Kyle T. David
NSF Postdoctoral Fellow in the Rokas Lab at Vanderbilt University

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Research Interests

I am an integrative biologist studying the macroevolutionary and macroecological consequences of genetic duplication and its role in generating novelty across molecules, phenotypes, and ecosystems.


  • Genetic Novelty

    Whole genome duplications are the largest mutations found in nature and often precede adaptive radiations, evolutionary novelties, and periods of environmental change. I use experimental and computational approaches to identify these genome duplication events across the tree of life to reconcile their short term consequences with long term evolutionary advantages.

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    Phenotypic Novelty

    As the primary source of new genes in eukaryotes, duplication events are sometimes predicted to be drivers of phenotypic novelty. However, we lack understanding of whether innovation through duplication is a general feature of life, or restricted to a few examples. I develop and apply phylogenetic comparative methods to test the significance of gene and genome duplication in the evolution of novel traits and adaptation.

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    Environmental Novelty

    Polyploids (organisms with >2 genome copies) are often found in new or fluctuating environmental conditions. I study the ecology and biogeography of polyploids to understand how they are better able to adapt to extreme, rapidly-changing environments such as areas threatened by human activities and polar regions.

Publications

David, K. T., Harrison, M. C., Opulente, D. A., LaBella, A. L., Wolters, J. F., Zhou, X., ... & Rokas, A. (2024). Saccharomycotina yeasts defy long-standing macroecological patterns. Proceedings of the National Academy of Sciences, 121(10), e2316031121.

Sun, L., David, K. T., Wolters, J. F., Karlen, S. D., Gonçalves, C., Opulente, D. A., ... & Hittinger, C. T. (2024). Functional and evolutionary integration of a fungal gene with a bacterial operon. Molecular Biology and Evolution, msae045

David, K.T., Halanych, K.M. (2023). Unsupervised deep learning can identify protein functional groups from unaligned sequences. Genome Biology and Evolution, evad084.

David, K.T. (2022). Global gradients in the distribution of animal polyploids. Proceedings of the National Academy of Sciences, 38(12), 5806-5818.

Tassia, M. G., David, K.T., Townsend, J.P., & Halanych, K.M. (2021). TIAMMAt: Leveraging biodiversity to revise protein domain models, evidence from innate immunity. Molecular Biology and Evolution, 48(5), 991-1000.

David, K. T. & Halanych, K. M. (2021). Spatial proximity between polyploids across South American frog genera. Journal of Biogeography, 48(5), 991-1000. [Editors' Choice]

Zhang, Y., Yap, K. N., David, K. T., & Swanson, D. L. (2021). The high-energy aerial insectivore lifestyle of swallows does not produce clear thermogenic side effects. Ornithology, 138(3), ukab022.

Li, Y.*, David, K. T.*, Shen, X. X., Steenwyk, J. L., Halanych, K. M., Rokas, A. (2020). Feature frequency profile-based phylogenies are inaccurate. Proceedings of the National Academy of Sciences, 117(50), 31580-31581.

David, K. T., Halanych, K. M., Oaks, J. R., (2020). Patterns of gene evolution following duplications and speciations in vertebrates. PeerJ, 8, e8813.

Li, Y., Tassia, M. G., Waits, D. S., Bogantes, V. E., David, K. T., Halanych, K. M. (2019). Genomic adaptations to chemosymbiosis in the deep-sea seep-dwelling tubeworm Lamellibrachia luymesi. BMC Biology, 17(1), 91.

David, K. T., Wilson, A. E., Halanych, K. M. (2019). Sequencing disparity in the genomic era. Molecular Biology and Evolution, 36(8), 1624-1627. [Featured Cover Article]

David, K. T. & Halanych, K. M. (2017). Mitochondrial genome of Dinophilus gyrociliatus (Annelida: Dinophilidae). Mitochondrial DNA Part B, 2(2), 831-832.

McMahan, C. D., Ginger, L., Cage, M., David, K. T., Chakrabarty, P., Johnston, M., & Matamoros, W. A. (2017). Pleistocene to holocene expansion of the black-belt cichlid in Central America, Vieja maculicauda (Teleostei: Cichlidae). PloS one, 12(5), e0178439.

David, K. T., Tanabe, P., Fieber, L. A. (2016). Resource availability drives mating role selection in a simultaneous hermaphrodite Aplysia californica. The Biological Bulletin, 231(3), 199-206.

*these authors contributed equally to the work

Curriculum Vitae