Single-cell mRNA sequencing of embryonic and extra-embryonic mesoderm and extra-embryonic structures in mouse embryo during gastrulation.

We performed scRNAseq on embryonic and extra-embryonic mesoderm cells from mouse embryo at Mid/Late Streak stage (Embryonic day 7.25) as well as on Late Bud stage (Embryonic day 7.75) microdissected amnion, chorion and allantois. We used transgenic embryos (Brachyury-Cre; mTmG) in which all mesoderm cells are converted to membrane-GFP upon Cre-mediated recombination and the rest express membrane Tomato. For all the samples, we identified clusters related to the localization in the tissue or the structures. Those results provide an atlas of early stages of morphogenesis of the maternal-fetal interface. Cells enriched from embryonic mesoderm, extra-embryonic mesoderm, amnion, chorion and allantois from mouse Tcre-mTmG embryos. One replicate for each, except amnion, which has two replicates.本研究针对处于中/晚期原条阶段（胚胎第7.25天）的小鼠胚胎的胚胎及胚外中胚层细胞，以及处于晚期芽胚阶段（胚胎第7.75天）经显微解剖获取的羊膜、绒毛膜与尿囊组织，开展了单细胞RNA测序（single-cell RNA sequencing，scRNAseq）。实验采用的转基因胚胎（Brachyury-Cre; mTmG）经Cre重组酶介导的重组后，所有中胚层细胞将被标记为膜定位绿色荧光蛋白，其余细胞则表达膜定位番茄红色荧光蛋白。针对所有样本，我们鉴定出了与组织或结构定位相关的细胞簇。本研究结果构建了母胎界面早期形态发生的细胞图谱。本数据集的细胞富集自Tcre-mTmG转基因小鼠胚胎的胚胎中胚层、胚外中胚层、羊膜、绒毛膜及尿囊组织；除羊膜设置2个生物学重复外，其余各组均设置1个生物学重复。