Okinawa Institute of Science and Technology Graduate University, Onna, Okinawa, 904-0495, Japan.
European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, United Kingdom.
Sci Rep. 2020 Mar 18;10(1):4961. doi: 10.1038/s41598-020-61591-1.
Single-cell RNA-seq has been established as a reliable and accessible technique enabling new types of analyses, such as identifying cell types and studying spatial and temporal gene expression variation and change at single-cell resolution. Recently, single-cell RNA-seq has been applied to developing embryos, which offers great potential for finding and characterising genes controlling the course of development along with their expression patterns. In this study, we applied single-cell RNA-seq to the 16-cell stage of the Ciona embryo, a marine chordate and performed a computational search for cell-specific gene expression patterns. We recovered many known expression patterns from our single-cell RNA-seq data and despite extensive previous screens, we succeeded in finding new cell-specific patterns, which we validated by in situ and single-cell qPCR.
单细胞 RNA 测序已经成为一种可靠且易于使用的技术，能够进行新型分析，例如鉴定细胞类型，研究空间和时间基因表达的变化，并以单细胞分辨率进行研究。最近，单细胞 RNA 测序已应用于发育中的胚胎，这为发现和描述控制发育过程的基因及其表达模式提供了巨大的潜力。在这项研究中，我们将单细胞 RNA 测序应用于海鞘胚胎的 16 细胞阶段，海鞘是一种海洋脊索动物，并进行了计算搜索以寻找细胞特异性基因表达模式。我们从单细胞 RNA 测序数据中恢复了许多已知的表达模式，尽管之前进行了广泛的筛选，但我们成功地找到了新的细胞特异性模式，并通过原位杂交和单细胞 qPCR 进行了验证。
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