RT info:eu-repo/semantics/article
T1 Bioinformatic approaches to draft the viral genome sequence of Canary Islands cases related to the multi-country Monkeypox virus 2022-outbreak.
A1 Valenzuela Fernández, Agustín
A1 Muñoz-Barrera, A.
A1 Ciuffreda, L.
A1 Alcoba-Florez, J.
A1 Rubio-Rodríguez, L. A.
A1 Rodríguez-Pérez, H.
A1 Gil-Campesino, H.
A1 García-Martínez de Artola, D.
A1 Salas-Hernández, J.
A1 Rodríguez-Núñez, J.
A1 Íñigo-Campos, A.
A1 García-Olivares, V.
A1 Díez-Gil, O.
A1 González-Montelongo, R.
A1 Lorenzo-Salazar, J. M.
A1 Flores, C.
K1 Bioinformatics
K1 De novo genome assembly
K1 Viral surveillance
K1 Monkeypox
K1 MPXV
AB On July 23, 2022, monkeypox disease (mpox) was declared a Public Emergency of International Concern (PHEIC) by the World Health Organization (WHO) due to a multicountry outbreak. In Europe, several cases of mpox virus (MPXV) infection related to this outbreak were detected in the Canary Islands (Spain). Here we describe the combination of viral DNA sequencing and bioinformatic approaches, including methods for de novo genome assembly and short- and long-read technologies, used to reconstruct the first MPXV genome isolated in the Canary Islands on the 31st of May 2022 from a male adult patient with mild symptoms. The same sequencing and bioinformatic approaches were then validated with three other positive cases of MPXV infection from the same mpox outbreak. We obtained the best results using a reference-based approach with short reads, evidencing 46–79 nucleotide variants against viral sequences from the 2018–2019 mpox outbreak and placing the viral sequences in the new B.1 sublineage of clade IIb of the MPXV classification. This study of MPXV demonstrates the potential of metagenomics sequencing for rapid and precise pathogen identification.
SN 2001-0370
YR 2023
FD 2023
LK http://riull.ull.es/xmlui/handle/915/35346
UL http://riull.ull.es/xmlui/handle/915/35346
DS Repositorio institucional de la Universidad de La Laguna
RD 15-may-2024