemporal resolution.