ArticleNucleic acids research2017
Retrotransposons are specified as DNA replication origins in the gene-poor regions of Arabidopsis heterochromatin.
Article in Nucleic acids research, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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13 citing papers in PubMed, 19 citations in OpenAlex.
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- Complete genome sequence analysis of Pestalotiopsis microspora, a fungal pathogen causing kiwifruit postharvest rots.BMC genomics · 2024Article
- A Journey to the Core of the Plant Cell Cycle.International journal of molecular sciences · 2022Review
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- A genome-wide investigation of the effect of farming and human-mediated introduction on the ubiquitous seaweed Undaria pinnatifida.Nature ecology & evolution · 2021Article
- Epigenetic silencing of clustered tRNA genes in Arabidopsis.Nucleic acids research · 2020Article
- AT the Onset of DNA Replication in Arabidopsis.Plant physiology · 2020Article
- Arabidopsis DNA Replication Initiates in Intergenic, AT-Rich Open Chromatin.Plant physiology · 2020Article
- Retrotransposons in Plant Genomes: Structure, Identification, and Classification through Bioinformatics and Machine Learning.International journal of molecular sciences · 2019Review
- Differences in firing efficiency, chromatin, and transcription underlie the developmental plasticity of theGenome research · 2019Article
- Article
- Silenced retrotransposons are major rasiRNAs targets in Arabidopsis galls induced by Meloidogyne javanica.Molecular plant pathology · 2018Article
- Review
Corrections and comments
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Authors and funding
8 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Genomic stability depends on faithful genome replication. This is achieved by the concerted activity of thousands of DNA replication origins (ORIs) scattered throughout the genome. The DNA and chromatin features determining ORI specification are not presently known. We have generated a high-resolution genome-wide map of 3230 ORIs in cultured Arabidopsis thaliana cells. Here, we focused on defining the features associated with ORIs in heterochromatin. In pericentromeric gene-poor domains ORIs associate almost exclusively with the retrotransposon class of transposable elements (TEs), in particular of the Gypsy family. ORI activity in retrotransposons occurs independently of TE expression and while maintaining high levels of H3K9me2 and H3K27me1, typical marks of repressed heterochromatin. ORI-TEs largely colocalize with chromatin signatures defining GC-rich heterochromatin. Importantly, TEs with active ORIs contain a local GC content higher than the TEs lacking them. Our results lead us to conclude that ORI colocalization with retrotransposons is determined by their transposition mechanism based on transcription, and a specific chromatin landscape. Our detailed analysis of ORIs responsible for heterochromatin replication has implications on the mechanisms of ORI specification in other multicellular organisms in which retrotransposons are major components of heterochromatin and of the entire genome.
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