Paul Den Uyl
MS student, graduation expected 2024
B.S., Geological Science – Oceanography Concentration, University of Michigan
Research Interests
Key words: microbial ecology, harmful algal blooms, unscrewed systems, saxitoxin, metagenomes
Overview: My work focuses on implementing microbiological and bioinformatic methods (i.e. metagenomics, amplicon sequencing, and qPCR) to examine unique datasets collected by uncrewed systems in Western Lake Erie. These studies are aimed to both expand current cyanobacterial harmful algal bloom (cyanoHAB) observational capabilities as well as offer insight into cyanoHAB ecology.
News
Publications
Yancey, C. E., Smith, D. J., Den Uyl, P. A., Mohamed, O. G., Yu, F., Ruberg, S. A., … & Dick, G. J. (2022). Metagenomic and metatranscriptomic insights into population diversity of Microcystis blooms: spatial and temporal dynamics of mcy genotypes, including a partial operon that can be abundant and expressed. Applied and Environmental Microbiology, 88(9), e02464-21.
Thompson, L. R., Anderson, S. R., Den Uyl, P. A., Patin, N. V., Lim, S. J., Sanderson, G., & Goodwin, K. D. (2022). Tourmaline: A containerized workflow for rapid and iterable amplicon sequence analysis using QIIME 2 and Snakemake. GigaScience, 11.
Den Uyl, P. A., Thompson, L. R., Errera, R. M., Birch, J. M., Preston, C. M., Ussler, W., … & Goodwin, K. D. (2022). Lake Erie field trials to advance autonomous monitoring of cyanobacterial harmful algal blooms.
Den Uyl, P. A., Harrison, S. B., Godwin, C. M., Rowe, M. D., Strickler, J. R., & Vanderploeg, H. A. (2021). Comparative analysis of Microcystis buoyancy in western Lake Erie and Saginaw Bay of Lake Huron. Harmful Algae, 108, 102102.
Beaulaurier, J., Luo, E., Eppley, J. M., Den Uyl, P., Dai, X., Burger, A., … & DeLong, E. F. (2020). Assembly-free single-molecule sequencing recovers complete virus genomes from natural microbial communities. Genome Research, 30(3), 437-446.
Kinsman-Costello, L.E., Sheik, C.S., Sheldon, N.D., Allen Burton, G., Costello, D.M., Marcus, D., Uyl, P.A.D. and Dick, G.J. (2017), Groundwater shapes sediment biogeochemistry and microbial diversity in a submerged Great Lake sinkhole. Geobiology, 15: 225-239. https://doi.org/10.1111/gbi.12215