G3: Genes, Genomes, Genetics, 2020 The evolution of drug resistance in pathogens such as HIV is an important and widely known example in the field of evolutionary medicine. Here, we focus on a unique data set from the late 1990s with multiple viral sequences from multiple time points in ...
Kadie-Ann Williams, Pleuni Pennings
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Soft selective sweeps in evolutionary rescue [PDF]
Genetics, 2016 AbstractEvolutionary rescue occurs when a population that is declining in size because of an environmental change is rescued by genetic adaptation. Evolutionary rescue is an important phenomenon at the intersection of ecology and population genetics.
Wilson, Benjamin A. +2 more
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The classical hitchhiking model with continuous mutational pressure and purifying selection
Ecology and Evolution, 2021 Detecting selective sweeps driven by strong positive selection and localizing the targets of selection in the genome play a major role in modern population genetics and genomics.
Wolfgang Stephan
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Network models of frequency modulated sweep detection. [PDF]
PLoS ONE, 2014 Frequency modulated (FM) sweeps are common in species-specific vocalizations, including human speech. Auditory neurons selective for the direction and rate of frequency change in FM sweeps are present across species, but the synaptic mechanisms ...
Steven Skorheim +2 more
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Strong Selective Sweeps on the X Chromosome in the Human-Chimpanzee Ancestor Explain Its Low Divergence. [PDF]
PLoS Genetics, 2015 The human and chimpanzee X chromosomes are less divergent than expected based on autosomal divergence. We study incomplete lineage sorting patterns between humans, chimpanzees and gorillas to show that this low divergence can be entirely explained by ...
Julien Y Dutheil +4 more
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The clarifying role of time series data in the population genetics of HIV.
PLoS Genetics, 2021 HIV can evolve remarkably quickly in response to antiretroviral therapies and the immune system. This evolution stymies treatment effectiveness and prevents the development of an HIV vaccine.
Alison F Feder +2 more
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Genetic draft, selective interference, and population genetics of rapid adaptation [PDF]
, 2013 To learn about the past from a sample of genomic sequences, one needs to understand how evolutionary processes shape genetic diversity. Most population genetic inference is based on frameworks assuming adaptive evolution is rare.
Neher, Richard A.
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Soft selective sweeps in complex demographic scenarios [PDF]
Genetics, 2014 Recent studies have shown that adaptation from de novo mutation often produces so-called soft selective sweeps, where adaptive mutations of independent mutational origin sweep through the population at the same time. Population genetic theory predicts that soft sweeps should be likely if the product of the population size and the mutation rate towards ...
Wilson, Benjamin A +2 more
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More effective drugs lead to harder selective sweeps in the evolution of drug resistance in HIV-1
eLife, 2016 In the early days of HIV treatment, drug resistance occurred rapidly and predictably in all patients, but under modern treatments, resistance arises slowly, if at all.
Alison F Feder +5 more
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Private selective sweeps identified from next-generation pool-sequencing reveal convergent pathways under selection in two inbred Schistosoma mansoni strains. [PDF]
PLoS Neglected Tropical Diseases, 2013 BACKGROUND: The trematode flatworms of the genus Schistosoma, the causative agents of schistosomiasis, are among the most prevalent parasites in humans, affecting more than 200 million people worldwide. In this study, we focused on two well-characterized
Julie A J Clément +11 more
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