Population-level gene expression can repeatedly link genes to functions in maize

文献类型： 外文期刊

第一作者： Torres-Rodriguez, J. Vladimir

作者： Torres-Rodriguez, J. Vladimir;Turkus, Jonathan;Davis, Jensina;Lopez-Corona, Lina;Ali, Waqar;Sun, Guangchao;Grzybowski, Marcin W.;Schnable, James C.;Torres-Rodriguez, J. Vladimir;Turkus, Jonathan;Davis, Jensina;Lopez-Corona, Lina;Ali, Waqar;Sun, Guangchao;Grzybowski, Marcin W.;Schnable, James C.;Torres-Rodriguez, J. Vladimir;Turkus, Jonathan;Davis, Jensina;Lopez-Corona, Lina;Ali, Waqar;Sun, Guangchao;Grzybowski, Marcin W.;Schnable, James C.;Li, Delin;Newton, Linsey;Thompson, Addie M.;Sun, Guangchao;Mural, Ravi V.;Grzybowski, Marcin W.;Zamft, Bradley M.;Thompson, Addie M.

作者机构：

关键词： TWAS; maize; flowering time; cross-environment; RNA-Seq

期刊名称：PLANT JOURNAL （ 影响因子：7.2； 五年影响因子：7.9 ）

ISSN： 0960-7412

年卷期： 2024 年

页码：

收录情况： SCI

摘要： Transcriptome-wide association studies (TWAS) can provide single gene resolution for candidate genes in plants, complementing genome-wide association studies (GWAS) but efforts in plants have been met with, at best, mixed success. We generated expression data from 693 maize genotypes, measured in a common field experiment, sampled over a 2-h period to minimize diurnal and environmental effects, using full-length RNA-seq to maximize the accurate estimation of transcript abundance. TWAS could identify roughly 10 times as many genes likely to play a role in flowering time regulation as GWAS conducted data from the same experiment. TWAS using mature leaf tissue identified known true-positive flowering time genes known to act in the shoot apical meristem, and trait data from a new environment enabled the identification of additional flowering time genes without the need for new expression data. eQTL analysis of TWAS-tagged genes identified at least one additional known maize flowering time gene through trans-eQTL interactions. Collectively these results suggest the gene expression resource described here can link genes to functions across different plant phenotypes expressed in a range of tissues and scored in different experiments.

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