ArticleProceedings of the National Academy of Sciences of the United States of America2008
Partitioned expression of duplicated genes during development and evolution of a single cell in a polyploid plant.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 65 papers, 1 of them a synthesis that pooled it.
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Who cites it
65 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
- Diploid- and tetraploid wall barley exhibit alternative molecular responses but comparable reproductive performance in response to different ambient temperature regimes.The Plant journal : for cell and molecular biology · 2026Article
- Evolutionary diversification of theFrontiers in plant science · 2026Article
- Evolutionary and functional diversification of the DOG gene family in wheat (Triticum aestivum L.) and their roles in seed dormancy.BMC genomics · 2025Article
- Phylogenetic relationships and the identification of allopolyploidy in circumpolar Silene sect. Physolychnis.American journal of botany · 2025Article
- Epigenomic and 3D genomic mapping reveals developmental dynamics and subgenomic asymmetry of transcriptional regulatory architecture in allotetraploid cotton.Nature communications · 2024Article
- Cold stress induces differential gene expression of retained homeologs inFrontiers in plant science · 2023Article
- Article
- A transcriptomic-guided strategy used in identification of a wheat rust pathogen target and modification of the target enhanced host resistance to rust pathogens.Frontiers in plant science · 2022Article
- Explore the gene network regulating the composition of fatty acids in cottonseed.BMC plant biology · 2021Article
- Parental legacy and regulatory novelty inNAR genomics and bioinformatics · 2020Article
- Conservation and Divergence in Duplicated Fiber Coexpression Networks Accompanying Domestication of the PolyploidG3 (Bethesda, Md.) · 2020Article
- Genetic Analysis of the Transition from Wild to Domesticated Cotton (G3 (Bethesda, Md.) · 2020Article
- Genome-Wide Identification and Expression Profile of the SNAT Gene Family in Tobacco (Frontiers in genetics · 2020Article
- Expression Partitioning of Duplicate Genes at Single Cell Resolution inFrontiers in genetics · 2020Article
- Unraveling cis and trans regulatory evolution during cotton domestication.Nature communications · 2019Article
- Breaking Free: The Genomics of Allopolyploidy-Facilitated Niche Expansion in White Clover.The Plant cell · 2019Article
- Genetic Basis of Fiber Improvement and Decreased Stress Tolerance in Cultivated Versus Semi-Domesticated Upland Cotton.Frontiers in plant science · 2019Article
- Sequence and functional characterization of MIRNA164 promoters from Brassica shows copy number dependent regulatory diversification among homeologs.Functional & integrative genomics · 2018Article
- Differential transcript profiling alters regulatory gene expression during the development of Gossypium arboreum, G.stocksii and somatic hybrids.Scientific reports · 2017Article
5 more citing papers are in PubMed but not listed here.
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6 authors.
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No grant is acknowledged in the PubMed record.
Abstract
Polyploidy is an important driver of eukaryotic evolution, evident in many animals, fungi, and plants. One consequence of polyploidy is subfunctionalization, in which the ancestral expression profile becomes partitioned among duplicated genes (termed homoeologs). Subfunctionalization appears to be a common phenomenon insofar as it has been studied, at the scale of organs. Here, we use a high-resolution methodology to investigate the expression of thousands of pairs of homoeologs during the development of a single plant cell, using as a model the seed trichomes ("cotton fiber") of allopolyploid (containing "A" and "D" genomes) cotton (Gossypium). We demonstrate that approximately 30% of the homoeologs are significantly A- or D-biased at each of three time points studied during fiber development. Genes differentially biased toward the A or D genome belong to different biological processes, illustrating the functional partitioning of genomic contributions during cellular development. Interestingly, expression of the biased genes was shifted strongly toward the agronomically inferior D genome. Analyses of homoeologous gene expression during development of this cell showed that one-fifth of the genes exhibit changes in A/D ratios, indicating that significant alteration in duplicated gene expression is fairly frequent even at the level of development and maturation of a single cell. Comparing changes in homoeolog expression in cultivated versus wild cotton showed that most homoeolog expression bias reflects polyploidy rather than domestication. Evidence suggests, however, that domestication may increase expression bias in fibers toward the D genome, potentially implicating D-genome recruitment under human selection during domestication.
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