ArticleThe Plant cell2006
High rate of chimeric gene origination by retroposition in plant genomes.
Article in The Plant cell, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 145 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
145 citing papers in PubMed, 253 citations in OpenAlex.
- Genome-wide characterization of MADS-box genes reveals CsaSOC1 as a key regulator of flowering in Cannabis sativa L.Plant cell reports · 2026Article
- Novel insights into retrogene evolution and cold adaptation in the alpine plant Crucihimalaya himalaica (Brassicaceae).BMC biology · 2026Article
- The genetic heist: how transposable elements capture and repurpose genes in plants.Genome biology · 2026Review
- Gene retroposition and functional diversification of retrocopies in the Rhus gall aphid Schlechtendalia chinensis.BMC genomics · 2026Article
- Large-Scale Identification of Transposon Insertion Polymorphisms in Leguminous Plants from Paired-End WGS Data.Methods in molecular biology (Clifton, N.J.) · 2026Article
- Transcriptome-wide identification and systematic analysis of the Retrotransposon genes and their roles in ginsenoside biosynthesis in Panax ginseng.BMC plant biology · 2025Article
- Plant long noncoding RNAs: why do we not know more?Biological research · 2025Review
- Retand LTR-retrotransposons in plants: a long way from pol to 3'LTR.Mobile DNA · 2025Article
- Deciphering recent transposition patterns in plants through comparison of 811 genome assemblies.Plant biotechnology journal · 2025Article
- Genome assembly of Stewartia sinensis reveals origin and evolution of orphan genes in Theaceae.Communications biology · 2025Article
- Functional innovation through new genes as a general evolutionary process.Nature genetics · 2025Review
- The landscape of fusion transcripts in plants: a new insight into genome complexity.BMC plant biology · 2024Article
- Genomic exploration of retrocopies in Insect pests of plants and their role in the expansion of heat shock proteins superfamily as evolutionary targets.BMC genomics · 2024Article
- Whole-genome sequencing and identification of antimicrobial peptide coding genes in parsley (Petroselinum crispum), an important culinary and medicinal Apiaceae species.Functional & integrative genomics · 2024Article
- Overcoming Obstacles to Gene-Edited Solutions to Climate Challenges.Cold Spring Harbor perspectives in biology · 2024Review
- Transposable elements in Rosaceae: insights into genome evolution, expression dynamics, and syntenic gene regulation.Horticulture research · 2024Article
- MG1 interacts with a protease inhibitor and confers resistance to rice root-knot nematode.Nature communications · 2023Article
- Mutational Bias and Natural Selection Driving the Synonymous Codon Usage of Single-Exon Genes in Rice (Oryza sativa L.).Rice (New York, N.Y.) · 2023Article
- The nearly complete assembly of the Cercis chinensis genome and Fabaceae phylogenomic studies provide insights into new gene evolution.Plant communications · 2023Article
- PlantLTRdb: An interactive database for 195 plant species LTR-retrotransposons.Frontiers in plant science · 2023Article
85 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
14 authors at 7 institutions in 3 countries.
Funding
Abstract
Retroposition is widely found to play essential roles in origination of new mammalian and other animal genes. However, the scarcity of retrogenes in plants has led to the assumption that plant genomes rarely evolve new gene duplicates by retroposition, despite abundant retrotransposons in plants and a reported long terminal repeat (LTR) retrotransposon-mediated mechanism of retroposing cellular genes in maize (Zea mays). We show extensive retropositions in the rice (Oryza sativa) genome, with 1235 identified primary retrogenes. We identified 27 of these primary retrogenes within LTR retrotransposons, confirming a previously observed role of retroelements in generating plant retrogenes. Substitution analyses revealed that the vast majority are subject to negative selection, suggesting, along with expression data and evidence of age, that they are likely functional retrogenes. In addition, 42% of these retrosequences have recruited new exons from flanking regions, generating a large number of chimerical genes. We also identified young chimerical genes, suggesting that gene origination through retroposition is ongoing, with a rate an order of magnitude higher than the rate in primates. Finally, we observed that retropositions have followed an unexpected spatial pattern in which functional retrogenes avoid centromeric regions, while retropseudogenes are randomly distributed. These observations suggest that retroposition is an important mechanism that governs gene evolution in rice and other grass species.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.