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Variation of gene expression in plants is influenced by gene architecture and structural properties of promoters

Das, S and Bansal, M (2019) Variation of gene expression in plants is influenced by gene architecture and structural properties of promoters. In: PLoS ONE, 14 (3).

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Official URL: https://dx.doi.org/10.1371/journal.pone.0212678

Abstract

In higher eukaryotes, gene architecture and structural properties of promoters have emerged as significant factors influencing variation in number of transcripts (expression level) and specificity of gene expression in a tissue (expression breadth), which eventually shape the phenotype. In this study, transcriptome data of different tissue types at various developmental stages of A. thaliana, O. sativa, S. bicolor and Z. mays have been used to understand the relationship between properties of gene components and its expression. Our findings indicate that in plants, among all gene architecture and structural properties of promoters, compactness of genes in terms of intron content is significantly linked to gene expression level and breadth, whereas in human an exactly opposite scenario is seen. In plants, for the first time we have carried out a quantitative estimation of effect of a particular trait on expression level and breadth, by using multiple regression analysis and it confirms that intron content of primary transcript (as ) is a powerful determinant of expression breadth. Similarly, further regression analysis revealed that among structural properties of the promoters, stability is negatively linked to expression breadth, while DNase1 sensitivity strongly governs gene expression breadth in monocots and gene expression level in dicots. In addition, promoter regions of tissue specific genes are found to be enriched with TATA box and Y-patch motifs. Finally, multi copy orthologous genes in plants are found to be longer, highly regulated and tissue specific. This is an open access article, free of all copyright, and may be freely reproduced, distributed, transmitted, modified, built upon, or otherwise used by anyone for any lawful purpose. The work is made available under the Creative Commons CC0 public domain dedication.

Item Type: Journal Article
Additional Information: Copyright for this article belongs to PLoS ONE
Keywords: transcriptome, Arabidopsis thaliana; Article; controlled study; developmental stage; gene dosage; gene expression; gene expression regulation; gene structure; genetic transcription; genetic variation; intron; maize; molecular stability; nonhuman; plant development; plant gene; promoter region; quantitative trait; rice; sorghum; TATA box
Department/Centre: Division of Biological Sciences > Molecular Biophysics Unit
Depositing User: Id for Latest eprints
Date Deposited: 24 May 2019 10:51
Last Modified: 24 May 2019 10:51
URI: http://eprints.iisc.ac.in/id/eprint/62228

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