A Physical and Regulatory Map of Host-Influenza Interactions Reveals Pathways in H1N1 Infection

Cell

Volumn 139, Issue 7, 2009, Pages 1255-1267

  Shapira, Sagi D ^a,b,c   Gat Viks, Irit ^a   Shum, Bennett O V ^a   Dricot, Amelie ^c,d   de Grace, Marciela M ^a,b,c   Wu, Liguo ^a,b,c   Gupta, Piyush B ^a   Hao, Tong ^c,d   Silver, Serena J ^a   Root, David E ^a   Hill, David E ^c,d   Regev, Aviv ^a   Hacohen, Nir ^a,b,c  

^a MASSACHUSETTS INSTITUTE OF TECHNOLOGY   (United States)

^b MASSACHUSETTS GENERAL HOSPITAL   (United States)

^c HARVARD MEDICAL SCHOOL   (United States)

^d DANA FARBER CANCER INSTITUTE   (United States)

Author keywords

HUMDISEASE; MICROBIO; SYSBIO

Indexed keywords

BETA INTERFERON; IMMUNOGLOBULIN ENHANCER BINDING PROTEIN; NONSTRUCTURAL PROTEIN 1; VIRUS ENZYME; VIRUS PROTEIN; WNT PROTEIN;

ANIMAL CELL; APOPTOSIS; ARTICLE; CONTROLLED STUDY; ENZYME SUBUNIT; GENE EXPRESSION PROFILING; GENETIC TRANSCRIPTION; HOST PATHOGEN INTERACTION; HUMAN; HUMAN CELL; IMMUNE RESPONSE; INFLUENZA VIRUS A H1N1; INTERFERON PRODUCTION; LUNG ALVEOLUS EPITHELIUM; MOLECULAR DYNAMICS; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; PROTEIN FUNCTION; PROTEIN RNA BINDING; REGULATORY MECHANISM; SIGNAL TRANSDUCTION; TWO HYBRID SYSTEM; VIRUS INFECTION; VIRUS REPLICATION;

EID: 72249103485     PISSN: 00928674     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.cell.2009.12.018     Document Type: Article

References (34)

