ArticlePloS one2011
Modes of gene duplication contribute differently to genetic novelty and redundancy, but show parallels across divergent angiosperms.
Article in PloS one, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 110 papers.
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110 citing papers in PubMed.
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- Analysis of the MYB gene family in tartary buckwheat and functional investigation of FtPinG0005108900.01 in response to drought.BMC plant biology · 2025Article
- Resolving phylogenetic conflicts in Pandanales: the dual roles of gene flow and whole-genome duplication.Frontiers in plant science · 2025Article
- Genome-Wide Identification and Expression Analysis of the Alfalfa (International journal of molecular sciences · 2024Article
- Comprehensive molecular evolutionary analysis of small heat shock proteins in five diploid Gossypium species.The plant genome · 2024Article
- Detection of colinear blocks and synteny and evolutionary analyses based on utilization of MCScanX.Nature protocols · 2024Review
- Identification, molecular evolution, codon bias, and expansion analysis of NLP transcription factor family in foxtail millet (Frontiers in genetics · 2024Article
- Comprehensive Genome-Wide Identification of the RNA-Binding Glycine-Rich Gene Family and Expression Profiling under Abiotic Stress inPlants (Basel, Switzerland) · 2023Article
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- Identification of bromelain subfamily proteases encoded in the pineapple genome.Scientific reports · 2023Article
- Whole-genome and dispersed duplication, including transposed duplication, jointly advance the evolution of TLP genes in seven representative Poaceae lineages.BMC genomics · 2023Article
- Identification, evolution and expression analyses of the whole genome-wide PEBP gene family in Brassica napus L.BMC genomic data · 2023Article
50 more citing papers are in PubMed but not listed here.
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7 authors.
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No grant is acknowledged in the PubMed record.
Abstract
backgroundBoth single gene and whole genome duplications (WGD) have recurred in angiosperm evolution. However, the evolutionary effects of different modes of gene duplication, especially regarding their contributions to genetic novelty or redundancy, have been inadequately explored.
resultsIn Arabidopsis thaliana and Oryza sativa (rice), species that deeply sample botanical diversity and for which expression data are available from a wide range of tissues and physiological conditions, we have compared expression divergence between genes duplicated by six different mechanisms (WGD, tandem, proximal, DNA based transposed, retrotransposed and dispersed), and between positional orthologs. Both neo-functionalization and genetic redundancy appear to contribute to retention of duplicate genes. Genes resulting from WGD and tandem duplications diverge slowest in both coding sequences and gene expression, and contribute most to genetic redundancy, while other duplication modes contribute more to evolutionary novelty. WGD duplicates may more frequently be retained due to dosage amplification, while inferred transposon mediated gene duplications tend to reduce gene expression levels. The extent of expression divergence between duplicates is discernibly related to duplication modes, different WGD events, amino acid divergence, and putatively neutral divergence (time), but the contribution of each factor is heterogeneous among duplication modes. Gene loss may retard inter-species expression divergence. Members of different gene families may have non-random patterns of origin that are similar in Arabidopsis and rice, suggesting the action of pan-taxon principles of molecular evolution.
conclusionGene duplication modes differ in contribution to genetic novelty and redundancy, but show some parallels in taxa separated by hundreds of millions of years of evolution.
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