Insights into the Evolution of Ohnologous Sequences and Their Epigenetic Marks Post-WGD in Malus Domestica
Abstract
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.
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BibTeX
@article{lallemand2026insights,
title = {{Insights into the Evolution of Ohnologous Sequences and Their Epigenetic Marks Post-WGD in Malus Domestica}},
author = {Tanguy Lallemand and Martin Leduc and Adèle Desmazières and Sébastien Aubourg and Carène Rizzon and Claudine Landès and Jean-Marc Celton},
journal = {Genome Biology and Evolution},
year = {2026},
month = oct,
doi = {10.1093/gbe/evad178},
url = {https://hal.science/hal-05765949v1},
note = {CC BY-NC 4.0},
}
RIS
TY - JOUR
TI - Insights into the Evolution of Ohnologous Sequences and Their Epigenetic Marks Post-WGD in Malus Domestica
AU - Tanguy Lallemand
AU - Martin Leduc
AU - Adèle Desmazières
AU - Sébastien Aubourg
AU - Carène Rizzon
AU - Claudine Landès
AU - Jean-Marc Celton
PY - 2026
DA - 2026/10/15
JO - Genome Biology and Evolution
DO - 10.1093/gbe/evad178
UR - https://hal.science/hal-05765949v1
AB - 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.
SN - 1759-6653
SN - 1759-6653
ER -