ArticlePlant biotechnology journal2021
Modelling of gene loss propensity in the pangenomes of three Brassica species suggests different mechanisms between polyploids and diploids.
Article in Plant biotechnology journal, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 46 papers.
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Who cites it
46 citing papers in PubMed, 80 citations in OpenAlex.
- European ash pangenome reveals widespread structural variation and genetic basis of low ash dieback susceptibility.Nature communications · 2026Article
- Pan-genome of wild and cultivated rice uncovers genetic diversity, lost and selected sequences during rice domestication.Rice (New York, N.Y.) · 2026Article
- Legume Pangenome Construction Using an Iterative Mapping and Assembly Approach.Methods in molecular biology (Clifton, N.J.) · 2026Article
- Developing pangenomes for large and complex plant genomes and their representation formats.Journal of advanced research · 2025Review
- The polyploid continuum and the landscape of polyploid genomic variation.American journal of botany · 2025Review
- Understanding plant phenotypes in crop breeding through explainable AI.Plant biotechnology journal · 2025Review
- WRKYs as regulatory hubs of secondary metabolic networks: Diverse inducers and distinct responses.Plant communications · 2025Review
- Core biological principles and tools stemming from basic Arabidopsis research.The Plant cell · 2025Review
- Comprehensive analysis of Brassica napus Glycosyl hydrolase family 1 genes and functional analysis of BnaBGLU27.C08 in clubroot resistance.BMC genomics · 2025Article
- Article
- Genomic Divergence Shaped the Genetic Regulation of Meiotic Homologous Recombination in Brassica Allopolyploids.Molecular biology and evolution · 2025Article
- Brassica Panache: A multi-species graph pangenome representing presence absence variation across forty-one Brassica genomes.The plant genome · 2025Article
- The developments and prospects of plant super-pangenomes: Demands, approaches, and applications.Plant communications · 2025Review
- Regional active transcription associates with homoeologous exchange breakpoints in synthetic Brassica tetraploids.Plant physiology · 2024Article
- Origin, Evolution, and Diversification of the Expansin Family in Plants.International journal of molecular sciences · 2024Article
- Recent advances in the improvement of genetic resistance against disease in vegetable crops.Plant physiology · 2024Review
- Pangenome analysis reveals transposon-driven genome evolution in cotton.BMC biology · 2024Article
- Technological Development and Advances for Constructing and Analyzing Plant Pangenomes.Genome biology and evolution · 2024Review
- Unravelling inversions: Technological advances, challenges, and potential impact on crop breeding.Plant biotechnology journal · 2024Review
- Molecular insights into self-incompatibility systems: From evolution to breeding.Plant communications · 2024Review
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Authors and funding
23 authors at 15 institutions in 9 countries.
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No grant is acknowledged in the PubMed record.
Abstract
Plant genomes demonstrate significant presence/absence variation (PAV) within a species; however, the factors that lead to this variation have not been studied systematically in Brassica across diploids and polyploids. Here, we developed pangenomes of polyploid Brassica napus and its two diploid progenitor genomes B. rapa and B. oleracea to infer how PAV may differ between diploids and polyploids. Modelling of gene loss suggests that loss propensity is primarily associated with transposable elements in the diploids while in B. napus, gene loss propensity is associated with homoeologous recombination. We use these results to gain insights into the different causes of gene loss, both in diploids and following polyploidization, and pave the way for the application of machine learning methods to understanding the underlying biological and physical causes of gene presence/absence.
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