Frontiers in Cell and Developmental Biology (Nov 2022)
The single-cell expression profile of transposable elements and transcription factors in human early biparental and uniparental embryonic development
- Conghui Li,
- Conghui Li,
- Conghui Li,
- Conghui Li,
- Conghui Li,
- Conghui Li,
- Yue Zhang,
- Lizhi Leng,
- Lizhi Leng,
- Lizhi Leng,
- Xiaoguang Pan,
- Xiaoguang Pan,
- Depeng Zhao,
- Xuemei Li,
- Jinrong Huang,
- Jinrong Huang,
- Jinrong Huang,
- Jinrong Huang,
- Jinrong Huang,
- Jinrong Huang,
- Lars Bolund,
- Lars Bolund,
- Lars Bolund,
- Lars Bolund,
- Lars Bolund,
- Lars Bolund,
- Ge Lin,
- Ge Lin,
- Ge Lin,
- Yonglun Luo,
- Yonglun Luo,
- Yonglun Luo,
- Yonglun Luo,
- Yonglun Luo,
- Yonglun Luo,
- Yonglun Luo,
- Fengping Xu,
- Fengping Xu,
- Fengping Xu,
- Fengping Xu,
- Fengping Xu,
- Fengping Xu
Affiliations
- Conghui Li
- College of Life Sciences, University of Chinese Academy of Sciences, Beijing, China
- Conghui Li
- BGI-Shenzhen, Beishan Industrial Zone, Shenzhen, China
- Conghui Li
- Qingdao-Europe Advanced Institute for Life Sciences, BGI-Shenzhen, Qingdao, China
- Conghui Li
- Lars Bolund Institute of Regenerative Medicine, BGI-Qingdao, BGI-Shenzhen, Qingdao, China
- Conghui Li
- China National GeneBank, BGI-Shenzhen, Shenzhen, China
- Conghui Li
- Department of Biology, University of Copenhagen, Copenhagen, Denmark
- Yue Zhang
- BGI-Qingdao, BGI-Shenzhen, Qingdao, Shandong, China
- Lizhi Leng
- Institute of Reproductive and Stem Cell Engineering, School of Basic Medical Science, Central South University, Changsha, China
- Lizhi Leng
- Key Laboratory of Reproductive and Stem Cells Engineering, Ministry of Health, Changsha, China
- Lizhi Leng
- 0Reproductive & Genetic Hospital of CITIC-Xiangya, Changsha, China
- Xiaoguang Pan
- Qingdao-Europe Advanced Institute for Life Sciences, BGI-Shenzhen, Qingdao, China
- Xiaoguang Pan
- Lars Bolund Institute of Regenerative Medicine, BGI-Qingdao, BGI-Shenzhen, Qingdao, China
- Depeng Zhao
- 1Department of Reproductive Medicine, Affiliated Shenzhen Maternity and Child Healthcare Hospital, Southern Medical University, Shenzhen, China
- Xuemei Li
- 1Department of Reproductive Medicine, Affiliated Shenzhen Maternity and Child Healthcare Hospital, Southern Medical University, Shenzhen, China
- Jinrong Huang
- College of Life Sciences, University of Chinese Academy of Sciences, Beijing, China
- Jinrong Huang
- BGI-Shenzhen, Beishan Industrial Zone, Shenzhen, China
- Jinrong Huang
- Qingdao-Europe Advanced Institute for Life Sciences, BGI-Shenzhen, Qingdao, China
- Jinrong Huang
- Lars Bolund Institute of Regenerative Medicine, BGI-Qingdao, BGI-Shenzhen, Qingdao, China
- Jinrong Huang
- China National GeneBank, BGI-Shenzhen, Shenzhen, China
- Jinrong Huang
- Department of Biology, University of Copenhagen, Copenhagen, Denmark
- Lars Bolund
- BGI-Shenzhen, Beishan Industrial Zone, Shenzhen, China
- Lars Bolund
- Qingdao-Europe Advanced Institute for Life Sciences, BGI-Shenzhen, Qingdao, China
- Lars Bolund
- Lars Bolund Institute of Regenerative Medicine, BGI-Qingdao, BGI-Shenzhen, Qingdao, China
- Lars Bolund
- China National GeneBank, BGI-Shenzhen, Shenzhen, China
- Lars Bolund
- 2Department of Biomedicine, Aarhus University, Aarhus, Denmark
- Lars Bolund
