ArticleBMC biology2008
Duplicate gene expression in allopolyploid Gossypium reveals two temporally distinct phases of expression evolution.
Article in BMC biology, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 124 papers, 1 of them a synthesis that pooled it.
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Who cites it
124 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Meta-analysis of cotton fiber quality QTLs across diverse environments in a Gossypium hirsutum x G. barbadense RIL population.BMC plant biology · 2010Pooled it
- The evolution of gene expression in allopolyploid cotton relative to parental diploids and induced haploids.aBIOTECH · 2026Article
- Transcript isoforms and alternative splicing in polyploid Brassica napus under heat and cold stress.Annals of botany · 2026Article
- Whole Genome Duplication in the Genomics Era: The Hidden Gems in Invertebrates?Genome biology and evolution · 2025Review
- Differential Gene Expression and Unbalanced Homeolog Expression Bias in 4 Million-Year-Old Allopolyploids of Nicotiana Section Repandae.Genome biology and evolution · 2025Article
- Refining polyploid breeding in sweet potato through allele dosage enhancement.Nature plants · 2025Article
- Integrative analyses of long and short-read RNA sequencing reveal the spliced isoform regulatory network of seedling growth dynamics in upland cotton.Functional & integrative genomics · 2024Article
- The ancestral karyotype of the Heliantheae Alliance, herbicide resistance, and human allergens: Insights from the genomes of common and giant ragweed.The plant genome · 2024Article
- Evolutionary Dynamics of Chromatin Structure and Duplicate Gene Expression in Diploid and Allopolyploid Cotton.Molecular biology and evolution · 2024Article
- Dynamics of accessible chromatin regions and subgenome dominance in octoploid strawberry.Nature communications · 2024Article
- Unraveling the Unusual Subgenomic Organization in the Neopolyploid Free-Living Flatworm Macrostomum lignano.Molecular biology and evolution · 2023Article
- Dynamics ofProceedings of the National Academy of Sciences of the United States of America · 2023Article
- Homoeologous evolution of the allotetraploid genome of Poa annua L.BMC genomics · 2023Article
- Domestication over Speciation in Allopolyploid Cotton Species: A Stronger Transcriptomic Pull.Genes · 2023Article
- Transcriptome Analysis Reveals a Major Gene Expression Pattern and Important Metabolic Pathways in the Control of Heterosis in Chinese Cabbage.Plants (Basel, Switzerland) · 2023Article
- Multiple origins, one evolutionary trajectory: gradual evolution characterizes distinct lineages of allotetraploid Brachypodium.Genetics · 2023Article
- Exploring the genetic landscape of nitrogen uptake in durum wheat: genome-wide characterization and expression profiling of NPF and NRT2 gene families.Frontiers in plant science · 2023Article
- Article
- Homoeolog gene expression analysis reveals novel expression biases in upland hybrid cotton under intraspecific hybridization.Functional & integrative genomics · 2022Article
- The multiple fates of gene duplications: Deletion, hypofunctionalization, subfunctionalization, neofunctionalization, dosage balance constraints, and neutral variation.The Plant cell · 2022Article
64 more citing papers are in PubMed but not listed here.
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4 authors.
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No grant is acknowledged in the PubMed record.
Abstract
backgroundPolyploidy has played a prominent role in shaping the genomic architecture of the angiosperms. Through allopolyploidization, several modern Gossypium (cotton) species contain two divergent, although largely redundant genomes. Owing to this redundancy, these genomes can play host to an array of evolutionary processes that act on duplicate genes.
resultsWe compared homoeolog (genes duplicated by polyploidy) contributions to the transcriptome of a natural allopolyploid and a synthetic interspecific F1 hybrid, both derived from a merger between diploid species from the Gossypium A-genome and D-genome groups. Relative levels of A- and D-genome contributions to the petal transcriptome were determined for 1,383 gene pairs. This comparison permitted partitioning of homoeolog expression biases into those arising from genomic merger and those resulting from polyploidy. Within allopolyploid Gossypium, approximately 24% of the genes with biased (unequal contributions from the two homoeologous copies) expression patterns are inferred to have arisen as a consequence of genomic merger, indicating that a substantial fraction of homoeolog expression biases occur instantaneously with hybridization. The remaining 76% of biased homoeologs reflect long-term evolutionary forces, such as duplicate gene neofunctionalization and subfunctionalization. Finally, we observed a greater number of genes biased toward the paternal D-genome and that expression biases have tended to increases during allopolyploid evolution.
conclusionOur results indicate that allopolyploidization entails significant homoeolog expression modulation, both immediately as a consequence of genomic merger, and secondarily as a result of long-term evolutionary transformations in duplicate gene expression.
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