Molecular-based identification and phylogeny of genomic and proteomic sequences of mosquito-borne flavivirus

Gupta, Sunil Kumar; Singh, Sarita; Nischal, Anil; Pant, Kamlesh Kumar; Seth, Prahlad K.

doi:10.1007/s13258-013-0137-x

Cited by 10 publications

(8 citation statements)

References 42 publications

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“…We next conducted neutralization assays against ZIKV, utilizing our CTRL, WNV, and DENV plasma. Consistent with the relative antigenic distance from ZIKV, DENV immune plasma showed~10-fold increased capacity to neutralize ZIKV (IC 50 = 1:4,320) compared to WNV immune plasma (Figure 1B) (46,47).…”

Section: In Vitro Characterization Of Wnv Antibodies Elicited Through Natural Infectionsupporting

confidence: 54%

Evaluating the Safety of West Nile Virus Immunity During Congenital Zika Virus Infection in Mice

et al. 2021

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Antibody-dependent enhancement (ADE) is a phenomenon that occurs when cross-reactive antibodies generated from a previous flaviviral infection increase the pathogenesis of a related virus. Zika virus (ZIKV) is the most recent flavivirus introduced to the Western Hemisphere and has become a significant public health threat due to the unanticipated impact on the developing fetus. West Nile virus (WNV) is the primary flavivirus that circulates in North America, and we and others have shown that antibodies against WNV are cross-reactive to ZIKV. Thus, there is concern that WNV immunity could increase the risk of severe ZIKV infection, particularly during pregnancy. In this study, we examined the extent to which WNV antibodies could impact ZIKV pathogenesis in a murine pregnancy model. To test this, we passively transferred WNV antibodies into pregnant Stat2-/- mice on E6.5 prior to infection with ZIKV. Evaluation of pregnant dams showed weight loss following ZIKV infection; however, no differences in maternal weights or viral loads in the maternal brain, spleen, or spinal cord were observed in the presence of WNV antibodies. Resorption rates, and other fetal parameters, including fetal and placental size, were similarly unaffected. Further, the presence of WNV antibodies did not significantly alter the viral load or the inflammatory response in the placenta or the fetus in response to ZIKV. Our data suggest that pre-existing WNV immunity may not significantly impact the pathogenesis of ZIKV infection during pregnancy. Our findings are promising for the safety of implementing WNV vaccines in the continental US.

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Section: In Vitro Characterization Of Wnv Antibodies Elicited Through Natural Infectionsupporting

confidence: 54%

Evaluating the Safety of West Nile Virus Immunity During Congenital Zika Virus Infection in Mice

et al. 2021

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“…Combining nuclear DNA and organellar markers has traditionally improved the understanding of invasive processes, and it is becoming clear that including vertically transmitted endosymbiont or parasitic organisms can provide new insight into the origins of invasive species as well as the diseases they carry (Gupta et al. ; Mobegi et al. ).…”

Section: Identifying Source Populationsmentioning

confidence: 99%

“…Having the different sources of genomic information was essential to this study as the recent introduction limited the genetic resolution of the aphid markers used. Combining nuclear DNA and organellar markers has traditionally improved the understanding of invasive processes, and it is becoming clear that including vertically transmitted endosymbiont or parasitic organisms can provide new insight into the origins of invasive species as well as the diseases they carry (Gupta et al 2014;Mobegi et al 2014). The addition of mtDNA provides information on introgression patterns between diverged populations or subspecies because mtDNA genomes track maternal lineages (McCormick et al 2014).…”

Section: Identifying Source Populationsmentioning

confidence: 99%

Biological invasions, climate change and genomics

Chown

Hodgins

Griffin

et al. 2014

Evolutionary Applications

225

214

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The rate of biological invasions is expected to increase as the effects of climate change on biological communities become widespread. Climate change enhances habitat disturbance which facilitates the establishment of invasive species, which in turn provides opportunities for hybridization and introgression. These effects influence local biodiversity that can be tracked through genetic and genomic approaches. Metabarcoding and metagenomic approaches provide a way of monitoring some types of communities under climate change for the appearance of invasives. Introgression and hybridization can be followed by the analysis of entire genomes so that rapidly changing areas of the genome are identified and instances of genetic pollution monitored. Genomic markers enable accurate tracking of invasive species’ geographic origin well beyond what was previously possible. New genomic tools are promoting fresh insights into classic questions about invading organisms under climate change, such as the role of genetic variation, local adaptation and climate pre-adaptation in successful invasions. These tools are providing managers with often more effective means to identify potential threats, improve surveillance and assess impacts on communities. We provide a framework for the application of genomic techniques within a management context and also indicate some important limitations in what can be achieved.

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“…Previously, Moureau et al [18] identified these three viruses in a sister group to DENV, which encompass the Culex spp. associated group and previous related research suggested that the positioning of these viruses was ambiguous [81]. Nevertheless, individual studies focusing on specific viruses have observed this relationship [82].…”

Section: Phylogenetic Insightsmentioning

confidence: 87%

FLAVi: An Enhanced Annotator for Viral Genomes of Flaviviridae

Schneider

Machado

Guirales

et al. 2020

Viruses

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Responding to the ongoing and severe public health threat of viruses of the family Flaviviridae, including dengue, hepatitis C, West Nile, yellow fever, and Zika, demands a greater understanding of how these viruses emerge and spread. Updated phylogenies are central to this understanding. Most cladograms of Flaviviridae focus on specific lineages and ignore outgroups, hampering the efficacy of the analysis to test ingroup monophyly and relationships. This is due to the lack of annotated Flaviviridae genomes, which has gene content variation among genera. This variation makes analysis without partitioning difficult. Therefore, we developed an annotation pipeline for the genera of Flaviviridae (Flavirirus, Hepacivirus, Pegivirus, and Pestivirus, named “Fast Loci Annotation of Viruses” (FLAVi; http://flavi-web.com/), that combines ab initio and homology-based strategies. FLAVi recovered 100% of the genes in Flavivirus and Hepacivirus genomes. In Pegivirus and Pestivirus, annotation efficiency was 100% except for one partition each. There were no false positives. The combined phylogenetic analysis of multiple genes made possible by annotation has clear impacts over the tree topology compared to phylogenies that we inferred without outgroups or data partitioning. The final tree is largely congruent with previous hypotheses and adds evidence supporting the close phylogenetic relationship between dengue and Zika.

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Molecular-based identification and phylogeny of genomic and proteomic sequences of mosquito-borne flavivirus

Cited by 10 publications

References 42 publications

Evaluating the Safety of West Nile Virus Immunity During Congenital Zika Virus Infection in Mice

Evaluating the Safety of West Nile Virus Immunity During Congenital Zika Virus Infection in Mice

Biological invasions, climate change and genomics

FLAVi: An Enhanced Annotator for Viral Genomes of Flaviviridae

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