Insights into the Evolution of Ohnologous Sequences and Their Epigenetic Marks Post-WGD in Malus Domestica.

Autor:	Lallemand T; Université d'Angers, Institut Agro, INRAE, IRHS, SFR QUASAV, Angers, France., Leduc M; Université d'Angers, Institut Agro, INRAE, IRHS, SFR QUASAV, Angers, France., Desmazières A; Université d'Angers, Institut Agro, INRAE, IRHS, SFR QUASAV, Angers, France., Aubourg S; Université d'Angers, Institut Agro, INRAE, IRHS, SFR QUASAV, Angers, France., Rizzon C; Laboratoire de Mathématiques et Modélisation d'Evry (LaMME), UMR CNRS 8071, ENSIIE, USC INRA, Université d'Evry Val d'Essonne, Evry, France., Landès C; Université d'Angers, Institut Agro, INRAE, IRHS, SFR QUASAV, Angers, France., Celton JM; Université d'Angers, Institut Agro, INRAE, IRHS, SFR QUASAV, Angers, France.
Jazyk:	angličtina
Zdroj:	Genome biology and evolution [Genome Biol Evol] 2023 Oct 06; Vol. 15 (10).
DOI:	10.1093/gbe/evad178
Abstrakt:	A Whole Genome Duplication (WGD) event occurred several Ma in a Rosaceae ancestor, giving rise to the Maloideae subfamily which includes today many pome fruits such as pear (Pyrus communis) and apple (Malus domestica). This complete and well-conserved genome duplication makes the apple an organism of choice to study the early evolutionary events occurring to ohnologous chromosome fragments. In this study, we investigated gene sequence evolution and expression, transposable elements (TE) density, and DNA methylation level. Overall, we identified 16,779 ohnologous gene pairs in the apple genome, confirming the relatively recent WGD. We identified several imbalances in QTL localization among duplicated chromosomal fragments and characterized various biases in genome fractionation, gene transcription, TE densities, and DNA methylation. Our results suggest a particular chromosome dominance in this autopolyploid species, a phenomenon that displays similarities with subgenome dominance that has only been described so far in allopolyploids. (© The Author(s) 2023. Published by Oxford University Press on behalf of Society for Molecular Biology and Evolution.)
Databáze:	MEDLINE
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