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Host Genetics and Genomics

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Encyclopedia of AIDS
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Definition

HIV host genetic research seeks to comprehensively describe human genetic influences on HIV/AIDS. The rationale behind host genetic and genomic analyses, the different study designs, and the proven associations between DNA polymorphism and HIV infection outcomes are discussed in this section.

Heritability of Susceptibility to HIV

Susceptibility to HIV infection varies considerably between individuals, owing in part to the virus itself and to other environmental influences. It has long been known, however, that differences in HIV control are also partially heritable. The strongest evidence comes from in vitro studies of immortalized B lymphocytes from extended families, which demonstrated that more than half of the observed difference in cell susceptibility to HIV-1 is due to the individual genetic background (Loeuillet et al.2008). Heritability is also demonstrated by rare case studies involving related individuals: for example, identical twins concomitantly infected with...

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References

  • Dean M, Carrington M, Winkler C, Huttley GA, Smith MW, et al. Genetic restriction of HIV-1 infection and progression to AIDS by a deletion allele of the CKR5 structural gene. Hemophilia Growth and Development Study, Multicenter AIDS Cohort Study, Multicenter Hemophilia Cohort Study, San Francisco City Cohort, ALIVE Study. Science. 1996;273:1856–62.

    Article  PubMed  CAS  Google Scholar 

  • Deeks SG, Walker BD. Human immunodeficiency virus controllers: mechanisms of durable virus control in the absence of antiretroviral therapy. Immunity. 2007;27:406–16.

    Article  PubMed  CAS  Google Scholar 

  • Draenert R, Allen TM, Liu Y, Wrin T, Chappey C, et al. Constraints on HIV-1 evolution and immunodominance revealed in monozygotic adult twins infected with the same virus. J Exp Med. 2006;203:529–39.

    Article  PubMed  CAS  PubMed Central  Google Scholar 

  • Emond MJ, Louie T, Emerson J, Zhao W, Mathias RA, et al. Exome sequencing of extreme phenotypes identifies DCTN4 as a modifier of chronic Pseudomonas aeruginosa infection in cystic fibrosis. Nat Genet. 2012;44:886–9.

    Article  PubMed  CAS  PubMed Central  Google Scholar 

  • Fellay J, Shianna KV, Ge D, Colombo S, Ledergerber B, et al. A whole-genome association study of major determinants for host control of HIV-1. Science. 2007;317:944–7.

    Article  PubMed  CAS  PubMed Central  Google Scholar 

  • Fellay J, Ge D, Shianna KV, Colombo S, Ledergerber B, et al. Common genetic variation and the control of HIV-1 in humans. PLoS Genet. 2009;5:e1000791.

    Article  PubMed  PubMed Central  Google Scholar 

  • Fellay J, Frahm N, Shianna KV, Cirulli ET, Casimiro DR, et al. Host genetic determinants of T cell responses to the MRKAd5 HIV-1 gag/pol/nef vaccine in the step trial. J Infect Dis. 2011;203:773–9.

    Article  PubMed  CAS  PubMed Central  Google Scholar 

  • He W, Neil S, Kulkarni H, Wright E, Agan BK, et al. Duffy antigen receptor for chemokines mediates trans-infection of HIV-1 from red blood cells to target cells and affects HIV-AIDS susceptibility. Cell Host Microbe. 2008;4:52–62.

    Article  PubMed  CAS  PubMed Central  Google Scholar 

  • Julg B, Reddy S, van der Stok M, Kulkarni S, Qi Y, et al. Lack of Duffy antigen receptor for chemokines: no influence on HIV disease progression in an African treatment-naive population. Cell Host Microbe. 2009;5:413–5; author reply 418–419.

    Article  PubMed  CAS  PubMed Central  Google Scholar 

  • Kløverpris HN, Harndahl M, Leslie AJ, Carlson JM, Ismail N, et al. HIV control through a single nucleotide on the HLA-B locus. J Virol. 2012;86:11493–500.