- 3Steno Diabetes Center Aarhus, Aarhus University Hospital, Aarhus, Denmark
- Ge Lin
- Institute of Reproductive and Stem Cell Engineering, School of Basic Medical Science, Central South University, Changsha, China
- Ge Lin
- Key Laboratory of Reproductive and Stem Cells Engineering, Ministry of Health, Changsha, China
- Ge Lin
- 0Reproductive & Genetic Hospital of CITIC-Xiangya, Changsha, China
- Yonglun Luo
- College of Life Sciences, University of Chinese Academy of Sciences, Beijing, China
- Yonglun Luo
- BGI-Shenzhen, Beishan Industrial Zone, Shenzhen, China
- Yonglun Luo
- Qingdao-Europe Advanced Institute for Life Sciences, BGI-Shenzhen, Qingdao, China
- Yonglun Luo
- Lars Bolund Institute of Regenerative Medicine, BGI-Qingdao, BGI-Shenzhen, Qingdao, China
- Yonglun Luo
- China National GeneBank, BGI-Shenzhen, Shenzhen, China
- Yonglun Luo
- 2Department of Biomedicine, Aarhus University, Aarhus, Denmark
- Yonglun Luo
- 3Steno Diabetes Center Aarhus, Aarhus University Hospital, Aarhus, Denmark
- Fengping Xu
- College of Life Sciences, University of Chinese Academy of Sciences, Beijing, China
- Fengping Xu
- BGI-Shenzhen, Beishan Industrial Zone, Shenzhen, China
- Fengping Xu
- Qingdao-Europe Advanced Institute for Life Sciences, BGI-Shenzhen, Qingdao, China
- Fengping Xu
- Lars Bolund Institute of Regenerative Medicine, BGI-Qingdao, BGI-Shenzhen, Qingdao, China
- Fengping Xu
- China National GeneBank, BGI-Shenzhen, Shenzhen, China
- Fengping Xu
- 4BGI Cell, BGI-Shenzhen, Shenzhen, China
- DOI
- https://doi.org/10.3389/fcell.2022.1020490
- Journal volume & issue
-
Vol. 10
Abstract
Transposable elements (TEs) and transcription factors (TFs) are involved in the precise regulation of gene expression during the preimplantation stage. Activation of TEs is a key event for mammalian embryonic genome activation and preimplantation early embryonic development. TFs are involved in the regulation of drastic changes in gene expression patterns, but an inventory of the interplay between TEs and TFs during normal/abnormal human embryonic development is still lacking. Here we used single-cell RNA sequencing data generated from biparental and uniparental embryos to perform an integrative analysis of TE and TF expression. Our results showed that endogenous retroviruses (ERVs) are mainly expressed during the minor embryonic genome activation (EGA) process of early embryos, while Alu is gradually expressed in the middle and later stages. Some important ERVs (e.g., LTR5_Hs, MLT2A1) and Alu TEs are expressed at significantly lower levels in androgenic embryos. Integrative analysis revealed that the expression of the transcription factors CTCF and POU5F1 is correlated with the differential expression of ERV TEs. Comparative coexpression network analysis further showed distinct expression levels of important TFs (e.g., LEUTX and ZSCAN5A) in dizygotic embryos vs. parthenogenetic and androgenic embryos. This systematic investigation of TE and TF expression in human early embryonic development by single-cell RNA sequencing provides valuable insights into mammalian embryonic development.
Keywords
- early embryonic development
- transposable elements
- transcriptional factors
- androgenetic embryo
- parthenogenetic embryo