A. D. Washburne

Statistical challenges for inferring multiple SARS-CoV-2 spillovers with early outbreak phylodynamics

This paper challenges claims of multiple SARS-CoV-2 spillovers by showing methodological flaws in genome analysis and phylodynamic modeling.

Natural strongyle infection reduces relative abundance of inflammation-inducing Prevotella in wild primates

The paper investigates the relationship between natural strongyle infection and changes in the gut microbiome of wild primates, finding reduced Prevotella abundance linked to inflammation.

Homogeneous selection promotes microdiversity in the glacier-fed stream microbiome

The paper shows that homogeneous selection drives microdiversity in glacier-fed stream microbiomes, with implications for microbial diversity under climate change.

A phylogenetic model for the recruitment of species into microbial communities and application to studies of thehuman microbiome

The paper develops a phylogenetic model to study microbial community assembly and applies it to human microbiome data, finding underdispersion in most cases.

Phylofactorization - a graph partitioning algorithm to identify phylogenetic scales of ecological data

This paper introduces Phylofactorization, a graph-partitioning algorithm to identify phylogenetic scales in ecological data, and demonstrates its application to mammalian body mass and gut microbiome studies.