ArticleThe plant genome2021
New insights into homoeologous copy number variations in the hexaploid wheat genome.
Article in The plant genome, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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Who cites it
21 citing papers in PubMed, 30 citations in OpenAlex.
- Understanding environmental adaptation in intermediate wheatgrass.The plant genome · 2026Article
- Large-scale structural variations induced by transposable elements promote population-specific divergence in Triticum turgidum ssp. dicoccoides.BMC plant biology · 2026Article
- Identification of the methionine sulfoxide reductase (MSR) gene family in four Triticum species and functional analysis of TaMSRB5 involved in copper stress tolerance in Arabidopsis thaliana.Plant molecular biology · 2026Article
- Using reciprocally retained gene families to detect whole-genome multiplications in plants.Genome biology · 2026Article
- A genome-wide association study of arabinoxylan content in flour of triticale (×Frontiers in plant science · 2026Article
- Validated reference genes for normalization of RT-qPCR in developing organs of wheat to study developmentally/spatio-temporally expressed family genes.Scientific reports · 2025Article
- A Systematic Review of the Advances and New Insights into Copy Number Variations in Plant Genomes.Plants (Basel, Switzerland) · 2025Review
- Machine Learning-Aided Optimization of In Vitro Tetraploid Induction in Cannabis.International journal of molecular sciences · 2025Article
- Unraveling Effects of miRNAs Associated with APR Leaf Rust Resistance Genes in Hybrid Forms of Common Wheat (International journal of molecular sciences · 2025Article
- Genome-Wide Identification, Classification, Expression Analysis, and Screening of Drought and Heat Resistance-Related Candidates of thePlants (Basel, Switzerland) · 2024Article
- Article
- Contribution of Duplicated Nucleotide-Binding Leucine-Rich Repeat (NLR) Genes to Wheat Disease Resistance.Plants (Basel, Switzerland) · 2023Review
- Global transcriptome analysis of allopolyploidization reveals large-scale repression of the D-subgenome in synthetic hexaploid wheat.Communications biology · 2023Article
- Transcription factor retention through multiple polyploidization steps in wheat.G3 (Bethesda, Md.) · 2022Article
- Meta-analysis reveals consensus genomic regions associated with multiple disease resistance in wheat (Molecular breeding : new strategies in plant improvement · 2022Article
- Breeding for Economically and Environmentally Sustainable Wheat Varieties: An Integrated Approach from Genomics to Selection.Biology · 2022Review
- Transposable elements are associated with genome-specific gene expression in bread wheat.Frontiers in plant science · 2022Article
- Comprehensive Genome-Wide Identification, Characterization, and Expression Analysis ofFrontiers in plant science · 2022Article
- Genome-wide identification of the jumonji C domain- containing histone demethylase gene family in wheat and their expression analysis under drought stress.Frontiers in plant science · 2022Article
- Homoeolog Inference Methods Requiring Bidirectional Best Hits or Synteny Miss Many Pairs.Genome biology and evolution · 2021Article
Corrections and comments
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Authors and funding
9 authors at 3 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Bread wheat is an allohexaploid species originating from two successive and recent rounds of hybridization between three diploid species that were very similar in terms of chromosome number, genome size, TE content, gene content and synteny. As a result, it has long been considered that most of the genes were in three pairs of homoeologous copies. However, these so-called triads represent only one half of wheat genes, while the remaining half belong to homoeologous groups with various number of copies across subgenomes. In this study, we examined and compared the distribution, conservation, function, expression and epigenetic profiles of triads with homoeologous groups having undergone a deletion (dyads) or a duplication (tetrads) in one subgenome. We show that dyads and tetrads are mostly located in distal regions and have lower expression level and breadth than triads. Moreover, they are enriched in functions related to adaptation and more associated with the repressive H3K27me3 modification. Altogether, these results suggest that triads mainly correspond to housekeeping genes and are part of the core genome, while dyads and tetrads belong to the Triticeae dispensable genome. In addition, by comparing the different categories of dyads and tetrads, we hypothesize that, unlike most of the allopolyploid species, subgenome dominance and biased fractionation are absent in hexaploid wheat. Differences observed between the three subgenomes are more likely related to two successive and ongoing waves of post-polyploid diploidization, that had impacted A and B more significantly than D, as a result of the evolutionary history of hexaploid wheat.
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