Founder effects in the assessment of HIV polymorphisms and HLA allele associations

Bhattacharya, T., Daniels, M., Heckerman, D., Foley, B., Frahm, N., Kadie, C., Carlson, J., Yusim, K., McMahon, B., Gaschen, B., Mallal, S., Mullins, J.I., Nickle, D.C., Herbeck, J., Rousseau, C, Learn, G.H., Miura, T., Brander, C., Walker, B.ORCID: 0000-0002-8506-6740 and Korber, B. (2007) Founder effects in the assessment of HIV polymorphisms and HLA allele associations. Science, 315 (5818). pp. 1583-1586.

Abstract

Escape from T cell–mediated immune responses affects the ongoing evolution of rapidly evolving viruses such as HIV. By applying statistical approaches that account for phylogenetic relationships among viral sequences, we show that viral lineage effects rather than immune escape often explain apparent human leukocyte antigen (HLA)–mediated immune-escape mutations defined by older analysis methods. Phylogenetically informed methods identified immune-susceptible locations with greatly improved accuracy, and the associations we identified with these methods were experimentally validated. This approach has practical implications for understanding the impact of host immunity on pathogen evolution and for defining relevant variants for inclusion in vaccine antigens.

Item Type:	Journal Article
Murdoch Affiliation:	Institute for Immunology and Infectious Diseases
Publisher:	American Association for the Advancement of Science
Copyright:	2007 American Association for the Advancement of Science
URI:	http://researchrepository.murdoch.edu.au/id/eprint/14892

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