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https://hdl.handle.net/2445/222994
Title: | Systematic study of hybrid triplex topology and stability suggests a general triplex-mediated regulatory mechanism |
Author: | Genna, Vito Portella, Guillem Sala, Alba Terrazas Martínez, Montserrat Serrano Chacón, Israel Gonzalez-Díaz, Joaquín Villegas, Núria Mateo, Lidia Castellazzi, Chiara Labrador, Mireia Aviño, Anna Hospital, Adam Gandioso, Albert Aloy, Patrick Brun-Heath, Isabelle Gonzalez, Camille Eritja i Casadellà, Ramon Orozco López, Modesto |
Keywords: | Àcids nucleics Genoma humà Nucleic acids Human genome |
Issue Date: | 24-Mar-2025 |
Publisher: | Oxford University Press |
Abstract: | By combining in silico, biophysical, and in vitro experiments, we decipher the topology, physical, and potential biological properties of hybrid-parallel nucleic acids triplexes, an elusive structure at the basis of life. We found that hybrid triplex topology follows a stability order: r(Py)-d(Pu)·r(Py) > r(Py)-d(Pu)·d(Py) > d(Py)-d(Pu)·d(Py) > d(Py)-d(Pu)·r(Py). The r(Py)-d(Pu)·d(Py) triplex is expected to be preferred in the cell as it avoids the need to open the duplex reducing the torsional stress required for triplex formation in the r(Py)-d(Pu)·r(Py) topology. Upon a massive collection of melting data, we have created the first predictor for hybrid triplex stability. Leveraging this predictor, we conducted a comprehensive scan to assess the likelihood of the human genome and transcriptome to engage in triplex formation. Our findings unveil a remarkable inclination—of both the human genome and transcriptome—to generate hybrid triplex formation, particularly within untranslated (UTRs) and regulatory regions, thereby corroborating the existence of a triplex-mediated regulatory mechanism. Furthermore, we found a correlation between nucleosome linkers and Triplex-forming sequence (TFS) which agree with a putative role of triplexes in arranging chromatin structure. |
Note: | Reproducció del document publicat a: https://doi.org/10.1093/nar/gkaf170 |
It is part of: | Nucleic Acids Research, 2025, vol. 53, num.5 |
URI: | https://hdl.handle.net/2445/222994 |
Related resource: | https://doi.org/10.1093/nar/gkaf170 |
ISSN: | 0305-1048 |
Appears in Collections: | Articles publicats en revistes (Bioquímica i Biomedicina Molecular) |
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