Spatiotemporal mapping of gene expression landscapes and developmental trajectories during zebrafish embryogenesis
| Autor: | Chang Liu, Rui Li, Young Li, Xiumei Lin, Kaichen Zhao, Qun Liu, Shuowen Wang, Xueqian Yang, Xuyang Shi, Yuting Ma, Chenyu Pei, Hui Wang, Wendai Bao, Junhou Hui, Tao Yang, Zhicheng Xu, Tingting Lai, Michael Arman Berberoglu, Sunil Kumar Sahu, Miguel A. Esteban, Kailong Ma, Guangyi Fan, Yuxiang Li, Shiping Liu, Ao Chen, Xun Xu, Zhiqiang Dong, Longqi Liu |
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| Jazyk: | angličtina |
| Rok vydání: | 2022 |
| Předmět: | |
| Zdroj: | Liu, C, Li, R, Li, Y, Lin, X, Zhao, K, Liu, Q, Wang, S, Yang, X, Shi, X, Ma, Y, Pei, C, Wang, H, Bao, W, Hui, J, Yang, T, Xu, Z, Lai, T, Berberoglu, M A, Sahu, S K, Esteban, M A, Ma, K, Fan, G, Li, Y, Liu, S, Chen, A, Xu, X, Dong, Z & Liu, L 2022, ' Spatiotemporal mapping of gene expression landscapes and developmental trajectories during zebrafish embryogenesis ', Developmental Cell, vol. 57, no. 10, pp. 1284-1298.e5 . https://doi.org/10.1016/j.devcel.2022.04.009 |
| DOI: | 10.1016/j.devcel.2022.04.009 |
| Popis: | A major challenge in understanding vertebrate embryogenesis is the lack of topographical transcriptomic information that can help correlate microenvironmental cues within the hierarchy of cell-fate decisions. Here, we employed Stereo-seq to profile 91 zebrafish embryo sections covering six critical time points during the first 24 h of development, obtaining a total of 152,977 spots at a resolution of 10 × 10 × 15 μm3 (close to cellular size) with spatial coordinates. Meanwhile, we identified spatial modules and co-varying genes for specific tissue organizations. By performing the integrated analysis of the Stereo-seq and scRNA-seq data from each time point, we reconstructed the spatially resolved developmental trajectories of cell-fate transitions and molecular changes during zebrafish embryogenesis. We further investigated the spatial distribution of ligand-receptor pairs and identified potentially important interactions during zebrafish embryo development. Our study constitutes a fundamental reference for further studies aiming to understand vertebrate development. |
| Databáze: | OpenAIRE |
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