Identification of Key Genes for the Ultrahigh Yield of Rice Using Dynamic Cross-tissue Network Analysis

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	Identification of Key Genes for the Ultrahigh Yield of Rice Using Dynamic Cross-tissue Network Analysis
	Hu, Jihong; Zeng, Tao; Xia, Qiongmei; Huang, Liyu; Zhang, Yesheng; Zhang, Chuanchao; Zeng, Yan; Liu, Hui; Zhang, Shilai; Huang, Guangfu; Wan, Wenting; Ding, Yi; Hu, Fengyi; Yang, Congdang; Chen, Luonan; Wang, Wen
	2020
发表期刊	GENOMICS PROTEOMICS & BIOINFORMATICS
ISSN	1672-0229
卷号	18 期号:3 页码:256-270
摘要	Significantly increasing crop yield is a major and worldwide challenge for food supply and security. It is well-known that rice cultivated at Taoyuan in Yunnan of China can produce the highest yield worldwide. Yet, the gene regulatory mechanism underpinning this ultrahigh yield has been a mystery. Here, we systematically collected the transcriptome data for seven key tissues at different developmental stages using rice cultivated both at Taoyuan as the case group and at another regular rice planting place Jinghong as the control group. We identified the top 24 candidate high-yield genes with their network modules from these well-designed datasets by developing a novel computational systems biology method, i.e., dynamic cross-tissue (DCT) network analysis. We used one of the candidate genes, OsSPL4, whose function was previously unknown, for gene editing experimental validation of the high yield, and confirmed that OsSPL4 significantly affects panicle branching and increases the rice yield. This study, which included extensive field phenotyping, cross-tissue systems biology analyses, and functional validation, uncovered the key genes and gene regulatory networks underpinning the ultrahigh yield of rice. The DCT method could be applied to other plant or animal systems if different phenotypes under various environments with the common genome sequences of the examined sample. DCT can be downloaded from https://github.com/zt-pub DCT.
收录类别	sci
语种	英语
文献类型	期刊论文
条目标识符	http://ir.kiz.ac.cn/handle/152453/12818
专题	基因起源组
推荐引用方式 GB/T 7714	Hu, Jihong,Zeng, Tao,Xia, Qiongmei,et al. Identification of Key Genes for the Ultrahigh Yield of Rice Using Dynamic Cross-tissue Network Analysis[J]. GENOMICS PROTEOMICS & BIOINFORMATICS,2020,18(3):256-270.
APA	Hu, Jihong.,Zeng, Tao.,Xia, Qiongmei.,Huang, Liyu.,Zhang, Yesheng.,...&Wang, Wen.(2020).Identification of Key Genes for the Ultrahigh Yield of Rice Using Dynamic Cross-tissue Network Analysis.GENOMICS PROTEOMICS & BIOINFORMATICS,18(3),256-270.
MLA	Hu, Jihong,et al."Identification of Key Genes for the Ultrahigh Yield of Rice Using Dynamic Cross-tissue Network Analysis".GENOMICS PROTEOMICS & BIOINFORMATICS 18.3(2020):256-270.

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2021102515.pdf（4633KB）	期刊论文	出版稿	开放获取	CC BY-NC-SA	请求全文