The genetic interaction between HIV and the antibody repertoire [article]

Nicolas Strauli, Emily K Fryer, Olivia Pham, Mohamed Abdel-Mohsen, Shelley N Facente, Christopher Pilcher, Pleuni Pennings, Satish Pillai, Ryan D. Hernandez
2019 bioRxiv   pre-print
The interaction between human immunodeficiency virus (HIV) and the antibody repertoire (AbR) during chronic infection can provide important information for HIV vaccine research, yet has not been well-characterized on a systems level. We deeply sequenced the HIV population and the AbR of ten HIV-infected, antiretroviral (ART)-naïve individuals, each with 10-20 longitudinal samples spanning 4-14 years. Our unbiased sequencing approach identified partitions of AbRs showing evidence of interaction
more » ... nce of interaction with autologous HIV populations. We show that these HIV-associated partitions are enriched for the V gene segments of known HIV broadly neutralizing antibodies (bnAbs), indicating that the HIV-responding component of the AbR can be identified via time-series genetic data. Despite this evidence for larger-scale AbR/HIV interactions at the sub-population level, we found little to no evidence for coevolution. This suggests that coevolution is either rare, or hard to detect, which has important vaccine design implications.
doi:10.1101/646968 fatcat:dcdpxsivezbp5gkhs55vhin5b4