Evidence of increasing diversification of Zika virus strains isolated in the American continent

Aldunate, Fabián; Gámbaro, Fabiana; Fajardo, Álvaro; Sóñora, Martín; Cristina, Juan

doi:10.1002/jmv.24910

Cited by 4 publications

(4 citation statements)

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“…The results shown in Table A1 were the outcome of 40 million steps of the MCMC, using the Tamura-Ney (TN93) + Γ model, a relaxed molecular clock, and the Bayesian Skyline model. The date of the most common ancestor to all ZIKV strains isolated in Latin America was estimated to be in early 2014 (95% HPD October 2013 to December 2014), in agreement with recent results [23,24,25]. A mean rate of evolution of 1.21 × 10 −3 substitutions per site per year (s/s/y) was found for the ZIKV sequences included in these studies (95% HPD 7.55 × 10 −4 to 1.66 × 10 −3 ).…”

Section: Resultssupporting

confidence: 88%

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An Evolutionary Insight into Zika Virus Strains Isolated in the Latin American Region

Simón

Fajardo

Moreno

et al. 2018

Viruses

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Zika virus (ZIKV) is an emerging pathogen member of the Flaviviridae family. ZIKV has spread rapidly in the Latin American region, causing hundreds of thousands of cases of ZIKV disease, as well as microcephaly in congenital infections. Detailed studies on the pattern of evolution of ZIKV strains have been extremely important to our understanding of viral survival, fitness, and evasion of the host’s immune system. For these reasons, we performed a comprehensive phylogenetic analysis of ZIKV strains recently isolated in the Americas. The results of these studies revealed evidence of diversification of ZIKV strains circulating in the Latin American region into at least five different genetic clusters. This diversification was also reflected in the different trends in dinucleotide bias and codon usage variation. Amino acid substitutions were found in E and prM proteins of the ZIKV strains isolated in this region, revealing the presence of novel genetic variants circulating in Latin America.

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Section: Resultssupporting

confidence: 88%

“…ZIKV genomes from strains isolated in the Latin American region and included in these studies fell into five different genetic lineages (Figure 1). This result highlighted an important degree of diversification in the ZIKV strains in this region, in agreement with previous studies done in America [23,25].…”

Section: Discussionsupporting

confidence: 92%

An Evolutionary Insight into Zika Virus Strains Isolated in the Latin American Region

Simón

Fajardo

Moreno

et al. 2018

Viruses

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“…the piece-wise nature of this method, which facilitates the identification of complex population changes. Coalescent theory has been a popular technique to infer population demographics underlying viral outbreaks [23][24][25][26][27][28][29][30][31][32]. By relating effective population size to the rate at which phylogenetic lineages converge backwards in time, the coalescent has become a powerful tool to infer demographic changes in the face of incomplete sampling.…”

Section: Discussionmentioning

confidence: 99%

Agricultural and geographic factors shaped the North American 2015 highly pathogenic avian influenza H5N2 outbreak

et al. 2020

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The 2014-2015 highly pathogenic avian influenza (HPAI) H5NX outbreak represents the largest and most expensive HPAI outbreak in the United States to date. Despite extensive traditional and molecular epidemiological studies, factors associated with the spread of HPAI among midwestern poultry premises remain unclear. To better understand the dynamics of this outbreak, 182 full genome HPAI H5N2 sequences isolated from commercial layer chicken and turkey production premises were analyzed using evolutionary models able to accommodate epidemiological and geographic information. Epidemiological compartmental models embedded in a phylogenetic framework provided evidence that poultry type acted as a barrier to the transmission of virus among midwestern poultry farms. Furthermore, after initial introduction, the propagation of HPAI cases was self-sustainable within the commercial poultry industries. Discrete trait diffusion models indicated that within state viral transitions occurred more frequently than inter-state transitions. Distance and sample size were very strongly supported as associated with viral transition between county groups (Bayes Factor > 30.0). Together these findings indicate that the different types of midwestern poultry industries were not a single homogenous population, but rather, the outbreak was shaped by poultry industries and geographic factors.chances of viral movement between two locations. While many theories have been proposed to explain the transmission of virus among poultry farms, presented evidence suggests human-mediated viral transportation played a key role in the spread of the highly pathogenic H5N2 outbreak in North America.Agricultural and geographic factors of the 2015 HPAI US outbreak PLOS Pathogens | https://doi.org/10.

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“…ZIKV has been responsible for several outbreaks including a recent and explosive epidemic in 2015-2016 where it swept through the Americas causing severe disease (Campos, Bandeira, & Sardi, 2015; Fauci & Morens, 2016; Lucchese & Kanduc, 2016). Importantly, although we still do not completely understand the molecular basis of ZIKV induced disease, viral genomic evolution has been implicated as a driving force for ZIKV disease and transmission in these recent epidemics (Aldunate, Gambaro, Fajardo, Sonora, & Cristina, 2017; Delatorre, Mir, & Bello, 2017; Y. Liu et al, 2017; Metsky et al, 2017; Shi et al, 2016; Yuan et al, 2017).…”

Section: Introductionmentioning

confidence: 99%

Mapping the evolutionary landscape of Zika virus infection in immunocompromised mice

Noval

Rangel

Johnson

et al. 2019

Preprint

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27The fundamental basis of how arboviruses evolve in nature and what regulates the adaptive 28 process remain unclear. To address this problem, we established a Zika virus (ZIKV) vector-borne 29 transmission system in immunocompromised mice that mimics evolutionary characteristics of 30 ZIKV infection in humans. Using this system, we defined factors that influence the evolutionary 31 landscape of ZIKV infection and show that transmission route and specific organ 32 microenvironments impact viral diversity and defective viral genome (DVG) production. In 33 addition, we identified in mice the emergence of ZIKV mutants previously seen in natural 34 infections, including variants present in currently circulating strains, as well as mutations unique 35 to the mouse infections. With these studies, we have established an insect-to-mouse transmission 36 model to study ZIKV evolution. We also defined how organ microenvironments and infection route 37 impact the ZIKV evolutionary landscape, providing a deeper understanding of the factors that 38 regulate arbovirus evolution and emergence.

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Evidence of increasing diversification of Zika virus strains isolated in the American continent

Cited by 4 publications

References 46 publications

An Evolutionary Insight into Zika Virus Strains Isolated in the Latin American Region

An Evolutionary Insight into Zika Virus Strains Isolated in the Latin American Region

Agricultural and geographic factors shaped the North American 2015 highly pathogenic avian influenza H5N2 outbreak

Mapping the evolutionary landscape of Zika virus infection in immunocompromised mice

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