Coregulation of ribosomal RNA with hundreds of genes contributes to phenotypic variation

Genome Research
Bo LiMingsheng Chen

Abstract

Ribosomal repeats occupy 5% of a plant genome, yet there has been little study of their diversity in the modern age of genomics. Ribosomal copy number and expression variation present an opportunity to tap a novel source of diversity. In the present study, we estimated the ribosomal DNA (rDNA) copy number and ribosomal RNA (rRNA) expression for a population of maize inbred lines and investigated the potential role of rDNA and rRNA dosage in regulating global gene expression. Extensive variation was found in both ribosomal DNA copy number and ribosomal RNA expression among maize inbred lines. However, rRNA abundance was not consistent with the copy number of the rDNA. We have not found that the rDNA gene dosage has a regulatory role in gene expression; however, thousands of genes are identified to be coregulated with rRNA expression, including genes participating in ribosome biogenesis and other functionally relevant pathways. We further investigated the potential roles of copy number and the expression level of rDNA on agronomic traits and found that both correlated with flowering time but through different regulatory mechanisms. This comprehensive analysis suggested that rRNA expression variation is a valuable source of functi...Continue Reading

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Citations

Sep 18, 2020·Annals of Botany·Min ZhangWen-Ju Zhang
Nov 16, 2020·Biomedicine & Pharmacotherapy = Biomédecine & Pharmacothérapie·Shanwei ShiBaoshan Xu
Feb 25, 2019·Trends in Genetics : TIG·Maximilian Oliver PressChristine Queitsch
Apr 23, 2021·Molecular Biology and Evolution·Kyle E McElroyMaurine Neiman

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