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Article Dans Une Revue Frontiers in Plant Science Année : 2022

A comprehensive map of preferentially located motifs reveals distinct proximal cis -regulatory elements in plants

Résumé

The identification of cis -regulatory elements controlling gene expression is an arduous challenge that is being actively explored to discover the key genetic factors responsible for traits of agronomic interest. Here, we have used a de novo and genome-wide approach for preferentially located motif (PLM) detection to investigate the proximal cis -regulatory landscape of Arabidopsis thaliana and Zea mays . We report three groups of PLMs in each gene-proximal region and emphasize conserved PLMs in both species, particularly in the 3’-gene-proximal region. Comparison with resources of transcription factor and microRNA binding sites indicates that 79% of the identified PLMs are unassigned, although some are supported by MNase-defined cistrome occupancy analysis. Enrichment analyses further reveal that unassigned PLMs provide functional predictions distinct from those inferred by transcription factor and microRNA binding sites. Our study provides a comprehensive map of PLMs and points at their potential utility for future characterization of orphan genes in plants.
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hal-04400803 , version 1 (20-02-2024)

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Paternité

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Julien Rozière, Cécile Guichard, Véronique Brunaud, Marie-Laure Martin, Sylvie Coursol. A comprehensive map of preferentially located motifs reveals distinct proximal cis -regulatory elements in plants. Frontiers in Plant Science, 2022, 13, pp.976371. ⟨10.3389/fpls.2022.976371⟩. ⟨hal-04400803⟩
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