Organizing your space: The potential for integrating spatial transcriptomics and 3D imaging data in plants
Organizing your space: The potential for integrating spatial transcriptomics and 3D imaging data in plants
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DOI：
10.1093/plphys/kiab508
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发表时间：
2022-02-02
期刊：
影响因子：
7.4
通讯作者：
Meyers, Blake C.
中科院分区：
文献类型：
--
作者：
Cox, Kevin L., Jr.;Gurazada, Sai Guna Ranjan;Meyers, Blake C.
植物细胞传递信息以调节发育和应对外部压力。这种通讯的一个关键形式是转录调节，通过局部和系统运行的复杂基因网络来完成。为了充分了解基因如何在植物组织和器官中受到调节，必须获取高分辨率、多维空间转录数据并将其置于细胞和有机体背景中。空间转录组学 (ST) 通常提供组织切片基因表达的二维空间分析，这些组织切片可以叠加以呈现三维数据。例如，X射线和光片显微镜提供组织、器官或可能整个生物体的细胞形态的亚微米级体积成像。将这些技术联系起来可以极大地推进植物生物学和其他领域的转录组学。在这里，我们回顾了 ST 和 3D 显微镜方法的进展，并描述了如何结合这些技术来提供高分辨率、空间组织的植物组织转录图谱。将空间转录组学与 3D 成像技术相结合可以展示基因如何在多维空间中跨植物细胞进行调控。
Plant cells communicate information for the regulation of development and responses to external stresses. A key form of this communication is transcriptional regulation, accomplished via complex gene networks operating both locally and systemically. To fully understand how genes are regulated across plant tissues and organs, high resolution, multi-dimensional spatial transcriptional data must be acquired and placed within a cellular and organismal context. Spatial transcriptomics (ST) typically provides a two-dimensional spatial analysis of gene expression of tissue sections that can be stacked to render three-dimensional data. For example, X-ray and light-sheet microscopy provide sub-micron scale volumetric imaging of cellular morphology of tissues, organs, or potentially entire organisms. Linking these technologies could substantially advance transcriptomics in plant biology and other fields. Here, we review advances in ST and 3D microscopy approaches and describe how these technologies could be combined to provide high resolution, spatially organized plant tissue transcript mapping.Combining spatial transcriptomics with 3D imaging technologies can demonstrate how genes are regulated across plant cells in a multi-dimensional space.