Population genetics of IFITM3 in Portugal and Central Africa reveals a potential modifier of influenza severity

Immunogenetics

Volumn 70, Issue 3, 2018, Pages 169-177

  David, Susana ^a,b   Correia, Vanessa ^a   Antunes, Liliana ^a   Faria, Ricardo ^a   Ferrão, José ^a   Faustino, Paula ^a,c   Nunes, Baltazar ^a   Maltez, Fernando ^d   Lavinha, João ^a,e   Rebelo de Andrade, Helena ^a,f  

^a NATIONAL INSTITUTE OF HEALTH DR RICARDO JORGE   (Portugal)

^b UNIVERSITY OF PORTO   (Portugal)

^c INSTITUTO DE MEDICINA MOLECULAR   (Portugal)

^d HOSPITAL CURRY CABRAL   (Portugal)

^e UNIVERSITY OF LISBON   (Portugal)

^f RESEARCH INSTITUTE FOR MEDICINES IMED ULISBOA   (Portugal)

Author keywords

Central Africa; IFITM3 gene; Influenza virus; Population genetics; Portugal

Indexed keywords

AFRICAN; ALLELE; AMPLICON; ANGOLAN; ARTICLE; ATTRIBUTABLE RISK; CENTRAL AFRICA; CENTRAL AFRICAN; DISEASE SEVERITY; EAST ASIAN; EUROPEAN; GENE EXPRESSION; GENE FREQUENCY; GENE LINKAGE DISEQUILIBRIUM; GENETIC ASSOCIATION; GENETIC ASSOCIATION STUDY; GENETIC RISK; GENETIC VARIABILITY; GENOTYPE; HAPLOTYPE; HAPLOTYPE MAP; HUMAN; HUMAN CELL; IFITM3 GENE; INFLUENZA A (H1N1); MAJOR CLINICAL STUDY; POPULATION GENETICS; PORTUGAL; PORTUGUESE (CITIZEN); PRIORITY JOURNAL; SINGLE NUCLEOTIDE POLYMORPHISM; ADULT; FEMALE; GENETIC PREDISPOSITION; GENETICS; IMMUNOLOGY; INFLUENZA; INFLUENZA A VIRUS (H1N1); MALE; MIDDLE AGED; RISK FACTOR; SEVERITY OF ILLNESS INDEX; VIROLOGY;

IFITM3 PROTEIN, HUMAN; MEMBRANE PROTEIN; RNA BINDING PROTEIN;

ADULT; AFRICA, CENTRAL; ALLELES; FEMALE; GENETIC ASSOCIATION STUDIES; GENETIC PREDISPOSITION TO DISEASE; GENETICS, POPULATION; GENOTYPE; HUMANS; INFLUENZA A VIRUS, H1N1 SUBTYPE; INFLUENZA, HUMAN; MALE; MEMBRANE PROTEINS; MIDDLE AGED; POLYMORPHISM, SINGLE NUCLEOTIDE; PORTUGAL; RISK FACTORS; RNA-BINDING PROTEINS; SEVERITY OF ILLNESS INDEX;

EID: 85028352017     PISSN: 00937711     EISSN: 14321211     Source Type: Journal    
DOI: 10.1007/s00251-017-1026-2     Document Type: Article

References (25)

