Molecular mechanisms underlying gene regulatory variation of maize metabolic traits

文献类型： 外文期刊

第一作者： Chu, Yi-Hsuan

作者： Chu, Yi-Hsuan;Lee, Yun Sun;Gomez-Cano, Fabio;Gomez-Cano, Lina;Grotewold, Erich;Zhou, Peng;Springer, Nathan;Doseff, Andrea, I;Doseff, Andrea, I;Zhou, Peng

作者机构：

期刊名称：PLANT CELL （ 影响因子：10.0； 五年影响因子：11.1 ）

ISSN： 1040-4651

年卷期： 2024 年

页码：

收录情况： SCI

摘要： Variation in gene expression levels is pervasive among individuals and races or varieties, and has substantial agronomic consequences, for example, by contributing to hybrid vigor. Gene expression level variation results from mutations in regulatory sequences (cis) and/or transcription factor (TF) activity (trans), but the mechanisms underlying cis- and/or trans-regulatory variation of complex phenotypes remain largely unknown. Here, we investigated gene expression variation mechanisms underlying the differential accumulation of the insecticidal compounds maysin and chlorogenic acid in silks of widely used maize (Zea mays) inbreds, B73 and A632. By combining transcriptomics and cistromics, we identified 1,338 silk direct targets of the maize R2R3-MYB TF Pericarp color1 (P1), consistent with it being a regulator of maysin and chlorogenic acid biosynthesis. Among these P1 targets, 464 showed allele-specific expression (ASE) between B73 and A632 silks. Allelic DNA-affinity purification sequencing identified 34 examples in which P1 allelic specific binding (ASB) correlated with cis-expression variation. From previous yeast one-hybrid studies, we identified 9 TFs potentially implicated in the control of P1 targets, with ASB to 83 out of 464 ASE genes (cis) and differential expression of 4 out of 9 TFs between B73 and A632 silks (trans). These results provide a molecular framework for understanding universal mechanisms underlying natural variation of gene expression levels, and how the regulation of metabolic diversity is established. Investigating the contrasting accumulation of phenolic metabolites between 2 maize inbred lines resulted in the identification of cis and trans components underlying variations in gene expression.

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