Viruses 2014, 6, 3271-3292; doi:10.3390/v6083271 OPEN ACCESS viruses ISSN 1999-4915 www.mdpi.com/journal/viruses Review Mechanisms of HIV Protein Degradation into Epitopes: Implications for Vaccine Design Marijana Rucevic †, Julie Boucau †, Jens Dinter †, Georgio Kourjian † and Sylvie Le Gall * Ragon Institute of MGH, MIT and Harvard, Massachusetts General Hospital and Harvard Medical School, Cambridge, MA 02139, USA; E-Mails:
[email protected] (M.R.);
[email protected] (J.B.);
[email protected] (J.D.);
[email protected] (G.K.) † These authors contributed equally to this work. * Author to whom correspondence should be addressed; E-Mail:
[email protected]; Tel.: +1-857-268-7010. Received: 11 June 2014; in revised form: 6 August 2014 / Accepted: 11 August 2014 / Published: 21 August 2014 Abstract: The degradation of HIV-derived proteins into epitopes displayed by MHC-I or MHC-II are the first events leading to the priming of HIV-specific immune responses and to the recognition of infected cells. Despite a wealth of information about peptidases involved in protein degradation, our knowledge of epitope presentation during HIV infection remains limited. Here we review current data on HIV protein degradation linking epitope production and immunodominance, viral evolution and impaired epitope presentation. We propose that an in-depth understanding of HIV antigen processing and presentation in relevant primary cells could be exploited to identify signatures leading to efficient or inefficient epitope presentation in HIV proteomes, and to improve the design of immunogens eliciting immune responses efficiently recognizing all infected cells. Keywords: HIV; antigen processing; protein degradation; proteasome; aminopeptidase; peptidase; immunogen; vaccine vector; dendritic cells; T cells; viral evolution Viruses 2014, 6 3272 1.