ArticleGenome biology and evolution2009
Paleopolyploidy in the Brassicales: analyses of the Cleome transcriptome elucidate the history of genome duplications in Arabidopsis and other Brassicales.
Article in Genome biology and evolution, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 107 papers.
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107 citing papers in PubMed, 253 citations in OpenAlex.
- Unravelling Complex Hybrid and Polyploid Evolutionary Relationships Using Phylogenetic Placement of Homologous Gene Copies from Target Enrichment Data.Systematic biology · 2026Article
- DupyliCate: mining, classifying, and characterizing gene duplications.Scientific reports · 2026Article
- Genome-Wide Analysis of the Hsf Family and Functional Characterization ofPlants (Basel, Switzerland) · 2026Article
- Genomic advances in orphan and underutilized Brassicaceae crops and their wild relatives.Frontiers in plant science · 2026Review
- Emergence of isochorismate-based salicylic acid biosynthesis within Brassicales.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- UnigeneFinder: An Automated Pipeline for Gene Calling From Transcriptome Assemblies Without a Reference Genome.Plant direct · 2025Article
- The Arabidopsis thaliana core splicing factor PORCUPINE/SmE1 requires intron-mediated expression.PloS one · 2025Article
- Divergent evolutionary paces among eudicot plants revealed by simultaneously duplicated genes produced billions of years ago.Frontiers in plant science · 2025Article
- Chromatin Accessibility and Gene Expression Vary Between a New and Evolved Autopolyploid of Arabidopsis arenosa.Molecular biology and evolution · 2024Article
- Complementing model species with model clades.The Plant cell · 2024Review
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- Unraveling the evolutionary origin of theFrontiers in molecular biosciences · 2024Article
- Evolutionary studies of the bHLH transcription factors belonging to MBW complex: their role in seed development.Annals of botany · 2023Review
- Comparative genomics, microsynteny, ancestral state reconstruction and selection pressure analysis across distinctive genomes and sub-genomes of Brassicaceae for analysis of evolutionary history ofPhysiology and molecular biology of plants : an international journal of functional plant biology · 2023Article
- A cryptic natural variant allele of BYPASS2 suppresses the bypass1 mutant phenotype.Plant physiology · 2023Article
- Dosage balance acts as a time-dependent selective barrier to subfunctionalization.BMC ecology and evolution · 2023Article
- Dynamic genome evolution in a model fern.Nature plants · 2022Article
- Evolution of the DEHYDRATION-RESPONSIVE ELEMENT-BINDING PROTEIN subfamily in green plants.Plant physiology · 2022Article
- Analysis of flavonol regulator evolution in the Brassicaceae reveals MYB12, MYB111 and MYB21 duplications and MYB11 and MYB24 gene loss.BMC genomics · 2022Article
- Whole-Genome Duplication Facilitated the Evolution of C4 Photosynthesis in Gynandropsis gynandra.Molecular biology and evolution · 2021Article
47 more citing papers are in PubMed but not listed here.
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Authors and funding
3 authors at 3 institutions in 4 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The analysis of the Arabidopsis genome revealed evidence of three ancient polyploidy events in the evolution of the Brassicaceae, but the exact phylogenetic placement of these events is still not resolved. The most recent event is called the At-alpha (alpha) or 3R, the intermediate event is referred to as the At-beta (beta) or 2R, and the oldest is the At-gamma (gamma) or 1R. It has recently been established that At-gamma is shared with other Rosids, including papaya (Carica), poplar (Populus), and grape (Vitis), whereas data to date suggest that At-alpha is Brassicaceae specific. To address more precisely when the At-alpha and At-beta events occurred and which plant lineages share these paleopolyploidizations, we sequenced and analyzed over 4,700 normalized expressed sequence tag sequences from the Cleomaceae, the sister family to the Brassicaceae. Analysis of these Cleome data with homologous sequences from other Rosid genomes (Arabidopsis, Carica, Gossypium, Populus, and Vitis) yielded three major findings: 1) confirmation of a Cleome-specific paleopolyploidization (Cs-alpha) that is independent of the Brassicaceae At-alpha paleopolyploidization; 2) Cleome and Arabidopsis share the At-beta duplication, which is lacking from papaya within the Brassicales; and 3) rates of molecular evolution are faster for the herbaceous annual taxa Arabidopsis and Cleome than the other predominantly woody perennial Rosid lineages. These findings contribute to our understanding of the dynamics of genome duplication and evolution within one of the most comprehensively surveyed clades of plants, the Rosids, and clarify the complex history of the At-alpha, At-beta, and At-gamma duplications of Arabidopsis.
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