10x genomics single cell transcriptomics  (10X Genomics)

Journal: Advanced Science

Article Title: Cross‐Species Insights into Trophoblast Invasion During Placentation Governed by Immune‐Featured Trophoblast Cells

doi: 10.1002/advs.202407221

Figure Lengend Snippet: Decoding single‐cell transcriptome profiles during rat placentation using scRNA‐seq. A) Schematic diagram of the experimental design. The study included three critical stages of placental development in rats. The labyrinth zone (LZ) and junction zone (JZ) of rat placenta were collected. B) Uniform manifold approximation and projection (UMAP) visualization showing seven major cell types. C) UMAP visualization showing the cell cycle phase of rat placental cells. D) UMAP visualization showing the origin of placental cells at different stages. E) Line charts showing the proportion of major cell types in three stages. F) UMAP visualization showing subclusters of rat placental cell types. G) UMAP visualization showing marker gene expression in different placental trophoblast subclusters. H) Heatmap showing the top differentially expressed genes (DEGs) of trophoblast subclusters, and the GO biological process terms enriched by corresponding subcluster DEGs. I) UMAP visualization showing typical maker gene expression of trophoblast ( Krt7 ) and immune ( Ptprc ) cell in clustered trophoblast subclusters. J,K) UMAP visualization showing the results of iTrophoblast integration with trophoblast and immune cell subclusters, and the corresponding average expression levels of trophoblast and immune cell marker genes. L) Immunostainings of Krt7 and Cd45 (Ptprc) protein in E15.5 rat placenta. M) Hierarchical clustering of iTrophoblast, trophoblast and immune cell subclusters. N) Violin plot showing the expression of top DEGs in SC subclusters. O) GO term clustering results of SC subclusters. E0.5‐E15.5, embryonic day 0.5 until 15.5; SC, stromal cell; EC, endothelial cell; Blood P., blood progenitor cells; Ery., erythrocyte; VE, visceral endoderm; TrPC, trophoblast progenitor cell; LaTP, labyrinth trophoblast progenitor cell; SpT, spongiotrophoblast; TGC, trophoblast giant cell; iTrophoblast, immune‐featured trophoblast cell; iSC, immune‐featured stromal cell; SMC, smooth muscle cell; IPC, immune progenitor cell; HBC, hofbauer cell; DC, dendritic cell; NK Cell, natural killer cell; EPC, endothelial progenitor cell; EndMT Cell, endothelial to mesenchymal transition cell.

Article Snippet: [ ] For our 10X Genomics single‐cell transcriptome of placental cells, a total of 13515 homologous genes in rats and pigs were identified for subsequent analysis (Figure ).

Techniques: Marker, Gene Expression, Expressing

Journal: Advanced Science

Article Title: Cross‐Species Insights into Trophoblast Invasion During Placentation Governed by Immune‐Featured Trophoblast Cells

doi: 10.1002/advs.202407221

Figure Lengend Snippet: Constructing of the single‐cell transcriptome atlas during early placentation in pigs. A) Schematic diagram of experimental design. The study included four different stages of early placentation in pigs. B) UMAP visualization showing seven major cell types of pig placenta. C) UMAP visualization showing the cell cycle phase. D) UMAP visualization showing the origin of placental cells at different stages. E) UMAP visualization showing subclusters of pig placental cell types. F) Stacked bar plot showing the proportion of each trophoblast subcluster in four stages. G) UMAP visualization showing marker gene expression in different placental trophoblast subclusters. H) Heatmap showing the top DEGs of trophoblast subclusters and the enriched GO terms by corresponding DEGs. I) Dot plot showing the expression of top DEGs in SC subclusters. J) GO term clustering results of SC subclusters. K) Dot plot showing the top DEGs in immune cell subclusters, and the heatmap showing the enriched GO terms. L) UMAP visualization showing typical maker gene expression of immune ( PTPRC ) and stromal ( HAND2 ) cell in clustered immune cell subclusters. M,N) UMAP visualization showing the results of iSC integration with immune cell and SC subclusters, and the corresponding average expression levels of immune cell and SC marker genes. O) Hierarchical clustering of iSC, SC and immune cell subclusters. P0‐P28, day 0 to 28 of pregnancy.

Article Snippet: [ ] For our 10X Genomics single‐cell transcriptome of placental cells, a total of 13515 homologous genes in rats and pigs were identified for subsequent analysis (Figure ).

Techniques: Marker, Gene Expression, Expressing