Publications

Preprints

  • Townsend JP, Lamb AD, Hassler HB, Sah P, Nishio AA, Nguyen C, Galvani AP, & Dornburg A. Projecting the seasonality of endemic COVID-19. In bioRxiv. PDF
  • Dornburg A, Zapfe KL, Williams R, Alfaro ME, Morris R, Adachi H, Flores J, Santini F, Near TJ, & Frédérich B. Considering decoupled phenotypic diversification between ontogenetic phases in macroevolution: An example using Triggerfishes (Balistidae). In bioRxiv (p. 2022.01.11.475856). PDF
  • Agan, M, Taylor, W, Willis, W, Lair, H, Murphy, A, Marinelli, A, Young, I, New, G, Islam, M, Dornburg, Alex, Munir, M, Schlueter, J, and Gibas, C. 2022. "Wastewater as a backdoor to serology?" medRxiv
  • Berv, J, Singhal, S, Field, D, Walker-Hale, N, McHugh, S, Shipley, J, Miller, E, Kimball, R, Braun, E, Dornburg, A, Parins-Fukuchi, C, Prum, R, Friedman, M, and Smith, S. 2022. "Molecular early burst associated with the diversification of birds at the K–Pg boundary" bioRxiv
  • Mallik, R, Carlson, K, Wcisel, DJ, Fisk, M, Yoder, JA, A Dornburg. A chromosome level genome assembly of longnose gar, Lepisosteus osseus. bioRxiv
  • Yoder, B, Parker, E, Tew, A, Jones, CD, A Dornburg. Decoupled spectral tuning and eye size diversification patterns in an Antarctic adaptive radiation. bioRxiv

Publications

2023

  • Townsend, JP, Hassler, H. Dornburg, A. Infection by SARS-CoV-2 with alternate frequencies of mRNA vaccine boosting. Journal of Medical Virology. 95:e28461 Published online 28 April 2022. PDF
  • Wcisel DJ, Dornburg A, McConnell SC, Hernandez KM, Andrade J, de Jong JLO, Litman GW, Yoder JA. A highly diverse set of novel immunoglobulin-like transcript (NILT) genes in zebrafish indicates a wide range of functions with complex relationships to mammalian receptors. Immunogenetics.
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2022

  • Townsend, JP, Hassler, HB, Sah, P, Galvani, AP, Dornburg, A. The durability of natural infection and vaccine-induced immunity against future infection by SARS- CoV-2  Proceedings of the Natural Academy of Sciences PDF
  • Ghezelayagh A, Harrington RC, Burress ED, Campbell MA, Buckner JC, Chakrabarty P, Glass JR, McCraney T, Unmack PJ, Thacker CE, Alfaro ME, Friedman ST, Ludt WB, Cowman PF, Friedman M, Price S A, Dornburg A, Faircloth BC, Wainwright PC, & Near TJ. Prolonged morphological expansion of spiny-rayed fishes following the end-Cretaceous. Nature Ecology & Evolution PDF
  • Dornburg A, Mallik R, Wang Z, Bernal MA, Thompson B, Bruford E, Nebert D, Vasiliou V, Yohe LR, Yoder JA, Townsend JP. Placing human gene families into their evolutionary context. Human Genomics 16 (1), 1-26 PDF
  • Carlson KB, Wcisel DJ, Ackerman HD, Romanet J, Christiansen EF, Niemuth JN, Williams C, Breen M, Stoskopf M, Dornburg A, and Yoder JA. Transcriptome annotation reveals minimal immunogenetic diversity among Wyoming toads, Anaxyrus baxteri. Conservation Genetics, Published online 28 April 2022. PDF
  • Fisk JN, Mahal AR, Dornburg A, Gaffney SG, Aneja S, Contessa JN, Rimm D, Yu JB, & Townsend JP. Premetastatic shifts of endogenous and exogenous mutational processes support consolidative therapy in EGFR-driven lung adenocarcinoma.  Cancer Letters, 526, 346–351. PDF
  • Parker, E, Zapfe, KL, Yadav, J, Frédérich, B, Jones, CD, Economo, EP, Federman, S, Near, TJ, and Dornburg, A. Pulsed Extinction Drives Convergence in the Adaptive Radiation of Antarctic Fishes.American NaturalistPDF
  • Dornburg A, & Yoder JA. On the relationship between extant innate immune receptors and the evolutionary origins of jawed vertebrate adaptive immunity.  Immunogenetics, 74(1), 111–128. PDF
  • Parker E, Dornburg A, Struthers CD, Jones CD, & Near TJ. Phylogenomic species delimitation dramatically reduces species diversity in an Antarctic adaptive radiation.  Systematic Biology. PDF

