A rice single cell transcriptomic atlas defines the developmental trajectories of rice floret and inflorescence meristems

Summary Rice inflorescence development determines yield and relies on the activity of axillary meristems (AMs); however, high‐resolution analysis of its early development is lacking. Here, we have used high‐throughput single‐cell RNA sequencing to profile 37 571 rice inflorescence cells and construc...

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Bibliographic Details
Published in:The New phytologist 2022-04, Vol.234 (2), p.494-512
Main Authors: Zong, Jie, Wang, Li, Zhu, Lu, Bian, Lianle, Zhang, Bo, Chen, Xiaofei, Huang, Guoqiang, Zhang, Xuelian, Fan, Junyi, Cao, Liming, Coupland, George, Liang, Wanqi, Zhang, Dabing, Yuan, Zheng
Format: Article
Language:English
Subjects:
Auxins
axillary meristem
Cell differentiation
Differentiation
differentiation trajectory
Fluorescent indicators
Gene expression
Gene Expression Regulation, Plant
Gene sequencing
Genomes
Hybridization
Inflorescence
Meristem - metabolism
Meristems
Oryza - metabolism
Plant Proteins - genetics
Plant Proteins - metabolism
Rice
rice inflorescence
RNA sequencing
scRNA‐seq
spikelet
Transcription
Transcriptome - genetics
Transcriptomics
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Summary:Summary Rice inflorescence development determines yield and relies on the activity of axillary meristems (AMs); however, high‐resolution analysis of its early development is lacking. Here, we have used high‐throughput single‐cell RNA sequencing to profile 37 571 rice inflorescence cells and constructed a genome‐scale gene expression resource covering the inflorescence‐to‐floret transition during early reproductive development. The differentiation trajectories of florets and AMs were reconstructed, and discrete cell types and groups of regulators in the highly heterogeneous young inflorescence were identified and then validated by in situ hybridization and with fluorescent marker lines. Our data demonstrate that a WOX transcription factor, DWARF TILLER1, regulates flower meristem activity, and provide evidence for the role of auxin in rice inflorescence branching by exploring the expression and biological role of the auxin importer OsAUX1. Our comprehensive transcriptomic atlas of early rice inflorescence development, supported by genetic evidence, provides single‐cell‐level insights into AM differentiation and floret development.
ISSN:0028-646X
1469-8137
DOI:10.1111/nph.18008