During the early weeks of human pregnancy, the fetal placenta implants into the uterine mucosa (decidua) where placental trophoblast cells intermingle and communicate with maternal cells. Here, we profile transcriptomes of ~50,000 single cells from this unique microenvironment, sampling matched first trimester maternal blood and decidua, and fetal cells from the placenta itself. We define the cellular composition of human decidua, revealing five distinct subsets of decidual fibroblasts with differing growth factors and hormone production profiles, and show that fibroblast states define two distinct decidual layers. Among decidual NK cells, we resolve three subsets, each with a different immunomodulatory and chemokine profile. We develop a repository of ligand-receptor pairs (www.CellPhoneDB.org) and a statistical tool to predict the probability of cell-cell interactions via these pairs, highlighting specific interactions between decidual NK cells and invading fetal extravillous trophoblast cells, maternal immune and stromal cells. Our single cell atlas of the maternal-fetal interface reveals the cellular organization and interactions critical for placentation and reproductive success.HLA molecule expressed by EVTs: HLA-C 8 . Certain combinations of (KIR) and fetal HLA-C variants are associated with pregnancy disorders such as preeclampsia, where trophoblast invasion is deficient 9 . However, the precise cellular interactions in the decidua supporting early pregnancy are poorly understood.Due to the limited prior knowledge of this tissue in early pregnancy, we employed an 35 unbiased approach to comprehensively resolve cell states involved in maternal-fetal communication at this interface. Furthermore, we aimed to decode cell-cell communication 4 networks through systematic analysis of surface receptor-ligand analysis in a quantitative manner. Single-cell RNA sequencing (scRNA-seq) allows us to identify cell populations, and the many receptors and ligands expressed by these cells. 40Molecular analysis of cell-cell communication requires a tool that takes into account the complexity of multi-subunit receptors and their ligands, and discerns the specificity of the interactions. Therefore, we combine single-cell transcriptomics with a computational framework to predict cell-type specific ligand-receptor complexes with a new database: www.CellPhoneDB.org. 45By integrating these predictions with spatial in situ analysis, we generate a detailed molecular and cellular map of the human decidua and placenta, which provides new insights into the functional organisation of the fetal-maternal interface. Our findings reveal unexpected cellular heterogeneity and interactions between fetal trophoblast cells, maternal fibroblast cells and multiple dNK cell subsets, orchestrating the support of early pregnancy. 50
Results
Analysis strategyHere, we combine high-throughput and in-depth transcriptome profiling of single cells to generate a comprehensive cellular map of the fetal-maternal interface. Cell suspension from human decidua ...