ArticlePloS one2012
Differential dynamics of transposable elements during long-term diploidization of Nicotiana section Repandae (Solanaceae) allopolyploid genomes.
Article in PloS one, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
16 citing papers in PubMed, 30 citations in OpenAlex.
- Differential Gene Expression and Unbalanced Homeolog Expression Bias in 4 Million-Year-Old Allopolyploids of Nicotiana Section Repandae.Genome biology and evolution · 2025Article
- Genomes shed light on the evolution of Begonia, a mega-diverse genus.The New phytologist · 2022Article
- Hybridization and polyploidization effects on LTR-retrotransposon activation in potato genome.Journal of plant research · 2022Article
- Origin and Fates ofInternational journal of molecular sciences · 2021Article
- Competition of Parental Genomes in Plant Hybrids.Frontiers in plant science · 2020Review
- Impact of transposable elements on polyploid plant genomes.Annals of botany · 2017Review
- Genome-wide repeat dynamics reflect phylogenetic distance in closely related allotetraploidPlant systematics and evolution = Entwicklungsgeschichte und Systematik der Pflanzen · 2017Article
- Real-time transposable element activity in individual live cells.Proceedings of the National Academy of Sciences of the United States of America · 2016Article
- Current status and prospects for the study of Nicotiana genomics, genetics, and nicotine biosynthesis genes.Molecular genetics and genomics : MGG · 2015Review
- Transposable elements in a clade of three tetraploids and a diploid relative, focusing on Gypsy amplification.Mobile DNA · 2015Article
- Genomic repeat abundances contain phylogenetic signal.Systematic biology · 2015Article
- Polyploidy and novelty: Gottlieb's legacy.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2014Review
- Article
- Isolation and characterization of reverse transcriptase fragments of LTR retrotransposons from the genome of Chenopodium quinoa (Amaranthaceae).Plant cell reports · 2013Article
- Evolutionary consequences, constraints and potential of polyploidy in plants.Cytogenetic and genome research · 2013Review
- Evolutionary dynamics of retrotransposons assessed by high-throughput sequencing in wild relatives of wheat.Genome biology and evolution · 2013Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
7 authors at 4 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Evidence accumulated over the last decade has shown that allopolyploid genomes may undergo drastic reorganization. However, timing and mechanisms of structural diploidization over evolutionary timescales are still poorly known. As transposable elements (TEs) represent major and labile components of plant genomes, they likely play a pivotal role in fuelling genome changes leading to long-term diploidization. Here, we exploit the 4.5 MY old allopolyploid Nicotiana section Repandae to investigate the impact of TEs on the evolutionary dynamics of genomes. Sequence-specific amplified polymorphisms (SSAP) on seven TEs with expected contrasted dynamics were used to survey genome-wide TE insertion polymorphisms. Comparisons of TE insertions in the four allopolyploid species and descendents of the diploid species most closely related to their actual progenitors revealed that the polyploids showed considerable departure from predicted additivity of the diploids. Large numbers of new SSAP bands were observed in polyploids for two TEs, but restructuring for most TE families involved substantial loss of fragments relative to the genome of the diploid representing the paternal progenitor, which could be due to changes in allopolyploids, diploid progenitor lineages or both. The majority of non-additive bands were shared by all polyploid species, suggesting that significant restructuring occurred early after the allopolyploid event that gave rise to their common ancestor. Furthermore, several gains and losses of SSAP fragments were restricted to N. repanda, suggesting a unique evolutionary trajectory. This pattern of diploidization in TE genome fractions supports the hypothesis that TEs are central to long-term genome turnover and depends on both TE and the polyploid lineage considered.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
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.