STOmics technology:BGI Stereomics Stereo-Seq

Data type:Spatial transcriptomics

Sample scope:Multiisolate

Summary:Adult zebrafish robustly regenerate injured hearts through a complex orchestration of cells and molecules. However, the comprehensive process remains incompletely understood. Here, we utilized single-cell RNA-sequencing (scRNA-seq) and Stereo-seq approaches to generate a spatially-resolved cell dataset of regenerating zebrafish heart. We captured organ-scale cellular dynamics across eight time points, with a particular focus on the initiative stages. We deciphered the cellular origin and cascade of regenerating cardiomyocytes, identifying tpm4a as a key player in the re-differentiation of post-proliferated cardiomyocytes. We observed that the activation of lumican in proregenerative fibroblasts is conserved across regenerative hearts of diverse species. In addition, we reconstructed a 4D "virtual regenerating heart" atlas, encompassing 3 spatial dimensions and time, comprising a total of 582,068 cells/spots derived from 36 scRNA-seq libraries and 224 Stereo-seq slices. In summary, our work establishes a foundation framework for future study of cellular dynamics and molecular mechanisms underlying vertebrate heart regeneration.

Contributor(s):Lei Li, Meina Lu, Lidong Guo, Xuejiao Zhang, Qun Liu et al.

Submitter:郭立东(Lidong Guo),BGI

Release date:2024-01-15

Updated:2024-06-24