Non-Uniform and Non-Random Binding of Nucleoprotein to Influenza A and B Viral RNA
Abstract
:1. Introduction
2. Materials and Methods
2.1. Cells and Viruses
2.2. HITS-CLIP and Deep Sequencing Data Analysis
2.3. Pearson Correlation Analysis
2.4. Peak Analysis
2.5. Continuous Wavelet Transforms
3. Results
3.1. Seasonal H3N2 and IBV NP-vRNA Binding Profiles
3.2. Characterization of Enriched NP-Binding Regions
3.3. Comparison of IAV and IBV NP-vRNA Binding Profile
4. Discussion
Author Contributions
Acknowledgments
Conflicts of Interest
References
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Viral Segments | Virus Comparison | ||||||
---|---|---|---|---|---|---|---|
H1N1pdm | H3N2 | IBV | |||||
Pearson | p-Value | Pearson | p-Value | Pearson | p-Value | ||
Combined eight segments | WSN | 0.42 | <0.00001 | 0.29 | <0.00001 | −0.01 | 0.33816 |
H1N1pdm | 0.33 | <0.00001 | 0.04 | <0.00001 | |||
H3N2 | −0.02 | 0.00618 | |||||
Segment 1 (PB2) | WSN | 0.40 | <0.00001 | 0.33 | <0.00001 | −0.07 | 0.00124 |
H1N1pdm | 0.20 | <0.00001 | 0.05 | 0.02013 | |||
H3N2 | 0.35 | <0.00001 | |||||
Segment 2 (PB1) | WSN | 0.08 | 0.00023 | 0.22 | <0.00001 | 0.14 | <0.00001 |
H1N1pdm | 0.68 | <0.00001 | 0.01 | 0.73457 | |||
H3N2 | 0.20 | <0.00001 | |||||
Segment 3 (PA) | WSN | 0.66 | <0.00001 | 0.65 | <0.00001 | −0.07 | 0.00061 |
H1N1pdm | 0.67 | <0.00001 | −0.04 | 0.03624 | |||
H3N2 | −0.15 | <0.00001 | |||||
Segment 4 (HA) | WSN | 0.70 | <0.00001 | 0.17 | <0.00001 | 0.10 | 2.00 × 10−5 |
H1N1pdm | 0.16 | <0.00001 | 0.30 | <0.00001 | |||
H3N2 | 0.11 | <0.00001 | |||||
Segment 5 (NP) | WSN | 0.41 | <0.00001 | 0.25 | <0.00001 | 0.22 | <0.00001 |
H1N1pdm | 0.30 | <0.00001 | 0.19 | <0.00001 | |||
H3N2 | 0.01 | 0.67598 | |||||
Segment 6 (NA) | WSN | 0.64 | <0.00001 | 0.20 | <0.00001 | −0.06 | 0.0283 |
H1N1pdm | 0.35 | <0.00001 | 0.01 | 0.81643 | |||
H3N2 | −0.08 | 0.00274 | |||||
Segment 7 (M) | WSN | 0.34 | <0.00001 | 0.70 | <0.00001 | −0.04 | 0.20718 |
H1N1pdm | 0.19 | <0.00001 | −0.03 | 0.30731 | |||
H3N2 | −0.07 | 0.01504 | |||||
Segment 8 (NS) | WSN | −0.06 | 0.03796 | 0.36 | <0.00001 | 0.29 | <0.00001 |
H1N1pdm | 0.45 | <0.00001 | −0.10 | 0.00067 | |||
H3N2 | 0.13 | 2.00 × 10−5 |
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Le Sage, V.; Nanni, A.V.; Bhagwat, A.R.; Snyder, D.J.; Cooper, V.S.; Lakdawala, S.S.; Lee, N. Non-Uniform and Non-Random Binding of Nucleoprotein to Influenza A and B Viral RNA. Viruses 2018, 10, 522. https://doi.org/10.3390/v10100522
Le Sage V, Nanni AV, Bhagwat AR, Snyder DJ, Cooper VS, Lakdawala SS, Lee N. Non-Uniform and Non-Random Binding of Nucleoprotein to Influenza A and B Viral RNA. Viruses. 2018; 10(10):522. https://doi.org/10.3390/v10100522
Chicago/Turabian StyleLe Sage, Valerie, Adalena V. Nanni, Amar R. Bhagwat, Dan J. Snyder, Vaughn S. Cooper, Seema S. Lakdawala, and Nara Lee. 2018. "Non-Uniform and Non-Random Binding of Nucleoprotein to Influenza A and B Viral RNA" Viruses 10, no. 10: 522. https://doi.org/10.3390/v10100522