2021

  • Townsend JP, Hassler HB, Wang Z, Miura S, Singh J, Kumar S, Ruddle NH, Galvani AP & Dornburg A. The durability of immunity against reinfection by SARS-CoV-2: a comparative evolutionary study.  The Lancet Microbe, 2(12), e666–e675. PDF
  • Thompson AW, Hawkins MB, Parey E et al .The bowfin genome illuminates the developmental evolution of ray-finned fishes.  Nature Genetics 53, 1373–1384. PDF
  • Lamb AD, Lippi CA, Watkins-Colwell GJ, Jones A, Warren DL, Iglesias TL, Brandley MC, & Dornburg A. Comparing the dietary niche overlap and ecomorphological differences between invasive Hemidactylus mabouia geckos and a native gecko competitor.  Ecology and Evolution, 11(24), 18719–18732. PDF
  • Dornburg A, Ota T, Criscitiello MF, Salinas I, Sunyer JO, Magadán S, Boudinot P, Xu Z, Flajnik MF, Singer A, Gambón-Deza F, Hansen JD, & Yoder JA. From IgZ to IgT: A Call for a Common Nomenclature for Immunoglobulin Heavy Chain Genes of Ray-Finned Fish.  Zebrafish, 18(6), 343–345. PDF
  • Dornburg A, Wcisel DJ, Zapfe K, Ferraro E, Roupe-Abrams L, Thompson AW, Braasch I, Ota T, & Yoder JA. Holosteans contextualize the role of the teleost genome duplication in promoting the rise of evolutionary novelties in the ray-finned fish innate immune system.  Immunogenetics, 73(6), 479–497. PDF
  • Dornburg A, & Near TJ. The Emerging Phylogenetic Perspective on the Evolution of Actinopterygian Fishes.  Annual Review of Ecology, Evolution, and Systematics. PDF
  • Sigler K, Warren D, Tracy B, Forrestel E, Hogue G, Dornburg A. Assessing bias in aggregated historical spatial data: A case study of North Carolina’s freshwater fishes. Ecosphere, 10.1002/ ecs2.3878, 12, 12, PDF
  • Warren DL, Eytan RI, Dornburg A, Iglesias TL, Brandley MC, & Wainwright PC. Reevaluating claims of ecological speciation in Halichoeres bivittatus.  Ecology and Evolution, 11(16), 11449–11456. PDF
  • Warren DL, Dornburg A, Zapfe K, & Iglesias TL. The effects of climate change on Australia’s only endemic Pokémon: Measuring bias in species distribution models.  Methods in Ecology and Evolution , 12(6), 985–995. PDF
  • Dornburg A, Wang Z, Wang J, Mo ES, López-Giráldez F, & Townsend JP. Comparative Genomics within and across Bilaterians Illuminates the Evolutionary History of ALK and LTK Proto-Oncogene Origination and Diversification.  Genome Biology and Evolution, 13(1). PDF

2020

  • Daane JM, Dornburg A, Smits P, MacGuigan DJ, Hawkins MB, Near TJ, Detrich HW Harris MP. Historical contingency shapes adaptive radiation in Antarctic fishes. Nature Ecology and Evolution 3: 1102—1109 PDF
  • Wcisel DJ, Howard JT, Yoder JA, Dornburg A. Transcriptome ortholog alignment sequence tools (TOAST) for phylogenomic dataset assembly. BMC evolutionary biology. Dec (20):1-0 PDF
  • Parker E, Jones CD, Arana PM, Alegría NA, Sarralde R, Gallardo F, Phillips AJ, Williams BW, Dornburg A. Infestation dynamics between parasitic Antarctic fish leeches (Piscicolidae) and their crocodile icefish hosts (Channich- thyidae). Polar Biology 43: 665—77 PDF
  • Somarelli JA, Gardner H, Cannataro V, Gunady EF, Boddy AM, Johnson NA, Fisk JN, Gaffney SG, Chuang JH, Li S, Ciccarelli FD, Panchenko AR, Megquier K, Kumar S, Dornburg A, DeGregori J, Townsend JP. Molecular biology and evolution of cancer: from discovery to action. Molecular Biology and Evolution 37: 320—326 PDF
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2019

