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Haemodynamics-driven blood vessel pruning simplifies brain vasculature during development Qi Chen1, Luan Jiang1, Chun Li1, Dan Hu2, Ji-wen Bu1, Jiu-lin Du1 1. Institute of Neuroscience and State Key Laboratory of Neuroscience, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, 320 Yue-Yang Road, Shanghai 200031, China 2. Institute of Natural Sciences, Shanghai Jiaotong University, 800 Dong-Chuan Road, Shanghai 200240, China Brain blood vasculature consists of a highly ramified vessel network that is tailored for brain function. As the brain by itself does not produce vascular progenitor cells, ingression of blood vessels from surrounding peri-neural vascular plexus is required for continued development of brain vasculature. Although molecular mechanisms responsible for the vessel ingression into the brain and the formation of the blood-brain barrier are beginning to be elucidated, the process and its underlying mechanism by which the three-dimensional network of brain vasculature is established during development remain largely unknown. Here we report that the vasculature in the zebrafish midbrain undergoes haemodynamics-driven selective pruning from an initially exuberant interconnected meshwork to a simplified architecture that facilitates efficient arteriovenous blood flow. Using in vivo long-term time-lapse confocal imaging of the intact zebrafish larvae during 2.0 - 7.5 days post-fertilization, we found that the early-formed brain vasculature consisted of many vessel segments with higher order and vessel loops, and exhibited blood flow with low and various velocity. Vessel pruning preferentially occurred at segments which were mainly located at vessel loops and experienced low and various blood flow and shear stress before the initiation of pruning, and resulted in reductions of both the average segment order and loop numbers. Local blockade of blood flow with bead obstruction or two-photon laser ablation led to vessel pruning, whereas increasing blood flow by noradrenergic elevation of heartbeat impeded the pruning process. The occurrence of vessel pruning was largely predicted by haemodynamics-based numerical simulation. During pruning, endothelial cells associated with pruned segments underwent lateral migration to adjacent unpruned segments. Thus, haemodynamic changes drive the simplification of the brain vascular network by triggering endothelial cell migration-associated selective vessel pruning, a process promoting the formation of a straightway route for blood circulation and facilitating efficient arteriovenous blood flow.