Journal
MOLECULAR PLANT
Volume 12, Issue 5, Pages 648-660Publisher
CELL PRESS
DOI: 10.1016/j.molp.2019.04.004
Keywords
Arabidopsis; root; scRNA-seq; cell atlas; differentiation trajectory; meristem
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Funding
- State Key Basic Research Program of China [2013CB127000]
- National Natural Science Foundation of China [31430013, 31222029, 912173023, 31525004]
- Strategic Priority Research Program of the Chinese Academy of Sciences [XDB27030101]
- Young Elite Scientists Sponsorship Program by CAST [2016QNRC001]
- National Postdoctoral Program for Innovative Talents [BX201600178]
- Sanofi-SIBS 2017 Post-doctoral Fellowship
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Cells of eukaryotic multicellular organisms have inherent heterogeneity. Recent advances in single-cell gene expression studies enable us to explore transcriptional regulation in dynamic development processes and highly heterogeneous cell populations. In this study, using a high-throughput single-cell RNA sequencing assay, we found that the cells in Arabidopsis root are highly heterogeneous in their transcriptomes. A total of 24 putative cell clusters and the cluster-specific marker genes were identified. The spatial distribution and temporal ordering of the individual cells at different developmental stages illustrate their hierarchical structures and enable the reconstruction of continuous differentiation trajectory of root development. Moreover, we found that each root cell cluster exhibits distinct patterns of ion assimilation and hormonal responses. Collectively, our study reveals a high degree of heterogeneity of root cells and identifies the expression signatures of intermediate states during root cell differentiation at single-cell resolution. We also established a web server (http://wanglab.sippe.ac.cn/rootatlas/) to facilitate the use of the datasets generated in this study.
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