Publications

D. Nick Weber, Summer Lindelien, Andrew C. Dutterer, Jason R. Dotson, Jennifer Moran, Andrew T. Fields, William F. Patterson, David S. Portnoy (2025). Nonlethal, Epigenetic Age Estimation in a Freshwater Sportfish, Florida Bass (Micropterus salmoides ). Ecology and Evolution.

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Robert J. Bretzing-Tungate, Kevin W. Conway, Megan G. Bean, Ryan K. Smith, Christopher M. Hollenbeck, Andrew T. Fields, Elizabeth P. Dolan, Steven M. Mussmann, David S. Portnoy (2025). Conservation genomics of the imperiled Leon springs pupfish, Cyprinodon bovinus, across temporal and spatial scales. Conservation Genetics.

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David S Portnoy, Robert J Bretzing-Tungate, T Fields, Megan G Bean, Ryan K Smith, Rose Blanchard, Kevin W Conway (2025). A total evidence approach justifies taxonomic splitting of the endangered Pecos gambusia into three species. Royal Society Open Science.

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D. Nick Weber, Jennifer T. Wyffels, Chris Buckner, Robert George, F. Ed Latson, Véronique LePage, Kady Lyons, David S. Portnoy (2024). Noninvasive, epigenetic age estimation in an elasmobranch, the cownose ray (Rhinoptera bonasus). Scientific Reports.

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A. T. Fields, K. W. Conway, E. P. Dolan, D. G. Swift, A. A. Monroe, C. M. Hollenbeck, P. T. Bean, J. D. Anderson, D. S. Portnoy (2024). Complete mitochondrial genomes of Notropis oxyrhynchus and Notropis buccula (Cypriniformes:Leuciscidae). Mitochondrial DNA Part B.

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Kayla R. Dye, Andrew T. Fields, Megan G. Bean, Sarah M. Robertson, Christopher M. Hollenbeck, Kevin W. Conway, David S. Portnoy (2024). Assessment of genomic diversity within and between two cryptic shiners, the West Texas shiner Notropis megalops and the Texas shiner Notropis amabilis. Journal of Fish Biology.

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Andrew T. Fields, William B. Driggers, Christian M. Jones, David S. Portnoy (2024). Population structure of the Atlantic angel shark (Squatina dumeril) in United States waters of the western North Atlantic Ocean. Environmental Biology of Fishes.

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David S. Portnoy, Shannon J. O'Leary, Andrew T. Fields, Christopher M. Hollenbeck, R. Dean Grubbs, Cheston T. Peterson, Jayne M. Gardiner, Douglas H. Adams, Brett Falterman, J. Marcus Drymon, Jeremy M. Higgs, Erin L. Pulster, Tonya R. Wiley, Steven A. Murawski (2024). Complex patterns of genetic population structure in the mouthbrooding marine catfish, Bagre marinus, in the Gulf of Mexico and U.S. Atlantic. Ecology and Evolution.

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D. Nick Weber, Andrew T. Fields, Derek W. Chamberlin, William F. Patterson, David S. Portnoy (2024). Epigenetic age estimation in a long-lived, deepwater scorpionfish: insights into epigenetic clock development. Canadian Journal of Fisheries and Aquatic Sciences.

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Andrew T. Fields, Elizabeth P. Hunt, Katherine Lanoue, Aaron S. Baxter, Riley S. Sebby, W. Jay Tarkington, David S. Portnoy (2024). Development, verification, and implementation of an eDNA detection assay for emydids with a case study on diamondback terrapins, Malaclemys terrapin, and red eared slider, Trachemys script elegans. Conservation Genetics Resources.

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Elizabeth P. Hunt, Stuart C. Willis, Kevin W. Conway, David S. Portnoy (2023). Interrelationships and biogeography of the New World pufferfish genus Sphoeroides (Tetraodontiformes: Tetraodontidae) inferred using ultra-conserved DNA elements. Molecular Phylogenetics and Evolution.

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Dominic G. Swift, Shannon J. O'Leary, R. Dean Grubbs, Bryan S. Frazier, Andrew T. Fields, Jayne M. Gardiner, J. Marcus Drymon, Dana M. Bethea, Tonya R. Wiley, David S. Portnoy (2023). Philopatry influences the genetic population structure of the blacktip shark (Carcharhinus limbatus) at multiple spatial scales. Molecular Ecology.

