ArticlePlant physiology2016
Evolutionary Fates and Dynamic Functionalization of Young Duplicate Genes in Arabidopsis Genomes.
Article in Plant physiology, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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Who cites it
16 citing papers in PubMed, 37 citations in OpenAlex.
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- Epigenetic diversity of genes with copy number variations among natural populations of the three-spined stickleback.Evolutionary applications · 2024Article
- Genomic decoding of Theobroma grandiflorum (cupuassu) at chromosomal scale: evolutionary insights for horticultural innovation.GigaScience · 2024Article
- New genes on the block: Neofunctionalization of tandem duplicate genes with putative new functions in Arabidopsis.Plant physiology · 2023Article
- Functional Heterogeneity of the Young and Old Duplicate Genes in Tung Tree (Frontiers in plant science · 2022Article
- New Genes Interacted With Recent Whole-Genome Duplicates in the Fast Stem Growth of Bamboos.Molecular biology and evolution · 2021Article
- Formation and diversification of a paradigm biosynthetic gene cluster in plants.Nature communications · 2020Article
- A genome-wide survey of copy number variations reveals an asymmetric evolution of duplicated genes in rice.BMC biology · 2020Article
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- Genome-Wide Identification and Comparative Analysis ofFrontiers in genetics · 2020Article
- Evolutionary balance between LRR domain loss and young NBS-LRR genes production governs disease resistance in Arachis hypogaea cv. Tifrunner.BMC genomics · 2019Article
- Old and young duplicate genes reveal different responses to environmental changes in Arachis duranensis.Molecular genetics and genomics : MGG · 2019Article
- Recent emergence and extinction of the protection of telomeres 1c gene in Arabidopsis thaliana.Plant cell reports · 2019Article
- Article
- Landscape of gene transposition-duplication within the Brassicaceae family.DNA research : an international journal for rapid publication of reports on genes and genomes · 2019Article
- Massive expansion and differential evolution of small heat shock proteins with wheat (Triticum aestivum L.) polyploidization.Scientific reports · 2017Article
Corrections and comments
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Authors and funding
4 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Gene duplication is a primary means to generate genomic novelties, playing an essential role in speciation and adaptation. Particularly in plants, a high abundance of duplicate genes has been maintained for significantly long periods of evolutionary time. To address the manner in which young duplicate genes were derived primarily from small-scale gene duplication and preserved in plant genomes and to determine the underlying driving mechanisms, we generated transcriptomes to produce the expression profiles of five tissues in Arabidopsis thaliana and the closely related species Arabidopsis lyrata and Capsella rubella Based on the quantitative analysis metrics, we investigated the evolutionary processes of young duplicate genes in Arabidopsis. We determined that conservation, neofunctionalization, and specialization are three main evolutionary processes for Arabidopsis young duplicate genes. We explicitly demonstrated the dynamic functionalization of duplicate genes along the evolutionary time scale. Upon origination, duplicates tend to maintain their ancestral functions; but as they survive longer, they might be likely to develop distinct and novel functions. The temporal evolutionary processes and functionalization of plant duplicate genes are associated with their ancestral functions, dynamic DNA methylation levels, and histone modification abundances. Furthermore, duplicate genes tend to be initially expressed in pollen and then to gain more interaction partners over time. Altogether, our study provides novel insights into the dynamic retention processes of young duplicate genes in plant genomes.
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