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Viruses 2013, 5(7), 1664-1681; doi:10.3390/v5071664
Article

Identification of Genes Critical for Resistance to Infection by West Nile Virus Using RNA-Seq Analysis

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Received: 8 May 2013; in revised form: 21 June 2013 / Accepted: 29 June 2013 / Published: 8 July 2013
(This article belongs to the Section Animal Viruses)
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Abstract: The West Nile virus (WNV) is an emerging infection of biodefense concern and there are no available treatments or vaccines. Here we used a high-throughput method based on a novel gene expression analysis, RNA-Seq, to give a global picture of differential gene expression by primary human macrophages of 10 healthy donors infected in vitro with WNV. From a total of 28 million reads per sample, we identified 1,514 transcripts that were differentially expressed after infection. Both predicted and novel gene changes were detected, as were gene isoforms, and while many of the genes were expressed by all donors, some were unique. Knock-down of genes not previously known to be associated with WNV resistance identified their critical role in control of viral infection. Our study distinguishes both common gene pathways as well as novel cellular responses. Such analyses will be valuable for translational studies of susceptible and resistant individuals—and for targeting therapeutics—in multiple biological settings.
Keywords: anti-viral gene expression; immune response; macrophage; RNA-Seq; West Nile virus anti-viral gene expression; immune response; macrophage; RNA-Seq; West Nile virus
This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

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MDPI and ACS Style

Qian, F.; Chung, L.; Zheng, W.; Bruno, V.; Alexander, R.P.; Wang, Z.; Wang, X.; Kurscheid, S.; Zhao, H.; Fikrig, E.; Gerstein, M.; Snyder, M.; Montgomery, R.R. Identification of Genes Critical for Resistance to Infection by West Nile Virus Using RNA-Seq Analysis. Viruses 2013, 5, 1664-1681.

AMA Style

Qian F, Chung L, Zheng W, Bruno V, Alexander RP, Wang Z, Wang X, Kurscheid S, Zhao H, Fikrig E, Gerstein M, Snyder M, Montgomery RR. Identification of Genes Critical for Resistance to Infection by West Nile Virus Using RNA-Seq Analysis. Viruses. 2013; 5(7):1664-1681.

Chicago/Turabian Style

Qian, Feng; Chung, Lisa; Zheng, Wei; Bruno, Vincent; Alexander, Roger P.; Wang, Zhong; Wang, Xiaomei; Kurscheid, Sebastian; Zhao, Hongyu; Fikrig, Erol; Gerstein, Mark; Snyder, Michael; Montgomery, Ruth R. 2013. "Identification of Genes Critical for Resistance to Infection by West Nile Virus Using RNA-Seq Analysis." Viruses 5, no. 7: 1664-1681.


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