    Article  PubMed  PubMed Central  Google Scholar 

  • Kulkarni S, Savan R, Qi Y, Gao X, Yuki Y, et al. Differential microRNA regulation of HLA-C expression and its association with HIV control. Nature. 2011;472:495–8.

    Article  PubMed  CAS  PubMed Central  Google Scholar 

  • Lingappa JR, Petrovski S, Kahle E, Fellay J, Shianna K, et al. Genomewide association study for dof HIV-1 acquisition and viral set point in HIV-1 serodiscordant couples with quantified virus exposure. PLoS One. 2011;6:e28632.

    Article  PubMed  CAS  PubMed Central  Google Scholar 

  • Loeuillet C, Deutsch S, Ciuffi A, Robyr D, Taffé P, et al. In vitro whole-genome analysis identifies a susceptibility locus for HIV-1. PLoS Biol. 2008;6:e32.

    Article  PubMed  PubMed Central  Google Scholar 

  • Martin MP, Dean M, Smith MW, Winkler C, Gerrard B, et al. Genetic acceleration of AIDS progression by a promoter variant of CCR5. Science. 1998;282:1907–11.

    Article  PubMed  CAS  Google Scholar 

  • McLaren PJ, Ripke S, Pelak K, Weintrob AC, Patsopoulos NA, et al. Fine-mapping classical HLA variation associated with durable host control of HIV-1 infection in African Americans. Hum Mol Genet. 2012;21:4334–47.

    Article  PubMed  CAS  PubMed Central  Google Scholar 

  • Pelak K, Goldstein DB, Walley NM, Fellay J, Ge D, et al. Host determinants of HIV-1 control in African Americans. J Infect Dis. 2010;201:1141–9.

    Article  PubMed  CAS  PubMed Central  Google Scholar 

  • Petrovski S, Fellay J, Shianna KV, Carpenetti N, Kumwenda J, et al. Common human genetic variants and HIV-1 susceptibility: a genome-wide survey in a homogeneous African population. AIDS. 2011;25:513–8.

    Article  PubMed  PubMed Central  Google Scholar 

  • Price AL, Patterson NJ, Plenge RM, Weinblatt ME, Shadick NA, et al. Principal components analysis corrects for stratification in genome-wide association studies. Nat Genet. 2006;38:904–9.

    Article  PubMed  CAS  Google Scholar 

  • Smith MW, Dean M, Carrington M, Winkler C, Huttley GA, et al. Contrasting genetic influence of CCR2 and CCR5 variants on HIV-1 infection and disease progression. Hemophilia Growth and Development Study (HGDS), Multicenter AIDS Cohort Study (MACS), Multicenter Hemophilia Cohort Study (MHCS), San Francisco City Cohort (SFCC), ALIVE Study. Science. 1997;277:959–65.

    Article  PubMed  CAS  Google Scholar 

  • Telenti A, McLaren P. Genomic approaches to the study of HIV-1 acquisition. J Infect Dis. 2010;202 Suppl 3:S382–6.

    Article  PubMed  Google Scholar 

  • The International HIV Controllers Study. The major genetic determinants of HIV-1 control affect HLA class I peptide presentation. Science. 2010;330:1551–7.

    Article  PubMed Central  Google Scholar 

  • Walley NM, Julg B, Dickson SP, Fellay J, Ge D, et al. The Duffy antigen receptor for chemokines null promoter variant does not influence HIV-1 acquisition or disease progression. Cell Host Microbe. 2009;5:408–10; author reply 418–409.

    Article  PubMed  CAS  PubMed Central  Google Scholar 

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Correspondence to Jacques Fellay .

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Fellay, J., McLaren, P. (2013). Host Genetics and Genomics. In: Hope, T., Stevenson, M., Richman, D. (eds) Encyclopedia of AIDS. Springer, New York, NY. https://doi.org/10.1007/978-1-4614-9610-6_32-1

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  • DOI: https://doi.org/10.1007/978-1-4614-9610-6_32-1

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