Please use this identifier to cite or link to this item: 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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