Department of Neural and Behavioral Sciences, College of Medicine, The Pennsylvania State University, Hershey, PA, USA.
Department of Pathology, College of Medicine, The Pennsylvania State University, Hershey, PA, USA.
Nat Commun. 2024 Oct 21;15(1):9072. doi: 10.1038/s41467-024-53254-w.
3D brain atlases are key resources to understand the brain's spatial organization and promote interoperability across different studies. However, unlike the adult mouse brain, the lack of developing mouse brain 3D reference atlases hinders advancements in understanding brain development. Here, we present a 3D developmental common coordinate framework (DevCCF) spanning embryonic day (E)11.5, E13.5, E15.5, E18.5, and postnatal day (P)4, P14, and P56, featuring undistorted morphologically averaged atlas templates created from magnetic resonance imaging and co-registered high-resolution light sheet fluorescence microscopy templates. The DevCCF with 3D anatomical segmentations can be downloaded or explored via an interactive 3D web-visualizer. As a use case, we utilize the DevCCF to unveil GABAergic neuron emergence in embryonic brains. Moreover, we map the Allen CCFv3 and spatial transcriptome cell-type data to our stereotaxic P56 atlas. In summary, the DevCCF is an openly accessible resource for multi-study data integration to advance our understanding of brain development.
3D 脑图谱是理解大脑空间组织并促进不同研究之间互操作性的关键资源。然而，与成年小鼠大脑不同，缺乏发育中小鼠大脑的 3D 参考图谱阻碍了对大脑发育的理解。在这里，我们提出了一个跨越胚胎期 11.5 天、13.5 天、15.5 天、18.5 天以及出生后 4 天、14 天和 56 天的 3D 发育共同坐标框架（DevCCF），其特点是基于磁共振成像创建的未失真形态平均图谱模板和共注册的高分辨率光片荧光显微镜模板。具有 3D 解剖分割的 DevCCF 可以通过交互式 3D 网络可视化器下载或探索。作为一个用例，我们利用 DevCCF 揭示胚胎大脑中 GABA 能神经元的出现。此外，我们将 Allen CCFv3 和空间转录组细胞类型数据映射到我们的立体定向 P56 图谱。总之，DevCCF 是一个开放获取的资源，可用于多研究数据集成，以推进我们对大脑发育的理解。
