Impact of Adenovirus E4-ORF3 Oligomerization and Protein Localization on Cellular Gene Expression
Abstract
:1. Introduction
2. Materials and Methods
2.1. Cell Culture and Virus Infection
2.2. Immunofluoresence and Western Blot Analysis
2.3. Creation of an E4-ORF3 Inducible Cell Line
2.4. Microarray Analysis
2.5. RT-qPCR
2.6. Generation of Knockdown Cell Lines
3. Results
3.1. Creation and Characterization of a Tet-Inducible E4-ORF3 Cell Line
3.2. Microarray Experiments and Quality Control
3.3. Data Analysis and Target Gene Selection
Category | Term | Count | % | p value |
---|---|---|---|---|
Biological process | Cell surface receptor-linked signal transduction | 59 | 18.97 | 1.01E-09 |
Response to wounding | 29 | 9.32 | 5.77E-08 | |
Inflammatory response | 19 | 6.11 | 8.57E-06 | |
Defense response | 25 | 8.04 | 4.95E-05 | |
Cell-cell signaling | 25 | 8.04 | 6.65E-05 | |
Immune response | 25 | 8.04 | 1.94E-04 | |
G protein coupled receptor signaling pathway | 28 | 9.00 | 3.44E-04 | |
Cell migration | 14 | 4.50 | 8.35E-04 | |
Cellular component | Extracellular region | 74 | 23.79 | 2.86E-11 |
Extracellular space | 36 | 11.58 | 1.42E-08 | |
Integral to plasma membrane | 50 | 16.08 | 2.03E-08 | |
Intrinsic to plasma membrane | 50 | 16.08 | 4.20E-08 | |
Extracellular region part | 42 | 13.50 | 1.10E-07 | |
Plasma membrane part | 62 | 19.93 | 1.49E-04 | |
Molecular function | Growth factor activity | 14 | 4.50 | 3.75E-06 |
Polysaccharide binding | 13 | 4.18 | 1.36E-05 | |
Pattern binding | 13 | 4.18 | 1.36E-05 | |
Cytokine activity | 14 | 4.50 | 2.47E-05 | |
Glycosoaminoglycan binding | 12 | 3.86 | 2.86E-05 | |
Ligand-gated ion channel activity | 11 | 3.54 | 6.42E-05 | |
Ligand-gated channel activity | 11 | 3.54 | 6.42E-05 | |
Heparin binding | 10 | 3.22 | 6.47E-05 | |
Carbohydrate binding | 18 | 5.79 | 1.00E-04 | |
Gated channel activity14 | 16 | 5.14 | 2.71E-04 |
3.4. Target Gene Validation
3.5. Linking Differential Gene Expression to E4-ORF3 Functions
4. Discussion
5. Conclusions
Supplementary Files
Supplementary File 1Acknowledgments
Author Contributions
Conflicts of Interest
References
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Vink, E.I.; Zheng, Y.; Yeasmin, R.; Stamminger, T.; Krug, L.T.; Hearing, P. Impact of Adenovirus E4-ORF3 Oligomerization and Protein Localization on Cellular Gene Expression. Viruses 2015, 7, 2428-2449. https://doi.org/10.3390/v7052428
Vink EI, Zheng Y, Yeasmin R, Stamminger T, Krug LT, Hearing P. Impact of Adenovirus E4-ORF3 Oligomerization and Protein Localization on Cellular Gene Expression. Viruses. 2015; 7(5):2428-2449. https://doi.org/10.3390/v7052428
Chicago/Turabian StyleVink, Elizabeth I., Yueting Zheng, Rukhsana Yeasmin, Thomas Stamminger, Laurie T. Krug, and Patrick Hearing. 2015. "Impact of Adenovirus E4-ORF3 Oligomerization and Protein Localization on Cellular Gene Expression" Viruses 7, no. 5: 2428-2449. https://doi.org/10.3390/v7052428