Monkeypox virus genomic accordion strategies
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Published:2024-04-18
Issue:1
Volume:15
Page:
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ISSN:2041-1723
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Container-title:Nature Communications
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language:en
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Short-container-title:Nat Commun
Author:
Monzón Sara, Varona SaraiORCID, Negredo Anabel, Vidal-Freire Santiago, Patiño-Galindo Juan Angel, Ferressini-Gerpe NataliaORCID, Zaballos AngelORCID, Orviz EvaORCID, Ayerdi Oskar, Muñoz-Gómez Ana, Delgado-Iribarren Alberto, Estrada Vicente, García Cristina, Molero Francisca, Sánchez-Mora Patricia, Torres Montserrat, Vázquez Ana, Galán Juan-CarlosORCID, Torres IgnacioORCID, Causse del Río Manuel, Merino-Diaz Laura, López Marcos, Galar Alicia, Cardeñoso Laura, Gutiérrez Almudena, Loras Cristina, Escribano Isabel, Alvarez-Argüelles Marta E., del Río Leticia, Simón María, Meléndez María Angeles, Camacho Juan, Herrero Laura, Jiménez PilarORCID, Navarro-Rico María LuisaORCID, Jado IsabelORCID, Giannetti Elaina, Kuhn Jens H.ORCID, Sanchez-Lockhart Mariano, Di Paola Nicholas, Kugelman Jeffrey R., Guerra Susana, García-Sastre AdolfoORCID, Cuesta Isabel, Sánchez-Seco Maripaz P., Palacios GustavoORCID
Abstract
AbstractThe 2023 monkeypox (mpox) epidemic was caused by a subclade IIb descendant of a monkeypox virus (MPXV) lineage traced back to Nigeria in 1971. Person-to-person transmission appears higher than for clade I or subclade IIa MPXV, possibly caused by genomic changes in subclade IIb MPXV. Key genomic changes could occur in the genome’s low-complexity regions (LCRs), which are challenging to sequence and are often dismissed as uninformative. Here, using a combination of highly sensitive techniques, we determine a high-quality MPXV genome sequence of a representative of the current epidemic with LCRs resolved at unprecedented accuracy. This reveals significant variation in short tandem repeats within LCRs. We demonstrate that LCR entropy in the MPXV genome is significantly higher than that of single-nucleotide polymorphisms (SNPs) and that LCRs are not randomly distributed. In silico analyses indicate that expression, translation, stability, or function of MPXV orthologous poxvirus genes (OPGs), including OPG153, OPG204, and OPG208, could be affected in a manner consistent with the established “genomic accordion” evolutionary strategies of orthopoxviruses. We posit that genomic studies focusing on phenotypic MPXV differences should consider LCR variability.
Publisher
Springer Science and Business Media LLC
Reference114 articles.
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