ScholarWorks @ UTRGV ScholarWorks @ UTRGV Dataset on the epidemiology and genetic diversification of Dataset on the epidemiology and genetic diversification of dengue virus (DENV) serotypes and genotypes in Mexico dengue virus (DENV) serotypes and genotypes in Mexico

Dengue virus (DENV) evolution has had a significant impact on disease pathogenesis, virulence, and epidemiology in Mexico. Novel genotypic variation in DENV serotypes and genotypes may influence the magnitude and severity of dengue epidemics, as evidenced by 2009 data from Veracruz State. The data presented herein is related to the publication entitled “Epidemiological Implications of the Genetic Diversification of Dengue Virus (DENV) Serotypes and Genotypes in Mexico” [1]. Raw data and trees provide epidemiological data on DENV prevalence and a comprehensive phylogeny of both representative sequences collected from an NCBI repository, and 28 additional isolates from acute-phase plasma samples diagnosed with dengue fever or severe dengue (Raw sequencing data is hosted in the public repository Mendeley Data ( http://dx.doi.org/10.17632/bf2kdhhf6x.2 ). Phylogenetic DOI of original article: 10.1016/j.meegid. 2020.104391 ∗ Corresponding author. E-mail address: lmunoz@cinvestav.mx (M.d.L. Muñoz). https://doi.org/10.1016/j.dib. 2020.106077 2352-3409/© 2020 The Author(s). Published by Elsevier Inc. This is an open access article under the CC BY license. ( http://creativecommons.org/licenses/by/4.0/ ) 2 E. Domínguez-de-la-Cruz, M.d.L. Muñoz and E. Hernández-García et al. / Data in Brief 32 (2020) 106077 trees for each DENV serotype (DENV-1, -2, -3 and -4) were constructed using these sequences by a maximum likelihood methodology as well as a Bayesian Markov chain Monte Carlo (MCMC) integration approach. Phylogenetic trees exhibited: (1) DENV-1, genotype V, (2) the DENV-2 Asian/American and Asian II genotypes, (3) DENV-3, genotype III, and (4) DENV-4, genotype I. This data can be beneficial for future analyses on DENV serotype and genotype structure and the introduction of novel DENV genotype sequences in the Americas, for the further elucidation of dengue etiology. © 2020 The Author(s). Published by Elsevier Inc. This is an open access article under the CC BY license. ( http://creativecommons.org/licenses/by/4.0/ ) Specifications Table Subject Virology Specific subject area Dengue virus and the introduction of novel DENV genotypes in Veracruz State, Mexico. Type of data Data are in raw format and have been analyzed. An Excel spreadsheet and figures have been uploaded. Raw sequencing data hosted in the public repository Mendeley Data ( http://dx.doi.org/10.17632/bf2kdhhf6x.2 ) [2] . How data was acquired Raw sequencing data is hosted in the public repository Mendeley Data ( http://dx.doi.org/10.17632/bf2kdhhf6x.2 ) [2] . This data was used to construct phylogenetic trees using divergence time (tMRCA) and rate of nucleotide substitution, built using a Bayesian Markov chain Monte Carlo (MCMC) integration approach, as implemented in BEAST 1.10. 3 software [3] . A database of DENV representative sequences were collected freely from the NCBI repository: https://www.ncbi. nlm.nih. gov/genbank/ Raw DENV isolate data compiled freely from the GenBank database from both Veracruz State, and Mexico, as well as other countries, in addition to Mexican DENV epidemiological data from the Mexican SINAVE (Sistema Nacional de Vigilancia Epidemiologica de la Dirección General de Epidemiología/Epidemiological Surveillance Single Information System) ( Table 1 ) were acquired [4] . One Excel spreadsheet with pertinent raw data has been uploaded freely (Supplementary Table 1). Data format Raw sequencing data is hosted in the public repository Mendeley Data ( http://dx.doi.org/10.17632/bf2kdhhf6x.2 ) [2] . Data are in raw format and have been analyzed. Two tables have been uploaded, Table 1 and Supplementary Table 1 (Excel spreadsheet). Parameters for data collection RNA obtained from the isolates of DENV-1, -2, -3, and -4, were amplified and sequenced [1] . Raw sequencing data hosted in the public repository Mendeley Data ( http://dx.doi.org/10.17632/bf2kdhhf6x.2 ) [2] were used to construct phylogenetic trees for all DENV serotypes using the maximum likelihood method [5] and Bayesian MCMC approach [6] . Dengue incidence was calculated by the equation: Number of dengue cases in one epidemiological year /10 0,0 0 0 individuals. Description of data collection Epidemiological data of DENV ( Table 1 ) collected freely from the Mexican SINAVE [4] displays the number of cases, incidence, and percentage of variation in dengue and severe dengue for both Mexico and Veracruz State between 1990 and 2019. The database of DENV sequences hosted in the public repository Mendeley Data ( http://dx.doi.org/10.17632/bf2kdhhf6x.2 ) [2] includes 513 sequences collected from an NCBI repository and 28 sequences obtained from the isolates from Veracruz, Mexico. Database details (Supplementary Table 1) includes: GenBank accession number, URL: GenBank, strain or isolate, year collected, serotype, genotype, country, ID in phylogenetic analyses, and reference(s). Data source location Center for Research and Advanced Studies of the National Polytechnic Institute (CINVESTAV—IPN), Mexico City, Mexico. Latitude and longitude for collected sample/data 19 ° 30 ′ 33 ′′ N, 99 ° 07 ′ 46 ′′ W ( continued on next page ) E. Domínguez-de-la-Cruz, M.d.L. Muñoz and E. Hernández-García et al. / Data in Brief 32 (2020) 106077 3 Data accessibility Access options located with article. Raw sequencing data and alignment information data is hosted in the public repository Mendeley Data ( http://dx.doi.org/10.17632/bf2kdhhf6x.2 [2] ; a description of each DENV sequence is displayed in Supplementary Table 1, and epidemiological raw data is displayed in Table 1 . Related research article Author’s names: Hernández-García, María de Lourdes Muñoz, Randy E. David, Gerardo Pérez-Ramírez, Joel Navarrete-Espinosa, Álvaro Díaz-Badillo, Eduardo Domínguez-de-la-Cruz, Miguel Moreno-Galeana, Cesar Armando Brito-Carreón Title: Epidemiological Implications of the Genetic Diversification of Dengue Virus (DENV) Serotypes and Genotypes in Mexico Journal: INFECTION, GENETICS AND EVOLUTION Volume 84, October 2020, 104391. [ https://doi.org/10.1016/j.meegid. 2020.104391 ]