ArticleNucleic acids research2022
Genome-wide characterization of i-motifs and their potential roles in the stability and evolution of transposable elements in rice.
Article in Nucleic acids research, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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15 citing papers in PubMed, 43 citations in OpenAlex.
- Article
- The cellular landscape of i-motifs: genomic insights, methodological challenges, and the road ahead.Genome biology · 2026Review
- Mechanistic insights into PCBP1-driven unfolding of selected i-motif DNA at GNature communications · 2026Article
- Indirect identification of genomic G-quadruplexes via a small protein probe that specifically recognizes C-rich single-stranded DNA.Nucleic acids research · 2026Article
- The emerging sequence grammar of 3D genome organisation.Human genetics · 2025Review
- Global identification and functional characterization of Z-DNA in rice.Plant biotechnology journal · 2025Article
- The iMab antibody selectively binds to intramolecular and intermolecular i-motif structures.Nucleic acids research · 2025Article
- Human genomic DNA is widely interspersed with i-motif structures.The EMBO journal · 2024Article
- Non-B-form DNA is associated with centromere stability in newly-formed polyploid wheat.Science China. Life sciences · 2024Article
- Prediction of DNA i-motifs via machine learning.Nucleic acids research · 2024Article
- In-cell NMR suggests that DNA i-motif levels are strongly depleted in living human cells.Nature communications · 2024Article
- The roles of DNA methylation on pH dependent i-motif (iM) formation in rice.Nucleic acids research · 2024Article
- Detection of alternative DNA structures and its implications for human disease.Molecular cell · 2023Review
- Genome-wide mapping of i-motifs reveals their association with transcription regulation in live human cells.Nucleic acids research · 2023Article
- Interactions of small molecules with DNA junctions.Nucleic acids research · 2022Review
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12 authors at 4 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
I-motifs (iMs) are non-canonical DNA secondary structures that fold from cytosine (C)-rich genomic DNA regions termed putative i-motif forming sequences (PiMFSs). The structure of iMs is stabilized by hemiprotonated C-C base pairs, and their functions are now suspected in key cellular processes in human cells such as genome stability and regulation of gene transcription. In plants, their biological relevance is still largely unknown. Here, we characterized PiMFSs with high potential for i-motif formation in the rice genome by developing and applying a protocol hinging on an iMab antibody-based immunoprecipitation (IP) coupled with high-throughput sequencing (seq), consequently termed iM-IP-seq. We found that PiMFSs had intrinsic subgenomic distributions, cis-regulatory functions and an intricate relationship with DNA methylation. We indeed found that the coordination of PiMFSs with DNA methylation may affect dynamics of transposable elements (TEs) among different cultivated Oryza subpopulations or during evolution of wild rice species. Collectively, our study provides first and unique insights into the biology of iMs in plants, with potential applications in plant biotechnology for improving important agronomic rice traits.
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