ArticleGenome biology and evolution2017
LTR Retrotransposons Show Low Levels of Unequal Recombination and High Rates of Intraelement Gene Conversion in Large Plant Genomes.
Article in Genome biology and evolution, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 37 papers.
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37 citing papers in PubMed, 103 citations in OpenAlex.
- Hide and seek: de novo identification in sugar beet reveals impact of non-autonomous LTR retrotransposons.Mobile DNA · 2026Article
- A near-complete genome assembly of onion resolves its genomic architecture, origin, and evolution.Plant communications · 2026Article
- Cunninghamia lanceolata genome illuminates the evolutionary dynamics of gymnosperms.Cell reports · 2026Article
- Natural selection and recombination interact to structure genome-wide variation in pines.The Plant journal : for cell and molecular biology · 2026Article
- The Genetic Diversity and Population Structure of the EndemicPlants (Basel, Switzerland) · 2026Article
- Chromosome-level genome assembly and annotation of the endangered plant Primula kwangtungensis (Primulaceae).Scientific data · 2026Article
- Chromosome-level genome assembly ofHorticulture research · 2026Article
- LTR retrotransposons shape genome architecture, function, and evolution in diverse plant species.Frontiers in plant science · 2026Article
- Resolving the Stasis-Dynamism Paradox: Genome Evolution in Tree Ferns.Molecular biology and evolution · 2025Article
- Genomic and epigenomic insight into giga-chromosome architecture and adaptive evolution of royal lily (Lilium regale).Nature communications · 2025Article
- The giant genome of lily provides insights into the hybridization of cultivated lilies.Nature communications · 2025Article
- A chromosome-level genome assembly of a model conifer plant, the Japanese cedar, Cryptomeria japonica D. Don.BMC genomics · 2024Article
- The evolutionary tale of lilies: Giant genomes derived from transposon insertions and polyploidization.Innovation (Cambridge (Mass.)) · 2024Review
- TheHorticulture research · 2024Article
- Article
- The Role of Chromatin Modifications in the Evolution of Giant Plant Genomes.Plants (Basel, Switzerland) · 2023Article
- Applying molecular and genetic methods to trees and their fungal communities.Applied microbiology and biotechnology · 2023Review
- Article
- Phylotranscriptomics and evolution of key genes for terpene biosynthesis in Pinaceae.Frontiers in plant science · 2023Article
- PlantLTRdb: An interactive database for 195 plant species LTR-retrotransposons.Frontiers in plant science · 2023Article
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Authors and funding
6 authors at 5 institutions in 4 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The accumulation and removal of transposable elements (TEs) is a major driver of genome size evolution in eukaryotes. In plants, long terminal repeat (LTR) retrotransposons (LTR-RTs) represent the majority of TEs and form most of the nuclear DNA in large genomes. Unequal recombination (UR) between LTRs leads to removal of intervening sequence and formation of solo-LTRs. UR is a major mechanism of LTR-RT removal in many angiosperms, but our understanding of LTR-RT-associated recombination within the large, LTR-RT-rich genomes of conifers is quite limited. We employ a novel read-based methodology to estimate the relative rates of LTR-RT-associated UR within the genomes of four conifer and seven angiosperm species. We found the lowest rates of UR in the largest genomes studied, conifers and the angiosperm maize. Recombination may also resolve as gene conversion, which does not remove sequence, so we analyzed LTR-RT-associated gene conversion events (GCEs) in Norway spruce and six angiosperms. Opposite the trend for UR, we found the highest rates of GCEs in Norway spruce and maize. Unlike previous work in angiosperms, we found no evidence that rates of UR correlate with retroelement structural features in the conifers, suggesting that another process is suppressing UR in these species. Recent results from diverse eukaryotes indicate that heterochromatin affects the resolution of recombination, by favoring gene conversion over crossing-over, similar to our observation of opposed rates of UR and GCEs. Control of LTR-RT proliferation via formation of heterochromatin would be a likely step toward large genomes in eukaryotes carrying high LTR-RT content.
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