Abstract
The dysfunction of placenta development is correlated to the defects of pregnancy and fetal growth. The detailed molecular mechanism of placenta development is not identified in humans due to the lack of material in vivo. Trophoblast (TB) lineage derived from human embryonic stem cells (hESCs) induced by bone morphogenetic protein 4 (BMP4) has been applied as a model for studying TB lineage specification in vitro. With the development of single-cell sequencing technology, it became possible to detect the transcriptome of the post-implantation embryo at unprecedented precision. In this study, we reanalyzed single-cell RNA-seq of post-implantation embryos derived from two separate groups and identified different subtypes of trophoblast cells and their marker, respectively. At the same time, we focused on the gene expression patterns of trophoblast-specific transcription factors in different models. Our analysis sheds new light on the transcription regulation mechanism of trophoblast differentiation at the early stage of pregnancy establishment in human.
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Yajun Liu was supported by the “Young scientist startup grand of The Second Affiliated Hospital of Zhengzhou University” and Foundation of Henan Educational Committee (CN) (19A320044).
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ESM 1
Figure S1 (A) Similarity matrix of the different samples in the RNA-seq dataset (GEO number: GSE73017). The cells in the matrix represent the similarity between rows, where red/blue represent positive/negative similarity (measured as 1-cosine distance). (B) Similarity matrix of the different samples in the RNA-seq dataset (array express number: E-MTAB-8186, E-MTAB-8181). Figure S2 (A) Violin plots showing the expression of EPI-specific TFs (POU5F1, SOX2, NANOG) in represented cell cluster and t-SNE visualization of the expression of these genes in 5911cells. The points show cells positioned in t-SNE space, lower right, with the more intense red hue indicating higher relative expression and gray signifying no expression. (B) Violin plots and t-SNE visualization showing the expression of TE-specific TFs (JUN, FOS, TFAP2C, TBX3, and OVOL1) in represented cell cluster and t-SNE visualization of the expression of these genes in 5911cells. (C) Violin plots showing the expression of PE-specific TFs (GATA4, GATA6, SOX17) are represented cell clusters and t-SNE visualization of the expression of these genes in 5911cells. (PDF 1282 kb)
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Table S1
Transcriptional factors that are enriched in human trophoblast and ESCs.docx. (DOCX 19 kb)
Table S2
differential gene expression analysis between TE and EPI.txt. (TXT 1343 kb)
Table S3
Marker genes in each cluster after cluster by SCANPY. (TSV 27 kb)
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Liu, Y., Zhang, Y., Li, S. et al. Gene expression pattern of trophoblast-specific transcription factors in trophectoderm by analysis of single-cell RNA-seq data of human blastocyst. Funct Integr Genomics 21, 205–214 (2021). https://doi.org/10.1007/s10142-021-00770-3
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DOI: https://doi.org/10.1007/s10142-021-00770-3