Multiome in the Same Cell Reveals the Impact of Osmotic Stress on Arabidopsis Root Tip Development at Single-Cell Level.

Autor:	Liu Q; State Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory of Vegetable Germplasm Innovation and Utilization of Hebei, Ministry of Education of China-Hebei Province Joint Innovation Center for Efficient Green Vegetable Industry, International Joint R & D Center of Hebei Province in Modern Agricultural Biotechnology, College of Life Sciences, College of Horticulture, Hebei Agricultural University, Baoding, 071000, China., Ma W; State Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory of Vegetable Germplasm Innovation and Utilization of Hebei, Ministry of Education of China-Hebei Province Joint Innovation Center for Efficient Green Vegetable Industry, International Joint R & D Center of Hebei Province in Modern Agricultural Biotechnology, College of Life Sciences, College of Horticulture, Hebei Agricultural University, Baoding, 071000, China., Chen R; BGI Research, Beijing, 102601, China.; BGI Research, Shenzhen, 518083, China.; College of Life Sciences, University of Chinese Academy of Sciences, Beijing, 100049, China., Li ST; Glbizzia Biosciences, Beijing, 102609, China., Wang Q; State Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory of Vegetable Germplasm Innovation and Utilization of Hebei, Ministry of Education of China-Hebei Province Joint Innovation Center for Efficient Green Vegetable Industry, International Joint R & D Center of Hebei Province in Modern Agricultural Biotechnology, College of Life Sciences, College of Horticulture, Hebei Agricultural University, Baoding, 071000, China., Wei C; BGI Research, Beijing, 102601, China., Hong Y; State Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory of Vegetable Germplasm Innovation and Utilization of Hebei, Ministry of Education of China-Hebei Province Joint Innovation Center for Efficient Green Vegetable Industry, International Joint R & D Center of Hebei Province in Modern Agricultural Biotechnology, College of Life Sciences, College of Horticulture, Hebei Agricultural University, Baoding, 071000, China.; School of Life Sciences, University of Warwick, Coventry, CV4 7AL, UK., Sun HX; BGI Research, Beijing, 102601, China.; BGI Research, Shenzhen, 518083, China.; College of Life Sciences, University of Chinese Academy of Sciences, Beijing, 100049, China., Cheng Q; State Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory of Vegetable Germplasm Innovation and Utilization of Hebei, Ministry of Education of China-Hebei Province Joint Innovation Center for Efficient Green Vegetable Industry, International Joint R & D Center of Hebei Province in Modern Agricultural Biotechnology, College of Life Sciences, College of Horticulture, Hebei Agricultural University, Baoding, 071000, China., Zhao J; State Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory of Vegetable Germplasm Innovation and Utilization of Hebei, Ministry of Education of China-Hebei Province Joint Innovation Center for Efficient Green Vegetable Industry, International Joint R & D Center of Hebei Province in Modern Agricultural Biotechnology, College of Life Sciences, College of Horticulture, Hebei Agricultural University, Baoding, 071000, China., Kang J; BGI Research, Beijing, 102601, China.; BGI Research, Shenzhen, 518083, China.
Jazyk:	angličtina
Zdroj:	Advanced science (Weinheim, Baden-Wurttemberg, Germany) [Adv Sci (Weinh)] 2024 Jun; Vol. 11 (24), pp. e2308384. Date of Electronic Publication: 2024 Apr 18.
DOI:	10.1002/advs.202308384
Abstrakt:	Cell-specific transcriptional regulatory networks (TRNs) play vital roles in plant development and response to environmental stresses. However, traditional single-cell mono-omics techniques are unable to directly capture the relationships and dynamics between different layers of molecular information within the same cells. While advanced algorithm facilitates merging scRNA-seq and scATAC-seq datasets, accurate data integration remains a challenge, particularly when investigating cell-type-specific TRNs. By examining gene expression and chromatin accessibility simultaneously in 16,670 Arabidopsis root tip nuclei, the TRNs are reconstructed that govern root tip development under osmotic stress. In contrast to commonly used computational integration at cell-type level, 12,968 peak-to-gene linkage is captured at the bona fide single-cell level and construct TRNs at an unprecedented resolution. Furthermore, the unprecedented datasets allow to more accurately reconstruct the coordinated changes of gene expression and chromatin states during cellular state transition. During root tip development, chromatin accessibility of initial cells precedes gene expression, suggesting that changes in chromatin accessibility may prime cells for subsequent differentiation steps. Pseudo-time trajectory analysis reveal that osmotic stress can shift the functional differentiation of trichoblast. Candidate stress-related gene-linked cis-regulatory elements (gl-cCREs) as well as potential target genes are also identified, and uncovered large cellular heterogeneity under osmotic stress. (© 2024 The Authors. Advanced Science published by Wiley‐VCH GmbH.)
Databáze:	MEDLINE
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