Duplication of an upstream silencer of FZP increases grain yield in rice

Nature Plants
Xufeng BaiYongzhong Xing

Abstract

Transcriptional silencer and copy number variants (CNVs) are associated with gene expression. However, their roles in generating phenotypes have not been well studied. Here we identified a rice quantitative trait locus, SGDP7 (Small Grain and Dense Panicle 7). SGDP7 is identical to FZP (FRIZZY PANICLE), which represses the formation of axillary meristems. The causal mutation of SGDP7 is an 18-bp fragment, named CNV-18bp, which was inserted ~5.3 kb upstream of FZP and resulted in a tandem duplication in the cultivar Chuan 7. The CNV-18bp duplication repressed FZP expression, prolonged the panicle branching period and increased grain yield by more than 15% through substantially increasing the number of spikelets per panicle (SPP) and slightly decreasing the 1,000-grain weight (TGW). The transcription repressor OsBZR1 binds the CGTG motifs in CNV-18bp and thereby represses FZP expression, indicating that CNV-18bp is the upstream silencer of FZP. These findings showed that the silencer CNVs coordinate a trade-off between SPP and TGW by fine-tuning FZP expression, and balancing the trade-off could enhance yield potential.

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Citations

Aug 14, 2018·The Plant Journal : for Cell and Molecular Biology·Yongyu HuangZuofeng Zhu
Nov 12, 2018·Journal of Integrative Plant Biology·Pan LiXin-Guang Zhu
Oct 12, 2018·Journal of Integrative Plant Biology·Yong HuangYongzhong Xing
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Oct 16, 2021·Physiologia Plantarum·Pratibha GourSaurabh Raghuvanshi

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Methods Mentioned

BETA
transgenic
RNA-seq
PCR
one-hybrid
electrophoretic mobility shift assay
immunoprecipitation
scanning electron microscopy
RNA Assay
Assay
ChIP

Software Mentioned

DnaSP
SEQUENCHER

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