Identification of long regulatory elements in eukaryotic genomes
19 April 2021
Long regulatory elements (LREs), such as CpG islands, polydA:dT tracts or AU-rich elements, are thought to play key roles in gene regulation but, as opposed to conventional binding sites of transcription factors, few methods have been proposed to formally and auto- matically characterize them. The CNRS interdisciplinary team, created in October 2014 and associating IGMM (INSB), LIRMM (INS2I) and IMAG (INSMI), developed a computational approach named DExTER (Domain Exploration To Explain gene Regulation) aimed at identifying candidate LREs. This method was applied to the analysis of the genomes of P. falciparum and other eukaryotes. These analyses show that all tested genomes contain several LREs that are conserved along evolution, and that gene expression can be predicted with surprisingly high accuracy on the basis of these long regions only. Regulation by LREs exhibits however very different behaviours depending on species and conditions.
Menichelli C., Guitard V., Martins R.F., Lèbre S., Lopez-Rubio JJ.*, Lecellier CH*, Bréhélin L.*. Identification of long regulatory elements in the genome of Plasmodium falciparum and other eukaryotes. PLoS Comput Biol. April 16, 2021