| Accession |
PRJCA003261 |
| Title |
Single-Cell Transcriptome Atlas and Chromatin Accessibility Landscape Reveal Differentiation Trajectories in the Rice Root |
| Relevance |
Agricultural |
| Data types |
Transcriptome or Gene expression
Raw sequence reads
|
| Organisms |
Oryza sativa
|
| Description |
The root system exerts essential functions in anchoring and absorbing water and nutrition. The function of the plant root relies on interactions and coordination among distinct cell types. Dissection of the developmental trajectories and transcriptional networks that underlie cellular attributes and contributions is therefore crucial for future crop design. Here, we perform single-cell RNA sequencing and chromatin accessibility survey of rice radicles. We identify gene signatures, marker genes and specific biological processes for major cell types of rice root tip. We reconstruct differentiation trajectories of root epidermal cells and ground tissues, and infer regulatory networks underlying cell fate determination. Inter-species comparison further reveals conserved and divergent root developmental pathways between dicots and monocots. Moreover, combination of scRNA-seq dataset and genome-editing tool enable us to identify novel rice root mutant with high accuracy. Our study provides a comprehensive transcriptomic landscape of rice root at single-cell resolution and offers a general framework for functional studies of root genes in rice. |
| Sample scope |
Single cell |
| Release date |
2021-05-06 |
| Grants |
| Agency |
program |
Grant ID |
Grant title |
| National Natural Science Foundation of China (NSFC)
|
Major Program
|
31788103
|
|
| National Natural Science Foundation of China (NSFC)
|
Major Program
|
31525004
|
|
| Chinese Academy of Sciences (CAS)
|
Strategic Priority Research Program of Chinese Academy of Sciences (CAS)
|
XDB27030101
|
|
| Chinese Academy of Sciences (CAS)
|
|
QYZDBSSWSMC002
|
|
| Young Elite Scientists Sponsorship Program by CAST
|
|
2016QNRC001
|
|
| National Postdoctoral Program for Innovative Talents
|
|
BX201600178
|
|
|
|
| Submitter |
tianqi
zhang (tianqizhang@yeah.net)
|
| Organization |
Institute of Plant Physiology & Ecology, Chinese Academy of Sciences |
| Submission date |
2020-08-15 |
