3D chromatin structures associated with ncRNA roX2 for hyperactivation and coactivation across the entire X chromosome

Tian, Simon Zhongyuan1,2; Yang, Yang1,2; Ning, Duo1,2; Fang, Ke3; Jing, Kai1,2; Huang, Guangyu2; Xu, Yewen1,2; Yin, Pengfei2; Huang, Haibo4; Chen, Gengzhan2; Deng, Yuqing2; Zhang, Shaohong2; Zhang, Zhimin2; Chen, Zhenxia5; Gao, Tong2; Chen, Wei1,2; Li, Guoliang6; Tian, Ruilin7,8; Ruan, Yijun9; Li, Yiming3; Zheng, Meizhen1,2

2024-07-26

10.1126/sciadv.ado5716

Science Advances   影响因子和分区

2375-2548

Copyright © 2024 The Authors, some rights reserved;

SCI ; EI

英语

第一 ; 共同第一 ; 通讯

We thank Q. Hu, Y. Hu, Z. Wu, D. Zhu, and X. Shen for the discussions. This work was supported by National Key R&D Program of China (2022YFC3400400 and 2022YFC3400401 to M.Z.), National Natural Science Foundation of China (32170644 to M.Z., 62375116 to Y.L., 32250710678 to Y.R.), Shenzhen Science and Technology Program (JCYJ20220530115211026 to M.Z. and JCYJ20220818100416036 and KQTD20200820113012029 to Y.L.), Shenzhen Innovation Committee of Science and Technology (ZDSYS20200811144002008 to W.C.), Guangdong Basic and Applied Basic Research Foundation (2023A1515011231 to M.Z. and 2022A1515011174 to K.F.), Key Technology Research and Development Program of Shandong (2021CXGC010212 to Y.L.), and Shenzhen Medical Research Fund (B2302038 to Y.L.)Acknowledgments: We thank Q. hu, Y. hu, Z. Wu, d. Zhu, and X. Shen for the discussions. Funding: This work was supported by national Key R&d Program of china (2022YFc3400400 and 2022YFc3400401 to M.Z.), national natural Science Foundation of china (32170644 to M.Z., 62375116 to Y.l., 32250710678 to Y.R.), Shenzhen Science and Technology Program (JcYJ20220530115211026 to M.Z. and JcYJ20220818100416036 and KQTd20200820113012029 to Y.l.), Shenzhen innovation committee of Science and Technology (ZdSYS20200811144002008 to W.c.), Guangdong Basic and Applied Basic Research Foundation (2023A1515011231 to M.Z. and 2022A1515011174 to K.F.), Key Technology Research and development Program of Shandong (2021cXGc010212 to Y.l.), and Shenzhen Medical Research Fund (B2302038 to Y.l.) Author contributions: M.Z. and S.Z.T. conceptualized the Rdd and singlecell multiomics strategy and designed the studies. M.Z. implemented the Rdd and singlecell multiomics protocols and conducted experiments with input from Y.Y., d.n., Y.X., and h.h. d.n. carried out RnAPii chiAPeT experiments with input from Y.X., G.c., T.G., and G.h. M.Z. and S.Z.T. conceived the exodnA strategy. Y.Y. carried out the experiments. M.Z. conceived the superresolution STORM method for both RnAFiSh and immunostaining with antibody. K.F. and Y.Y. performed STORM experiment with input from Y.l. Y.Y. and G.c. prepared the staged embryo nuclei with the input for S.Z. S.Z.T. performed data processing and various statistical analyses with the assistance for chiPseq and RnAseq data processing from K.J., P.Y., Z.Z., and Y.d. M.Z. and S.Z.T. wrote the manuscript with input from R.T., W.c., K.F., Y.l., Z.c., G.l., and Y.R. All coauthors have read and approved the manuscript.

American Association for the Advancement of Science

20243316877566

RNA ; Scaffolds ; Stochastic Systems

Construction Equipment:405.1 ; Biological Materials And Tissue Engineering:461.2 ; Biology:461.9 ; Control Systems:731.1 ; Systems Science:961

EV Compendex

1.Shenzhen Key Laboratory of Gene Regulation and Systems Biology, School of Life Sciences, Southern University of Science and Technology, Guangdong, Shenzhen; 518055, China
2.Department of Systems Biology, School of Life Sciences, Southern University of Science and Technology, Guangdong, Shenzhen; 518055, China
3.Department of Biomedical Engineering, Southern University of Science and Technology, Guangdong, Shenzhen; 518055, China
4.Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Guangdong, Shenzhen; 518000, China
5.Hubei Hongshan Laboratory, College of Life Science and Technology, College of Biomedicine and Health, Interdisciplinary Sciences Institute, Huazhong Agricultural University, Hubei, Wuhan; 430070, China
6.Agricultural Bioinformatics Key Laboratory of Hubei Province, Hubei Engineering Technology Research Center of Agricultural Big Data, 3D Genomics Research Center, College of Informatics, Huazhong Agricultural University, Hubei, Wuhan; 430070, China
7.Department of Medical Neuroscience, School of Medicine, Southern University of Science and Technology, Guangdong, Shenzhen; 518055, China
8.Key University Laboratory of Metabolism and Health of Guangdong, Southern University of Science and Technology, Guangdong, Shenzhen; 518055, China
9.Life Sciences Institute, Zhejiang University, Zhejiang, Hangzhou; 310058, China

Tian, Simon Zhongyuan,Yang, Yang,Ning, Duo,et al. 3D chromatin structures associated with ncRNA roX2 for hyperactivation and coactivation across the entire X chromosome[J]. Science Advances,2024,10.

Tian, Simon Zhongyuan.,Yang, Yang.,Ning, Duo.,Fang, Ke.,Jing, Kai.,...&Zheng, Meizhen.(2024).3D chromatin structures associated with ncRNA roX2 for hyperactivation and coactivation across the entire X chromosome.Science Advances,10.

Tian, Simon Zhongyuan,et al."3D chromatin structures associated with ncRNA roX2 for hyperactivation and coactivation across the entire X chromosome".Science Advances 10(2024).