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

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...

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Autores principales: 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.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2013
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3738954/
https://www.ncbi.nlm.nih.gov/pubmed/23881275
http://dx.doi.org/10.3390/v5071664
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author 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.
author_facet 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.
author_sort Qian, Feng
collection PubMed
description 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.
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spelling pubmed-37389542013-08-09 Identification of Genes Critical for Resistance to Infection by West Nile Virus Using RNA-Seq Analysis 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. Viruses Article 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. MDPI 2013-07-08 /pmc/articles/PMC3738954/ /pubmed/23881275 http://dx.doi.org/10.3390/v5071664 Text en © 2013 by the authors; licensee MDPI, Basel, Switzerland. http://creativecommons.org/licenses/by/3.0/ This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution license (http://creativecommons.org/licenses/by/3.0/).
spellingShingle Article
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.
Identification of Genes Critical for Resistance to Infection by West Nile Virus Using RNA-Seq Analysis
title Identification of Genes Critical for Resistance to Infection by West Nile Virus Using RNA-Seq Analysis
title_full Identification of Genes Critical for Resistance to Infection by West Nile Virus Using RNA-Seq Analysis
title_fullStr Identification of Genes Critical for Resistance to Infection by West Nile Virus Using RNA-Seq Analysis
title_full_unstemmed Identification of Genes Critical for Resistance to Infection by West Nile Virus Using RNA-Seq Analysis
title_short Identification of Genes Critical for Resistance to Infection by West Nile Virus Using RNA-Seq Analysis
title_sort identification of genes critical for resistance to infection by west nile virus using rna-seq analysis
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3738954/
https://www.ncbi.nlm.nih.gov/pubmed/23881275
http://dx.doi.org/10.3390/v5071664
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