  • Field D, Berv JS, Hsiang AY, Lanfear R, Landis MJ, Dornburg A. Timing the extant avian radiation: the rise of modern birds and the importance of modelling molecular rate variation. In book: Pennaraptoran theropod dinosaurs: Past progress and new frontiers (pp.159-181). Bulletin of the American Museum of Natural History, New York PDF
  • Phillips AJ, Dornburg A, Zapfe K, James SW, Erseus C, Anderson F, Lemmon A, Lemmon EM, Holland S, Williams BW. Phylogenomic analysis of a putative missing link sparks reinterpretation of leech evolution. Genome Biology and Evolution 11: 1712—1722 PDF
  • Near TJ, Ghezelayagh A, Ojeda FP, Dornburg A. Recent diversification in an ancient lineage of Notothenioid fishes. Polar Biology 42: 943—952 PDF
  • Parker CE, Dornburg A, Domínguez-Domínguez O, Pillar KR. Assessing phylogenetic information to reveal uncertainty in historical data: an example using goodeines (Teleostei: Cyprinodontiformes: Goodeidae). Molecular Phylogenetics and Evolution 134: 282—290 PDF
  • Dornburg A, Lamb AD, Warren D, Watkins-Colwell G, Lewbart G, Flowers J. Are geckos paratenic hosts for Caribbean Island Acanthocephalans? Evidence from Gonatodes antillensis and a review of squamate reptiles acting as transport hosts. Peabody Bulletin of Natural History 60:55-79 PDF
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2018

  • Near TJ, MacGuigan D, Parker CE, Jones C, Struthers C, Dornburg A. Phylogenetic analysis of Antarctic notothenioids illuminates the utility of RADseq for resolving Cenozoic adaptive radiations. Molecular Phylogenetics and Evolution 129: 268—279 PDF
  • Dornburg A, Zhou S, Townsend JP. Optimal rates for phylogenetic inference and experimental design in the era of genome-scale datasets. Systematic Biology 68: 145—156 PDF
  • Iglesias TL*, Dornburg A*, Warren DL, Wainwright PC, Schmitz L, Economo EP. Eyes-Wide Shut: the impact of dim-light vision on neural investment in marine teleosts. Journal of Evolutionary Biology 31: 1082—1092(*co-first authors) PDF
  • Dornburg A, Warren D, Zapfe K, Morris R, Lamb A, Hogue G, Lukas L, Wang R. Testing ontogenetic patterns of sexual size dimorphism against expectations of the expensive tissue hypothesis, an intra-specific example using Oyster Toadfish (Opsanus tau). Ecology and Evolution 8 (7):3609—3616 PDF
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2017

  • Dornburg A, Lamb A, Federman S, Jones C, Near TJ. Cradles and Museums of Antarctic Biodiversity. Nature Ecology and Evolution. DOI: 10.1038/s41559-017-0239-y PDF
  • Dornburg A, Townsend JP, Wang Z. Maximizing power in phylogenetics and phylogenomics: a perspective illuminated by fungal big data. In JP Townsend & Z Wang (Eds.). Fungal phyologenetics and phylogenomics (pp. 1—47). Advances in Genetics volume 100. Cambridge, MA: Academic Press PDF
  • Lamb AJ, Watkins-Colwell GC, Moore JA, Iglesias T, Warren DL, Brandley MC, Dornburg A. Endolymphatic sac use and reproductive activity in the Lesser Antilles endemic gecko Gonatodes antillensis (Gekkota: Spaerodactylidae). Bulletin of the Peabody Museum of Natural History 58(1):17—29 PDF
  • Chakrabarty P, Faircloth BC, Ludt WB, McMahan CD, Near TJ, Dornburg A, Albert JS, Arroyave J, Stiassny MJ, Sorenson L, Alfaro ME. Phylogenomic Systematics of Ostariophysan fishes: Ultraconserved Elements Support the Surprising Non-monophyly of Characiformes. Systematic Biology 66(6): 881—895 PDF
  • Dornburg A, Townsend JP, Spriggs E, Eytan RI, Moore JA, Wainwright PC,Lemmon AR, Moriarty Lemmon E, Near TJ. Phylogenetic informativeness facilitates resolution of the sister lineage to percomorpha with an anchored hybrid enrichment dataset. Molecular Phylogenetics and Evolution 110: 27—38 PDF
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2016

