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A computational method for the identification of Dengue, Zika and Chikungunya virus species and genotypes

Article scientifique 2019 Anglais

Résumé

In recent years, an increasing number of outbreaks of Dengue, Chikungunya and Zika viruses have been reported in Asia and the Americas.Monitoring virus genotype diversity is crucial to understand the emergence and spread of outbreaks, both aspects that are vital to develop effective prevention and treatment strategies.Hence, we developed an efficient method to classify virus sequences with respect to their species and sub-species (i.e.serotype and/or genotype).This tool provides an easy-to-use software implementation of this new method and was validated on a large dataset assessing the classification performance with respect to whole-genome sequences and partial-genome sequences.Available online: http://krisp.org.za/tools.php. Author summaryDengue (DENV), Chikungunya (CHIKV) and Zika (ZIKV) are considered major public health challenges.In addition to the epidemic caused by DENV, which has been described in many tropical countries, the introduction of CHIKV and ZIKV in these countries is a major public health concern.These arboviruses are primarily transmitted by mosquitoes of the species Ae.Aegypti and its related diseases result in increased financial costs associated with

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Fonseca, V., Libin, P., Theys, K., Faria, N., Nunes, M., Restovic, M., Freire, M., Giovanetti, M., Cuypers, L., Nowé, A., Abecasis, A., Deforche, K., Santiago, G., Siqueira, I., San, E., Machado, K., Azevedo, V., Filippis, A., Cunha, R., Pybus, O., Vandamme, A., Oliveira, T. (2019). A computational method for the identification of Dengue, Zika and Chikungunya virus species and genotypes. https://doi.org/10.1371/journal.pntd.0007231

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Auteur(s)

Vagner Fonseca Pieter Libin Kristof Theys Nuno R. Faria Márcio Roberto Teixeira Nunes Maria Inez Restovic Murilo Freire Marta Giovanetti Lize Cuypers Ann Nowé Ana Abecasis Koen Deforche Gilberto A. Santiago Isadora Cristina de Siqueira Emmanuel James San Kaliane C. B. Machado Vasco Azevedo Ana Maria Bispo-de Filippis Rivaldo Venâncio da Cunha Oliver G. Pybus Anne‐Mieke Vandamme Túlio de Oliveira

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