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Shannon J. O'Leary, Christopher M. Hollenbeck, Robert R. Vega, Ashley N. Fincannon, David S. Portnoy (2022). Effects of spawning success and rearing-environment on genome-wide variation of red drum in a large stock-enhancement program. Aquaculture.

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Stuart C. Willis, Christopher M. Hollenbeck, Jonathan B. Puritz, David S. Portnoy (2022). Genetic recruitment patterns are patchy and spatiotemporally unpredictable in a deep-water snapper (Lutjanus vivanus) sampled in fished and protected areas of western Puerto Rico. Conservation Genetics.

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Kristen A. Dahl, Andrew Fields, Alison Robertson, David S. Portnoy, Alex Grieme, Grant Lockridge, William F. Patterson (2022). Factors affecting DNA barcoding classification accuracy for piscine prey: An experimental assessment with invasive lionfish. Journal of Experimental Marine Biology and Ecology.

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D. Nick Weber, Andrew T. Fields, William F. Patterson, Beverly K. Barnett, Christopher M. Hollenbeck, David S. Portnoy (2022). Novel epigenetic age estimation in wild-caught Gulf of Mexico reef fishes. Canadian Journal of Fisheries and Aquatic Sciences.

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David S Portnoy, Andrew T Fields, Jonathan B Puritz, Christopher M Hollenbeck, William F Patterson (2022). Genomic analysis of red snapper, textitLutjanus campechanus , population structure in the U.S. Atlantic and Gulf of Mexico. ICES Journal of Marine Science.

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Amanda M. Barker, Bryan S. Frazier, Douglas H. Adams, Christine N. Bedore, Carolyn N. Belcher, William B. Driggers, Ashley S. Galloway, James Gelsleichter, R. Dean Grubbs, Eric A. Reyier, David S. Portnoy (2021). Distribution and relative abundance of scalloped (Sphyrna lewini) and Carolina (S. gilberti) hammerheads in the western North Atlantic Ocean. Fisheries Research.

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Shannon J. O'Leary, Christopher M. Hollenbeck, Robert R. Vega, David S. Portnoy (2021). Disentangling complex genomic signals to understand population structure of an exploited, estuarine‐dependent flatfish. Ecology and Evolution.

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Elizabeth P. Hunt, Kevin W. Conway, Kathryn Hamilton, Eric J. Hilton, Kyle R. Piller, Jeremy J. Wright, David S. Portnoy (2021). Molecular Phylogenetics of the Chub Suckers (Teleostei: Catostomidae: Erimyzon) Inferred from Nuclear and Mitochondrial Loci. Ichthyology & Herpetology.

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Dominic G. Swift, David S. Portnoy (2021). Identification and Delineation of Essential Habitat for Elasmobranchs in Estuaries on the Texas Coast. Estuaries and Coasts.

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Megan J. Osborne, David S. Portnoy, Andrew T. Fields, Megan G. Bean, Christopher W. Hoagstrom, Kevin W. Conway (2021). Under the radar: genetic assessment of Rio Grande Shiner (Notropis jemezanus) and Speckled Chub (Macrhybopsis aestivalis), two Rio Grande basin endemic cyprinids that have experienced recent range contractions. Conservation Genetics.

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Amanda M. Barker, Bryan S. Frazier, James Gelsleichter, R. Dean Grubbs, Christopher M. Hollenbeck, David S. Portnoy (2019). High Rates of Genetic Polyandry in the Blacknose Shark, Carcharhinus acronotus.

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Pavel v. Dimens, Stuart Willis, R. Dean Grubbs, David S. Portnoy (2019). A genomic assessment of movement and gene flow around the South Florida vicariance zone in the migratory coastal blacknose shark, Carcharhinus acronotus.

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Amanda M. Barker, Douglas H. Adams, William B. Driggers, Bryan S. Frazier, David S. Portnoy (2019). Hybridization between sympatric hammerhead sharks in the western North Atlantic Ocean.

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Christopher M. Hollenbeck, David S. Portnoy, John R. Gold (2019). Evolution of population structure in an estuarine‐dependent marine fish.

