ArticleNucleic acids research2014
Quadruplex-forming sequences occupy discrete regions inside plant LTR retrotransposons.
Article in Nucleic acids research, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
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Who cites it
23 citing papers in PubMed.
- TONSOKU prevents the formation of large tandem duplications and restrains ATR-WEE1 checkpoint activation.Nature communications · 2026Article
- The Epigenomic Features and Potential Functions of PEG- and PDS-Favorable DNA G-Quadruplexes in Rice.International journal of molecular sciences · 2024Article
- Telomeric retrotransposons show propensity to form G-quadruplexes in various eukaryotic species.Mobile DNA · 2023Article
- Noncanonical DNA structures are drivers of genome evolution.Trends in genetics : TIG · 2023Review
- Beyond the Primary Structure of Nucleic Acids: Potential Roles of Epigenetics and Noncanonical Structures in the Regulations of Plant Growth and Stress Responses.Methods in molecular biology (Clifton, N.J.) · 2023Article
- Exploring the Relationship between G-Quadruplex Nucleic Acids and Plants: From Plant G-Quadruplex Function to Phytochemical G4 Ligands with Pharmaceutic Potential.Pharmaceutics · 2022Review
- Epigenomic Features and Potential Functions of KInternational journal of molecular sciences · 2022Article
- Epigenomic features of DNA G-quadruplexes and their roles in regulating rice gene transcription.Plant physiology · 2022Article
- Quadruplex-Forming Motif Inserted into 3'UTR ofBiology · 2021Article
- Genome-wide discovery of G-quadruplexes in barley.Scientific reports · 2021Article
- Stable and Conserved G-Quadruplexes in the Long Terminal Repeat Promoter of Retroviruses.ACS infectious diseases · 2019Article
- Thermodynamically stable and genetically unstable G-quadruplexes are depleted in genomes across species.Nucleic acids research · 2019Article
- Non-duplex G-Quadruplex Structures Emerge as Mediators of Epigenetic Modifications.Trends in genetics : TIG · 2019Review
- Quadruplex DNA in long terminal repeats in maize LTR retrotransposons inhibits the expression of a reporter gene in yeast.BMC genomics · 2018Article
- Review
- Repetitive DNA loci and their modulation by the non-canonical nucleic acid structures R-loops and G-quadruplexes.Nucleus (Austin, Tex.) · 2017Review
- G Quadruplex in Plants: A Ubiquitous Regulatory Element and Its Biological Relevance.Frontiers in plant science · 2017Review
- Structure, Properties, and Biological Relevance of the DNA and RNA G-Quadruplexes: Overview 50 Years after Their Discovery.Biochemistry. Biokhimiia · 2016Article
- G-Quadruplexes Involving Both Strands of Genomic DNA Are Highly Abundant and Colocalize with Functional Sites in the Human Genome.PloS one · 2016Article
- Conformational diversity of single-stranded DNA from bacterial repetitive extragenic palindromes: Implications for the DNA recognition elements of transposases.Biopolymers · 2015Article
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6 authors.
Funding
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Abstract
Retrotransposons with long terminal repeats (LTR) form a significant proportion of eukaryotic genomes, especially in plants. They have gag and pol genes and several regulatory regions necessary for transcription and reverse transcription. We searched for potential quadruplex-forming sequences (PQSs) and potential triplex-forming sequences (PTSs) in 18 377 full-length LTR retrotransposons collected from 21 plant species. We found that PQSs were often located in LTRs, both upstream and downstream of promoters from which the whole retrotransposon is transcribed. Upstream-located guanine PQSs were dominant in the minus DNA strand, whereas downstream-located guanine PQSs prevailed in the plus strand, indicating their role both at transcriptional and post-transcriptional levels. Our circular dichroism spectroscopy measurements confirmed that these PQSs readily adopted guanine quadruplex structures-some of them were paralell-stranded, while others were anti-parallel-stranded. The PQS often formed doublets at a mutual distance of up to 400 bp. PTSs were most abundant in 3'UTR (but were also present in 5'UTR). We discuss the potential role of quadruplexes and triplexes as the regulators of various processes participating in LTR retrotransposon life cycle and as potential recombination sites during post-insertional retrotransposon-based genome rearrangements.
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