1. Ashburner M., Ball C.A., Blake J.A., Botstein D., Butler H., Cherry J.M., Davis A.P., Dolinski K., Dwight S.S., Eppig J.T., et al., The Gene Ontology Consortium. Gene ontology: tool for the unification of biology. Nat. Genet. 25 (2000) 25-29
2. Bailer S.M., and Haas J. Connecting viral with cellular interactomes. Curr. Opin. Microbiol. 12 (2009) 453-459
3. Brander C., and Walker B.D. Modulation of host immune responses by clinically relevant human DNA and RNA viruses. Curr. Opin. Microbiol. 3 (2000) 379-386
4. Brass A.L., Dykxhoorn D.M., Benita Y., Yan N., Engelman A., Xavier R.J., Lieberman J., and Elledge S.J. Identification of host proteins required for HIV infection through a functional genomic screen. Science 319 (2008) 921-926
5. Bushman F.D., Malani N., Fernandes J., D'Orso I., Cagney G., Diamond T.L., Zhou H., Hazuda D.J., Espeseth A.S., König R., et al. Host cell factors in HIV replication: meta-analysis of genome-wide studies. PLoS Pathog. 5 (2009) e1000437
6. Eisen M.B., Spellman P.T., Brown P.O., and Botstein D. Cluster analysis and display of genome-wide expression patterns. Proc. Natl. Acad. Sci. USA 95 (1998) 14863-14868
7. Everett R.D., and Chelbi-Alix M.K. PML and PML nuclear bodies: implications in antiviral defence. Biochimie 89 (2007) 819-830
8. Gack M.U., Albrecht R.A., Urano T., Inn K.S., Huang I.C., Carnero E., Farzan M., Inoue S., Jung J.U., and García-Sastre A. Influenza A virus NS1 targets the ubiquitin ligase TRIM25 to evade recognition by the host viral RNA sensor RIG-I. Cell Host Microbe 5 (2009) 439-449
9. Garcia J.A., Ou S.H., Wu F., Lusis A.J., Sparkes R.S., and Gaynor R.B. Cloning and chromosomal mapping of a human immunodeficiency virus 1 "TATA" element modulatory factor. Proc. Natl. Acad. Sci. USA 89 (1992) 9372-9376
10. Hale B.G., Randall R.E., Ortín J., and Jackson D. The multifunctional NS1 protein of influenza A viruses. J. Gen. Virol. 89 (2008) 2359-2376
11. Hao L., Sakurai A., Watanabe T., Sorensen E., Nidom C.A., Newton M.A., Ahlquist P., and Kawaoka Y. Drosophila RNAi screen identifies host genes important for influenza virus replication. Nature 454 (2008) 890-893
12. Hayward S.D., Liu J., and Fujimuro M. Notch and Wnt signaling: mimicry and manipulation by gamma herpesviruses. Sci. STKE 2006 (2006) re4
13. Hiscott J., Nguyen T.L., Arguello M., Nakhaei P., and Paz S. Manipulation of the nuclear factor-kappaB pathway and the innate immune response by viruses. Oncogene 25 (2006) 6844-6867
14. König R., Zhou Y., Elleder D., Diamond T.L., Bonamy G.M., Irelan J.T., Chiang C.Y., Tu B.P., De Jesus P.D., Lilley C.E., et al. Global analysis of host-pathogen interactions that regulate early-stage HIV-1 replication. Cell 135 (2008) 49-60
15. Krishnan M.N., Ng A., Sukumaran B., Gilfoy F.D., Uchil P.D., Sultana H., Brass A.L., Adametz R., Tsui M., Qian F., et al. RNA interference screen for human genes associated with West Nile virus infection. Nature 455 (2008) 242-245
16. Krug R.M., Yuan W., Noah D.L., and Latham A.G. Intracellular warfare between human influenza viruses and human cells: the roles of the viral NS1 protein. Virology 309 (2003) 181-189
17. Lamesch P., Li N., Milstein S., Fan C., Hao T., Szabo G., Hu Z., Venkatesan K., Bethel G., Martin P., et al. hORFeome v3.1: a resource of human open reading frames representing over 10,000 human genes. Genomics 89 (2007) 307-315
18. Li S., Min J.Y., Krug R.M., and Sen G.C. Binding of the influenza A virus NS1 protein to PKR mediates the inhibition of its activation by either PACT or double-stranded RNA. Virology 349 (2006) 13-21
19. Li Q., Brass A.L., Ng A., Hu Z., Xavier R.J., Liang T.J., and Elledge S.J. A genome-wide genetic screen for host factors required for hepatitis C virus propagation. Proc. Natl. Acad. Sci. USA 106 (2009) 16410-16415
20. Luftig M., Yasui T., Soni V., Kang M.S., Jacobson N., Cahir-McFarland E., Seed B., and Kieff E. Epstein-Barr virus latent infection membrane protein 1 TRAF-binding site induces NIK/IKK alpha-dependent noncanonical NF-kappaB activation. Proc. Natl. Acad. Sci. USA 101 (2004) 141-146
21. Lutz A., Dyall J., Olivo P.D., and Pekosz A. Virus-inducible reporter genes as a tool for detecting and quantifying influenza A virus replication. J. Virol. Methods 126 (2005) 13-20
22. Patel R.C., Vestal D.J., Xu Z., Bandyopadhyay S., Guo W., Erme S.M., Williams B.R., and Sen G.C. DRBP76, a double-stranded RNA-binding nuclear protein, is phosphorylated by the interferon-induced protein kinase, PKR. J. Biol. Chem. 274 (1999) 20432-20437
23. Pichlmair A., Schulz O., Tan C.P., Näslund T.I., Liljeström P., Weber F., and Reis e Sousa C. RIG-I-mediated antiviral responses to single-stranded RNA bearing 5′-phosphates. Science 314 (2006) 997-1001
24. Reichman T.W., Parrott A.M., Fierro-Monti I., Caron D.J., Kao P.N., Lee C.G., Li H., and Mathews M.B. Selective regulation of gene expression by nuclear factor 110, a member of the NF90 family of double-stranded RNA-binding proteins. J. Mol. Biol. 332 (2003) 85-98
25. Rual J.F., Venkatesan K., Hao T., Hirozane-Kishikawa T., Dricot A., Li N., Berriz G.F., Gibbons F.D., Dreze M., Ayivi-Guedehoussou N., et al. Towards a proteome-scale map of the human protein-protein interaction network. Nature 437 (2005) 1173-1178
26. Sabbah A., Chang T.H., Harnack R., Frohlich V., Tominaga K., Dube P.H., Xiang Y., and Bose S. Activation of innate immune antiviral responses by Nod2. Nat. Immunol. 10 (2009) 1073-1080
27. Satterly N., Tsai P.L., van Deursen J., Nussenzveig D.R., Wang Y., Faria P.A., Levay A., Levy D.E., and Fontoura B.M. Influenza virus targets the mRNA export machinery and the nuclear pore complex. Proc. Natl. Acad. Sci. USA 104 (2007) 1853-1858
28. Segal E., Shapira M., Regev A., Pe'er D., Botstein D., Koller D., and Friedman N. Module networks: identifying regulatory modules and their condition-specific regulators from gene expression data. Nat. Genet. 34 (2003) 166-176
29. Staal F.J., Luis T.C., and Tiemessen M.M. WNT signalling in the immune system: WNT is spreading its wings. Nat. Rev. Immunol. 8 (2008) 581-593
30. Subramanian A., Tamayo P., Mootha V.K., Mukherjee S., Ebert B.L., Gillette M.A., Paulovich A., Pomeroy S.L., Golub T.R., Lander E.S., and Mesirov J.P. Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles. Proc. Natl. Acad. Sci. USA 102 (2005) 15545-15550
31. Takeuchi O., and Akira S. Innate immunity to virus infection. Immunol. Rev. 227 (2009) 75-86
32. Turpin E., Luke K., Jones J., Tumpey T., Konan K., and Schultz-Cherry S. Influenza virus infection increases p53 activity: role of p53 in cell death and viral replication. J. Virol. 79 (2005) 8802-8811
33. Venkatesan K., Rual J.F., Vazquez A., Stelzl U., Lemmens I., Hirozane-Kishikawa T., Hao T., Zenkner M., Xin X., Goh K.I., et al. An empirical framework for binary interactome mapping. Nat. Methods 6 (2009) 83-90
34. Wressnigg N., Shurygina A.P., Wolff T., Redlberger-Fritz M., Popow-Kraupp T., Muster T., Egorov A., and Kittel C. Influenza B mutant viruses with truncated NS1 proteins grow efficiently in Vero cells and are immunogenic in mice. J. Gen. Virol. 90 (2009) 366-374