  • Federman S, Dornburg A, Daly DC, Downie A, Yoder AD, Sargis EJ, Perry GH, Donoghue, MJ, Richard AF, Baden AL. Implications of lemuriform extinctions for the Malagasy flora. Proceedings of Natural Academy of Sciences 113: 5041—5046 PDF
  • Dornburg A, Forrestel E, Moore JA, Iglesias TL, Jones A, Rao L, Warren DL. Fish at night: what we don’t know. Assessing sampling biases across studies of diel activity patterns in marine ray-finned fishes (Actinopterygii). Bulletin of Marine Science 93 (2): 611—639 PDF
  • Dornburg A, Smith C, Federman S, Moore JA, Warren DL, Iglesias T, Brandley MC, Watkins-Colwell GJ, Lamb AD, Jones A. Disentangling the influence of urbanization and invasion on endemic reptiles in tropical biodiversity hotspots: A case study of Phyllodactylus martini along an urban gradient in Curaçao. Peabody Bulletin of Natural History 57: 147—164 PDF
  • Dornburg A, Federman S, Eytan RI, Near TJ. Cryptic species diversity in Sub-Antarctic islands: a case study of Lepidonotothen. Molecular Phylogenetics and Evolution 104: 32—43 PDF
  • Collins S, Dornburg A, Flores J, Dombrowski D, Lewbart GA. comparison of blood gases, biochemistry, and hematology to ecomorphology in a health assessment of pinfish (Lagodon rhomboides). PeerJ: e2262 PDF
  • Ahmad Sah HH, Watkins-Colwell GJ, Dornburg A, McLeod DS, Grismer L, Bauer AM, Wahab RJA, and Grafe TU. The Amphibians, Reptiles and Fishes of the 2012 Bukit Pagon Expedition, Brunei Darussalam. Peabody Bulletin of Natural History 57: 97—114 PDF
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2015

  • Prum R, Berv J, Dornburg A, Field DJ, Townsend JP, Moriarty-Lemmon E, Lemmon AR. A comprehensive phylogeny of birds (Aves) using targeted next-generation DNA sequencing. Nature 526: 569—573 PDF
  • Dornburg A, Eytan RI, Federman S, Pennington J, Stewart AL, Jones CD, Near TJ. Molecular data supports two species of Cryodraco. Polar Biology 39: 1369—1379 PDF
  • Federman S, Dornburg A, Downie A, Richard A, Daly D, Donoghue MJ. The biogeographic origin of a radiation of trees in Madagascar: Implications for the assembly of a tropical forest biome. BMC Evolutionary Biology 15:216 PDF
  • Near T, Dornburg A, Harrington R, Oliveira C, Pietsch TW, Thacker CE, Satoh TP, Katayama E, Wainwright PC, Eastman JT, Beaulieu JM. Identification of the notothenioid sister lineage illuminates the biogeographic history of an Antarctic adaptive radiation. BMC Evolutionary Biology 15:109 PDF
  • Eytan RI, Evans BR, Dornburg A, Lemmon AR, Moriarty Lemmon E, Wainwright PC, and Near TJ. Are 100 enough? Inferring acanthomorph teleost phylogeny using anchored hybrid enrichment. BMC evolutionary biology 1:113 PDF
  • Iglesias TL, Dornburg A, Brandley MC, Warren DL. Life in the unthinking depths: energetic constraints on encephalization in marine fishes. Journal of Evolutionary Biology 28: 1080—1090 PDF
  • Dornburg A, Friedman M, Near TJ. Phylogenetic analysis of molecular and morphological data highlights uncertainty in the relationships of fossil and living species of Elopomorpha (Actinopterygii: Teleostei). Molecular Phylogenetics and Evolution 89:205—218 PDF
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2014

  • Dornburg A, Moore J, Beaulieu JM, Eytan RI, Near TJ. The impact of shifts in marine biodiversity hotspots on patterns of range evolution: evidence from the Holocentridae (squirrelfishes and soldierfishes). Evolution 69:146—161 PDF
  • Near TJ, Dornburg A, Friedman M. Phylogenetic relationships and timing of diversification in gonorynchiform fishes inferred using nuclear gene DNA sequences (Teleostei: Ostariophysi). Molecular Phylogenetics and Evolution 80:297—307 PDF
  • Dornburg A, Townsend JP, Near TJ. Phylogenetic informativeness approaches reconcile ray-finned fish divergence times. BMC Evolutionary Biology 14 (1): 169 PDF
  • Price SA, Schmitz L, Oufiero CE, Eytan RI, Dornburg A, Smith WL, Friedman M, Near TJ, Wainwright PC. Two waves of niche-filling straddling the K-Pg boundary formed the modern reef fish fauna. Proceedings of the Royal Society B 281: 2014321 PDF
  • Moore J and Dornburg A. Ingestion of fossil seashells, stones, and small mammal bones by gravid gopher tortoises (Gopherus polyphemus) in South Florida. Peabody Bulletin of Natural History 55: 55—63 PDF
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2013