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Shannon J. O’Leary, Christopher M. Hollenbeck, Robert R. Vega, John R. Gold, David S. Portnoy (2018). Genetic mapping and comparative genomics to inform restoration enhancement and culture of southern flounder, Paralichthys lethostigma.

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Shannon J. O'Leary, Jonathan B. Puritz, Stuart C. Willis, Christopher M. Hollenbeck, David S. Portnoy (2018). These aren’t the loci you’re looking for: Principles of effective SNP filtering for molecular ecologists.

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Stuart C. Willis, Christopher M. Hollenbeck, Jonathan B. Puritz, John R. Gold, David S. Portnoy (2017). Haplotyping RAD loci: an efficient method to filter paralogs and account for physical linkage.

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A. M. Barker, B. S. Frazier, D. M. Bethea, J. R. Gold, D. S. Portnoy (2017). Identification of young-of-the-year great hammerhead shark Sphyrna mokarran in northern Florida and South Carolina.

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Christopher M Hollenbeck, David S Portnoy, Dana Wetzel, Tracy a Sherwood, Paul B Samollow, John R Gold (2017). Linkage Mapping and Comparative Genomics of Red Drum (Sciaenops ocellatus) Using Next-Generation Sequencing.

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David S. Portnoy, Stuart C. Willis, Elizabeth Hunt, Dominic G. Swift, John R. Gold, Kevin W. Conway (2017). Molecular phylogenetics of New World searobins (Triglidae; Prionotinae).

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Jonathan B. Puritz, John R. Gold, David S. Portnoy (2016). Fine-scale partitioning of genomic variation among recruits in an exploited fishery: causes and consequences.

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C. M. Hollenbeck, D. S. Portnoy, J. R. Gold (2016). A method for detecting recent changes in contemporary effective population size from linkage disequilibrium at linked and unlinked loci.

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David S. Portnoy, Christopher M. Hollenbeck, Dana M. Bethea, Bryan S. Frazier, Jim Gelsleichter, John R. Gold (2016). Population structure, gene flow, and historical demography of a small coastal shark (Carcharhinus isodon) in US waters of the Western Atlantic Ocean.

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D. S. Portnoy, J. B. Puritz, C. M. Hollenbeck, J. Gelsleichter, D. Chapman, J. R. Gold (2015). Selection and sex‐biased dispersal in a coastal shark: the influence of philopatry on adaptive variation.

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Christopher M. Hollenbeck, David S. Portnoy, Eric Saillant, John R. Gold (2015). Population structure of red snapper (Lutjanus campechanus) in U.S. waters of the western Atlantic Ocean and the northeastern Gulf of Mexico.

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Melissa M. Giresi, R. Dean Grubbs, David S. Portnoy, William B. Driggers, Lisa Jones, John R. Gold (2015). Identification and Distribution of Morphologically Conserved Smoothhound Sharks in the Northern Gulf of Mexico.

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Christopher M. Hollenbeck, David S. Portnoy, John R. Gold (2015). A genetic linkage map of red drum (Sciaenops ocellatus) and comparison of chromosomal syntenies with four other fish species.

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D. S. Portnoy, C. M. Hollenbeck, C. N. Belcher, W. B. Driggers, B. S. Frazier, J. Gelsleichter, R. D. Grubbs, J. R. Gold (2014). Contemporary population structure and post‐glacial genetic demography in a migratory marine species, the blacknose shark, textitCarcharhinus acronotus.

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J. B. Puritz, M. A. Renshaw, D. Abrego, R. R. Vega, J. R. Gold (2014). Reproductive Variance of Brood Dams and Sires used in Restoration Enhancement of Spotted Seatrout in Texas Bays and Estuaries.

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D. S. Portnoy, C. M. Hollenbeck, J. S. Johnston, H. M. Casman, J. R. Gold (2014). Parthenogenesis in a whitetip reef shark textitTriaenodon obesus involves a reduction in ploidy.

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Jonathan B. Puritz, Christopher M. Hollenbeck, John R. Gold (2014). dDocent: A RADseq, variant-calling pipeline designed for population genomics of non-model organisms.

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David S Portnoy, Christopher M. Hollenbeck, R. Rodrigo Vidal, John R. Gold (2014). A comparison of neutral and immune genetic variation in Atlantic salmon, Salmo salar L., exposed to the ISA virus in Chilean aquaculture facilities.

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