RNA interference screen for human genes associated with West Nile virus infection

Krishnan, Manoj N.; Ng, Aylwin; Sukumaran, Bindu; Gilfoy, Felicia D.; Uchil, Pradeep D.; Sultana, Hameeda; Brass, Abraham L.; Adametz, Rachel; Tsui, Melody; Qian, Feng; Montgomery, Ruth R.; Lev, Sima; Mason, Peter W.; Koski, Raymond A.; Elledge, Stephen J.; Xavier, Ramnik J.; Agaisse, Hervé; Fikrig, Erol

doi:10.1038/nature07207

Cited by 465 publications

(513 citation statements)

References 35 publications

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“…An important association independent from energy or metabolic homeostasis was identified for SLC16A4 , which encodes for MCT5 (formerly referred to as MCT4), with West Nile virus infections 74. In an in vitro RNA interference screen to investigate virus host cell interactions, knockdown of SLC16A4 was demonstrated to enhance West Nile virus infection.…”

Section: Ophthalmological Diseasesmentioning

confidence: 99%

Clinical and Functional Relevance of the Monocarboxylate Transporter Family in Disease Pathophysiology and Drug Therapy

Fisel

Schaeffeler

Schwab

2018

Clinical Translational Sci

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The solute carrier (SLC) SLC16 gene family comprises 14 members and encodes for monocarboxylate transporters (MCTs), which mediate the absorption and distribution of monocarboxylic compounds across plasma membranes. As the knowledge about their physiological function, activity, and regulation increases, their involvement and contribution to cancer and other diseases become increasingly evident. Moreover, promising opportunities for therapeutic interventions by directly targeting their endogenous functions or by exploiting their ability to deliver drugs to specific organ sites emerge.

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Section: Ophthalmological Diseasesmentioning

confidence: 99%

Clinical and Functional Relevance of the Monocarboxylate Transporter Family in Disease Pathophysiology and Drug Therapy

Fisel

Schaeffeler

Schwab

2018

Clinical Translational Sci

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“…Indeed, recent application of the GSB approach to the analysis of animal-virus interactions has revealed new and interesting insights. For example, thoughtful statistical analyses of expression data has facilitated identification of virus-regulated genes (VRGs), some of which encode cellular factors required for completion of the infection cycle, while others are direct targets that the virus manipulates to deactivate the cell defense mechanisms [9,[12][13][14]. It has also been observed that VRGs are preferentially highly connected elements in the host regulatory network [15,16,17••].…”

Section: The Systems Biology Approachmentioning

confidence: 99%

A systems biology approach to the evolution of plant–virus interactions

Elena

Carrera

Rodrigo

2011

Current Opinion in Plant Biology

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ElsevierElena Fito, SF.; Carrera, J.; Rodrigo, J. (2011). A systems biology approach to the evolution of plant-virus interactions. Current Opinion in Plant Biology. 14(4):372-377. doi:10.1016/j.pbi.2011.03.013. Omic approaches to the analysis of plant-virus interactions are becoming increasingly popular. These types of data, in combination with models of interaction networks, will aid in revealing not only host components that are important for the virus life cycle, but also general patterns about the way in which different viruses manipulate host regulation of gene expression for their own benefit and possible mechanisms by which viruses evade host defenses. Here, we review studies identifying host genes regulated by viruses and discuss how these genes integrate in host regulatory and interaction networks, with a particular focus on the physical properties of these networks. A systems biology approach to the evolution of plant-virus interactions The systems biology approachGenomic tools have allowed assessment of gene expression at a genome-wide scale, providing unprecedented views of the host-virus interaction. To make use of all of the information contained in these large data sets, however, it is necessary to use computational and mathematical tools to disentangle the interactions between the molecular components of both biological entities and to identify how these interactions determine the outcome of the infection [1,2••], which is known as the field of genomic systems biology (GSB). GSB is a top-down approach that takes advantage of the recent development of high-throughput experimental techniques for obtaining omic data, and constitutes the antithesis of the reductionist paradigm (with a bottom-up perspective) that has been dominating molecular biology. The GSB approach consists of cycling between the generation of experimental data and modeling by means of reverse-engineering techniques to propose testable hypotheses about biological systems, experimental validation of these hypotheses and quantification of the relevant model parameters, and then using the newly acquired quantitative description to refine the computational model and finally make predictions of the system behavior [3,4•].To complete its infectious cycle, a few components of a virus, including its nucleic acids and encoded proteins, must establish multiple and complex interactions not only among themselves [5,6•,7,8] but also with a myriad of components of the host cell [9,10•,11]. The outcome of all these interactions is that the plant controls the spread of viral infection or, alternatively, the virus overcomes the host defenses and establishes a productive infection that may or may not be associated with the development of symptoms. While the GSB approach is being extensively used in the analysis of animal virus interactions (e.g. hepatitis C, human immunodeficiency, yellow fever, influenza A and herpesviruses), plant virology has not yet benefitted to the same extent, and the most relevant studies in the field generally apply some t...

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“…The advent of siRNA technology and the availability of genome-wide siRNA libraries have been useful in identifying host factors required for influenza virus, an NS RNA virus, and several positive-strand RNA viruses, as well as HIV (10)(11)(12)(13)(14)(15)(16)(17)(18)(19). The lack of similar studies with other NS RNA viruses has limited the understanding of the role of host cell factors in replication of these viruses.…”

mentioning

confidence: 99%

RNAi screening reveals requirement for host cell secretory pathway in infection by diverse families of negative-strand RNA viruses

Panda

Das

Dinh

et al. 2011

Proc. Natl. Acad. Sci. U.S.A.

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Negative-strand (NS) RNA viruses comprise many pathogens that cause serious diseases in humans and animals. Despite their clinical importance, little is known about the host factors required for their infection. Using vesicular stomatitis virus (VSV), a prototypic NS RNA virus in the family Rhabdoviridae, we conducted a human genomewide siRNA screen and identified 72 host genes required for viral infection. Many of these identified genes were also required for infection by two other NS RNA viruses, the lymphocytic choriomeningitis virus of the Arenaviridae family and human parainfluenza virus type 3 of the Paramyxoviridae family. Genes affecting different stages of VSV infection, such as entry/uncoating, gene expression, and assembly/release, were identified. Depletion of the proteins of the coatomer complex I or its upstream effectors ARF1 or GBF1 led to detection of reduced levels of VSV RNA. Coatomer complex I was also required for infection of lymphocytic choriomeningitis virus and human parainfluenza virus type 3. These results highlight the evolutionarily conserved requirements for gene expression of diverse families of NS RNA viruses and demonstrate the involvement of host cell secretory pathway in the process.RNA interference | transcription and replication | host cell factors for virus infection

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RNA interference screen for human genes associated with West Nile virus infection

Cited by 465 publications

References 35 publications

Clinical and Functional Relevance of the Monocarboxylate Transporter Family in Disease Pathophysiology and Drug Therapy

Clinical and Functional Relevance of the Monocarboxylate Transporter Family in Disease Pathophysiology and Drug Therapy

A systems biology approach to the evolution of plant–virus interactions

RNAi screening reveals requirement for host cell secretory pathway in infection by diverse families of negative-strand RNA viruses

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