该课题组研究人员介绍了一个全胚胎成像平台主题多路误差-机器人荧光原位杂交（weMERFISH）。研究团队在亚细胞分辨率下量化了斑马鱼胚胎中495个基因的表达，并生成了一个在线图谱，详细描述了胚胎发生期间25872个基因的表达和294954个染色质区域的可及性。表达模式通常与组织特异性可及元件的组合相对应，表达变化与细胞成熟和形态发生一致。与实时成像的结合揭示了相似的表达模式如何通过不同的动态出现，并表明通过基因表达的变化而不是通过细胞分选形成尖锐的界限。这些结果建立了多重全胚胎空间转录组学，揭示了胚胎基因表达模式的调控和动态。
据介绍，基因表达模式是发育的基础，但它们在整个胚胎中的系统检测仍然是未知的。
附：英文原文
Title: Whole-embryo spatial transcriptomics at subcellular resolution from gastrulation to organogenesis
Author: Yinan Wan, Jakob El Kholtei, Ignatius Jenie, Mariona Colomer-Rosell, Jialin Liu, Qinghua Zhang, Joaquin Navajas Acedo, Lucia Y. Du, Mireia Codina-Tobias, Mengfan Wang, Wei Zheng, Edward Lin, Tzy-Harn Chuang, Oded Mayseless, Ahilya Sawh, Susan E. Mango, Guoqiang Yu, Bogdan Bintu, Alexander F. Schier
Issue&Volume: 2026-03-12
Abstract: Gene expression patterns underlie development, but their systematic detection in whole embryos has remained elusive. We introduce a whole-embryo imaging platform using multiplexed error-robust fluorescent in situ hybridization (weMERFISH). We quantified the expression of 495 genes in zebrafish embryos at subcellular resolution and generated an online atlas detailing the expression of 25,872 genes and accessibility of 294,954 chromatin regions during embryogenesis. Expression patterns often corresponded to composites of tissue-specific accessible elements, and expression changes aligned with cellular maturation and morphogenesis. Integration with live imaging revealed how similar expression patterns can emerge through different dynamics and showed that sharp boundaries develop through changes in gene expression rather than through cell sorting. These results establish multiplexed whole-embryo spatial transcriptomics and reveal the regulation and dynamics of embryonic gene expression patterns.
DOI: adt3439
Source: https://www.science.org/doi/10.1126/science.adt3439