I study mechanisms responsible for broad patterns of organismal diversity using comparative studies at the population level. My work spans the fields of evolutionary genomics, population genetics, and macroevolution. Current and ongoing research projects include:
Causes of population divergence
Main collaborators: Brian Tilston Smith (AMNH), Glenn Seeholzer (AMNH), Haw Chuan Lim (USNM), Alex Aleixo (MPEG), Camila Ribas (INPA), Robb Brumfield (LSU)
Some species contain remarkable variation across their distributions, whereas others are similar from place to place. The extent to which these differences are random or are a result of differences among species in ecological or life history traits is largely unknown. I am examining trait dependence in geographic variation using population genetic data combined with ecological trait data. Comparative analyses of population genetic data allow us to examine the impact of species-specific traits on population divergence.
Papers: Harvey et al. 2017, Lim et al. 2017, Smith et al. 2017, Smith et al. 2014
Population-level processes vs. macroevolution
Main collaborators: Brian Tilston Smith (AMNH), Glenn Seeholzer (AMNH), Dan Rabosky (UMich), Robb Brumfield (LSU)
Although diversity within species varies widely, this variation may or may not persist over long evolutionary timescales to impact trends in species diversity. I combine population genetic data on intraspecific diversity with phylogenetic data on species diversity through time to assess links between diversity across timescales. If population-level patterns persist to macroevolutionary timescales, this supports the potential importance of processes at work within species in shaping organismal diversity across space and time.
Papers: Harvey et al. In press, Harvey et al. 2017
Avian plumage evolution within and among species
Main collaborators: Dan Rabosky (UMich)
Birds have varied and spectacular plumages, but the source of this diversity is still largely unknown. Do plumage differences between species originate from variation within species? At what rates do different plumage characters, such as color or pattern, change through evolutionary time? In order to address these questions, I am developing high-throughput methods to quantify plumage from museum specimens using full-spectrum digital imagery, photogrammetry, and computer vision and machine learning.
Applications of genomic data to comparative studies of non-model organisms
Main collaborators: Brant Faircloth (LSU), Travis Glenn (UGA), Brian Tilston Smith (AMNH), John McCormack (Occidental), Robb Brumfield (LSU)
New DNA sequencing technologies are able to produce massive amounts of genetic data, but their application to research in non-model organisms is in its infancy. I have been working to develop and test approaches for obtaining data appropriate for comparative evolutionary studies. The method I have focused on is sequence capture of ultraconserved elements. Ultraconserved elements are parts of the genome shared by widely divergent species - this conservation facilitates alignment of homologous sequences and adjacent variable regions provide information for comparative study. I have also been working with sequence capture of other types of loci (such as exons) and with restriction digest associated DNA sequencing (RAD-Seq). I have been developing bioinformatics pipelines and analytical tools that allow these powerful genomic techniques to be brought to bear on non-model species and samples in museum collections.
Papers: Harvey et al. 2016, Smith et al. 2014, Faircloth et al. 2012