P. Pennings

Compensatory adaptation does not fully alleviate the costs associated with rifampicin resistance and occurs predominantly through off-target mutations

This study shows compensatory mutations do not fully offset rifampicin resistance costs and mostly occur outside the drug target, with convergent pathways across populations.

The genetic interaction between HIV and the antibody repertoire

The paper analyzes HIV and antibody repertoire interactions in longitudinal samples, finding enriched V gene segments in HIV-associated AbR partitions but little evidence of antagonistic coevolution.

Polygenic Adaptation: From sweeps to subtle frequency shifts

This paper develops a theoretical framework to predict the adaptive architecture of a polygenic trait based on mutation rates, population size, and genetic redundancy, showing that adaptation can occur via sweeps or small allele frequency shifts depending on parameters.

High resolution spatio-temporal assessment of simian/human immunodeficiency virus (SHIV) evolution reveals a highly dynamic process within the host

This study tracks SHIV evolution in macaques to show drug resistance spreads rapidly across compartments but does not equilibrate, with the gut showing faster turnover and less wild-type virus retention.