Inferring the demographic history of aye-ayes (Daubentonia madagascariensis) from high-quality, whole-genome, population-level data
The nocturnal aye-aye, Daubentonia madagascariensis, is one of the most elusive lemurs
on the island of Madagascar. The timing of its activity and arboreal lifestyle has generally …
on the island of Madagascar. The timing of its activity and arboreal lifestyle has generally …
Biases in ARG-based inference of historical population size in populations experiencing selection
Inferring the demographic history of populations provides fundamental insights into species
dynamics and is essential for developing a null model to accurately study selective …
dynamics and is essential for developing a null model to accurately study selective …
Evaluating power to detect recurrent selective sweeps under increasingly realistic evolutionary null models
The detection of selective sweeps from population genomic data often relies on the premise
that the beneficial mutations in question have fixed very near the sampling time. As it has …
that the beneficial mutations in question have fixed very near the sampling time. As it has …
A simulation framework for modeling the within-patient evolutionary dynamics of SARS-CoV-2
The global impact of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has
led to considerable interest in detecting novel beneficial mutations and other genomic …
led to considerable interest in detecting novel beneficial mutations and other genomic …
The effects of mutation and recombination rate heterogeneity on the inference of demography and the distribution of fitness effects
Disentangling the effects of demography and selection has remained a focal point of
population genetic analysis. Knowledge about mutation and recombination is essential in …
population genetic analysis. Knowledge about mutation and recombination is essential in …
Reply to: Population genetic considerations regarding the interpretation of within-patient SARS-CoV-2 polymorphism data
In comments on our paper “Within-host genetic diversity of SARS-CoV-2 lineages in
unvaccinated and vaccinated individuals,” Soni et al. argue that the methods we employed …
unvaccinated and vaccinated individuals,” Soni et al. argue that the methods we employed …
Temporal challenges in detecting balancing selection from population genomic data
The role of balancing selection in maintaining genetic variation remains an open question in
population genetics. Recent years have seen numerous studies identifying candidate loci …
population genetics. Recent years have seen numerous studies identifying candidate loci …
A whole-genome scan for evidence of recent positive and balancing selection in aye-ayes (Daubentonia madagascariensis) utilizing a well-fit evolutionary baseline …
The aye-aye (Daubentonia madagascariensis) is one of the 25 most endangered primate
species in the world, maintaining amongst the lowest genetic diversity of any primate …
species in the world, maintaining amongst the lowest genetic diversity of any primate …
Innate immunity decreases pathogen diversity during infection
JC Kagan - Proceedings of the National Academy of …, 2023 - National Acad Sciences
Infection can be defined as a life-threatening competition between two organisms for a given
ecological niche. In the context of human life, an ongoing competition exists with bacteria …
ecological niche. In the context of human life, an ongoing competition exists with bacteria …
Phylogenetic meta-analysis of chronic SARS-CoV-2 infections in immunocompromised patients shows no evidence of elevated evolutionary rates
S Översti, E Gaul, BEO Jensen, D Kühnert - bioRxiv, 2023 - biorxiv.org
Genomic sequences from rapidly evolving pathogens, sampled over time, hold information
on disease origin, transmission, and evolution. Together with their sampling times …
on disease origin, transmission, and evolution. Together with their sampling times …