ArticleGenome biology and evolution2013
Contrasting patterns of transposable element and satellite distribution on sex chromosomes (XY1Y2) in the dioecious plant Rumex acetosa.
Article in Genome biology and evolution, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 39 papers.
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39 citing papers in PubMed, 60 citations in OpenAlex.
- Factors determining chromosomal localization of transposable elements in plants.Plant biology (Stuttgart, Germany) · 2025Review
- Characterization of the transposable element landscape shaping the Ectocarpus genome.Genome biology · 2025Article
- Independent evolution of satellite DNA sequences in homologous sex chromosomes of Neotropical armored catfish (Harttia).Communications biology · 2025Article
- Detection and classification of long terminal repeat sequences in plant LTR-retrotransposons and their analysis using explainable machine learning.BioData mining · 2024Article
- Sexy ways: approaches to studying plant sex chromosomes.Journal of experimental botany · 2024Review
- Article
- Do Ty3/Gypsy Transposable Elements Play Preferential Roles in Sex Chromosome Differentiation?Life (Basel, Switzerland) · 2022Review
- Article
- Fundamentally different repetitive element composition of sex chromosomes in Rumex acetosa.Annals of botany · 2021Article
- The Genomics of Plant Satellite DNA.Progress in molecular and subcellular biology · 2021Review
- Article
- Repetitive DNA content in the maize genome is uncoupled from population stratification at SNP loci.BMC genomics · 2020Article
- Genome-Wide Analysis of Transposable Elements and Satellite DNAs inFrontiers in plant science · 2020Article
- Retrotransposons in Plant Genomes: Structure, Identification, and Classification through Bioinformatics and Machine Learning.International journal of molecular sciences · 2019Review
- Characterization of repeated DNA sequences in genomes of blue-flowered flax.BMC evolutionary biology · 2019Article
- Satellite DNA Mapping inGenes · 2019Article
- The landscape of transposable elements and satellite DNAs in the genome of a dioecious plant spinach (Mobile DNA · 2019Article
- Together But Different: The Subgenomes of the BimodalFrontiers in plant science · 2019Article
- Sex and the flower - developmental aspects of sex chromosome evolution.Annals of botany · 2018Review
- Satellite DNAs are conserved and differentially transcribed among Gryllus cricket species.DNA research : an international journal for rapid publication of reports on genes and genomes · 2018Article
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Authors and funding
9 authors at 5 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Rumex acetosa is a dioecious plant with the XY1Y2 sex chromosome system. Both Y chromosomes are heterochromatic and are thought to be degenerated. We performed low-pass 454 sequencing and similarity-based clustering of male and female genomic 454 reads to identify and characterize major groups of R. acetosa repetitive DNA. We found that Copia and Gypsy retrotransposons dominated, followed by DNA transposons and nonlong terminal repeat retrotransposons. CRM and Tat/Ogre retrotransposons dominated the Gypsy superfamily, whereas Maximus/Sireviruses were most abundant among Copia retrotransposons. Only one Gypsy subfamily had accumulated on Y1 and Y2 chromosomes, whereas many retrotransposons were ubiquitous on autosomes and the X chromosome, but absent on Y1 and Y2 chromosomes, and others were depleted from the X chromosome. One group of CRM Gypsy was specifically localized to centromeres. We also found that majority of previously described satellites (RAYSI, RAYSII, RAYSIII, and RAE180) are accumulated on the Y chromosomes where we identified Y chromosome-specific variant of RAE180. We discovered two novel satellites-RA160 satellite dominating on the X chromosome and RA690 localized mostly on the Y1 chromosome. The expression pattern obtained from Illumina RNA sequencing showed that the expression of transposable elements is similar in leaves of both sexes and that satellites are also expressed. Contrasting patterns of transposable elements (TEs) and satellite localization on sex chromosomes in R. acetosa, where not only accumulation but also depletion of repetitive DNA was observed, suggest that a plethora of evolutionary processes can shape sex chromosomes.
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