1. Alcaïs A, Abel L, Casanova JL (2009) Human genetics of infectious diseases: between proof of principle and paradigm. J Clin Invest 119:2506–2514. doi:10.1172/JCI38111
2. Bailey CC, Huang I-C, Kam C, Farzan M (2012) Ifitm3 limits the severity of acute influenza in mice. PLoS Pathog 8:e1002909. doi:10.1371/journal.ppat.1002909
3. Barret JC, Fry B, Maller J, Daly MJ (2005) Haplotype analysis and visualization of LD and haplotype maps. Bioinformatics 21:263–265
4. Beaglehole R, Bonita R, Kjellstrom T (1993) Measuring health and disease. Basic epidemiology. World Health Organization, Geneva, pp 13–20
5. Brass AL, Huang IC, Benita Y et al (2009) The IFITM proteins mediate cellular resistance to influenza A(H1N1) virus, west nile virus, and dengue virus. Cell 139:1243–1254
6. Darnell JE Jr, Kerr IM, Stark GR (1994) Jak-STAT pathways and transcriptional activation in response to IFNs and other extracellular signaling proteins. Science 264:1415–1421
7. Desmet FO, Hamroun D, Lalande M, Collod-Beroud G, Claustres M, Beroud C (2009) Human splicing finder: an online bioinformatics tool to predict splicing signals. Nucleic Acids Res 37(9):e67. doi:10.1093/nar/gkp215
8. Everitt AR, Clare S, Pertel T et al (2012) IFITM3 restricts the morbidity and mortality associated with influenza. Nature 484:519–523
9. Horby P, Nguyen NY, Dunstan SJ, Baillie JK (2012) The role of host genetics in susceptibility to influenza: a systematic review. PLoS One 7:e33180
10. Jia R, Pan Q, Ding S, Rong L, Liu SL, Geng Y, Qiao W, Liang C (2012) The N-terminal region of IFITM3 modulates its antiviral activity by regulating IFITM3 cellular localization. J Virol 86:13697–13707
11. Lewin AR, Reid LE, McMahon M, Stark GR, Kerr IM (1991) Molecular analysis of a human interferon-inducible gene family. Eur J Biochem 199:417–423
12. Mathelier A, Zhao X, Zhang AW, Parcy F, Worsley-Hunt R, Arenillas DJ, Buchman S, Chen C-Y, Chou A, Lenasescu H, Lim J, Shyr C, Tan G, Zhou M, Lenhard B, Sandelin A, Wasserman WW (2014) JASPAR 2014: an extensively expanded and updated open-access database of transcription factor binding profiles. Nucleic Acids Res 42(Database issue):D142–D147
13. Mills TC, Rautanen A, Elliott KS et al (2013) IFITM3 and susceptibility to respiratory viral infections in the community. J Infect Dis 209:1028–1031
14. Ranjbar S, Haridas V, Jasenosky LD et al (2015) A role for IFITM proteins in restriction of Mycobacterium tuberculosis infection. Cell Rep 13:874–883
15. Schoggins JW, Wilson SJ, Panis M et al (2011) A diverse range of gene products are effectors of the type I interferon antiviral response. Nature 472:481–485
16. Shen C, Wu XR, Jiao WW et al (2013) A functional promoter polymorphism of IFITM3 is associated with susceptibility to pediatric tuberculosis in Han Chinese population. PLoS One 8:e67816
17. Stephens M, Donnelly P (2003) A comparison of Bayesian methods for haplotype reconstruction from population genotype data. Am J Hum Genet 73:1162–1169
18. Stephens M, Smith N, Donnelly P (2001) A new statistical method for haplotype reconstruction from population data. Am J Hum Genet 68:978–989
19. Tartour K, Cimarelli A (2015) Les IFITM, un obstacle commun à de nombreux virus. Med Sci (Paris) 31:377–382
20. The 1000 Genomes Project Consortium (2012) An integrated map of genetic variation from 1,092 human genomes. Nature 491:56–65
21. Trinchieri G (2010) Type I interferon: friend or foe? J. Exp Med 207:2053–2063
22. Van Kerkhove MD, Vandemaele KAH, Shinde V, Jaramillo-Gutierrez G, Koukounari A et al (2011) Risk factors for severe outcomes following 2009 influenza A (H1N1) infection: a global pooled analysis. PLoS Med 8:e1001053
23. Weidner JM, Jiang D, Pan XB, Chang J, Block TM et al (2010) Interferon induced cell membrane proteins, IFITM3 and tetherin, inhibit vesicular stomatitis virus infection via distinct mechanisms. J Virol 84:12646–12657
24. Yang X, Tan B, Zhou X, Xue J, Zhang X, Wang P et al (2015) Interferon-inducible transmembrane protein 3 genetic variant rs12252 and influenza susceptibility and severity: a meta-analysis. PLoS One 10:e0124985. doi:10.1371/journal.pone.0124985
25. Zhang Y-H, Zhao Y, Li N et al (2013) Interferon-induced transmembrane protein-3 genetic variant rs12252-C is associated with severe influenza in Chinese individuals. Nat Commun 4:1418