  • Near TJ, Dornburg A, Eytan RI, Keck BP, Smith WL, Kuhn KL, Moore JA, Price SA, Burbrink FT, Friedman M, Wainwright PM. Phylogeny and tempo of diversification in the superradiation of spiny-rayed fishes. Proceedings of the National Academy Sciences 110: 12738—12743 PDF
  • Near TJ, Dornburg A, Tokita M, Suzuki D, Brandley MC, Friedman M. Boom and bust: ancient and recent diversification in bichirs and ropefish (Polypteridae: Actinopterygii), a relictual lineage of ray-finned fishes. Evolution 68: 1014—1026 PDF
  • Friedman M, Keck BP, Dornburg A, Eytan RI, Martin CH, Hulsey CD, Wainwright PC, Near TJ. Molecular and fossil evidence place the origin of cichlid fishes long after Gondwanan rifting. Proceedings of the Royal Society B 280:20131733 PDF
  • Reynolds RG, Niemiller ML, Hedges SB, Dornburg A, Revell LJ. Molecular phylogeny and historical biogeography of West Indian boid snakes (Chilabothrus). Molecular Phylogenetics and Evolution 68: 461—470 PDF
  • Santini F, Sorenson L, Marcroft T, Dornburg A, Alfaro ME. A multilocus phylogeny of boxfishes (Aracanidae, Ostraciidae; Tetraodontiformes). Molecular Phylogenetics and Evolution 66: 153—160 PDF
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2012

  • Near TJ, Eytan RI, Dornburg A, Kuhn KL, Moore JA, Wainwright P, Friedman M, Davis M, Smith L. Resolution of ray-finned fish phylogeny and timing of diversification. Proceedings of the National Academy Sciences 109: 13698–13703 PDF
  • Dornburg A, Moore JA, Webster R, Warren DL, Brandley MC, Iglesias TL, Wainwright PC, and Near TJ. Molecular phylogenetics of squirrelfishes and soldierfishes (Teleostei:Beryciformes: Holocentridae): reconciling more than 100 years of taxonomic confusion. Molecular Phylogenetics and Evolution 65: 727–738 PDF
  • Near TJ, Dornburg A, Kuhn KL, Eastman JT, Pennington JN, Patarnello T, Zane L, Fernandez DA, Jones CD. Ancient climate change, antifreeze, and the evolutionary diversification of Antarctic fishes. Proceedings of the National Academy Sciences 109:3434–3439 PDF
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2011

  • Dornburg A, Brandley MC, McGowen M, Near TJ. Rate Heterogeneity, Uncorrelated Relaxed-Clock Models, and Patterns of Molecular Evolution in Cetaceans. Molecular Biology and Evolution 29: 721-736. PDF
  • Dornburg A, Colosi JG, Maser C, Reese AT, Watkins-Colwell GJ. A survey of the Yale Peabody Museum collection of Egyptian mammals collected during the construction of the Aswan high dam: with an emphasis on material from the Yale University prehistoric expedition to Nubia (YUPEN) 1962-1965. Peabody Bulletin of Natural History 52:255-272. PDF
  • Dornburg A, Sidlauskas B, Sorenson L, Santini F, Near TJ, Alfaro ME. The influence of an innovative locomotor strategy on the phenotypic diversification of triggerfishes (Family: Balistidae). Evolution 65:1912–1926. PDF
  • Dornburg A, Warren DL, Iglesias TL, Brandley MC. Natural history observations of the ichthyological and herpetological fauna on the Island of Curaçao, Netherlands Antilles. Peabody Bulletin of Natural History 52:181–186. PDF
  • Dornburg A, Beaulieu JM, Oliver JC, Near TJ. Integrating fossil preservation biases in the selection of calibrations for molecular divergence time estimation. Systematic Biology 60: 519-527. PDF
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    2010–earlier

  • 2010. Watkins-Colwell GJ, Dornburg A, Hawlena D, Moore J. The Amphibians and Reptiles of the Yale University Prehistoric Expedition to Nubia (YUPEN) 1962-1965. Bulletin of the Peabody Museum of Natural History (51):179-197. PDF
  • 2010. Weaver RE & Dornburg A. New and noteworthy country records of Amphibians and Reptiles from Southeastern Washington State. Herpetological Review 41(1):115–116. PDF
  • 2009. Alfaro ME, Santini F, Brock C, Alamillo H, Dornburg A, Rabosky DL, Carnevale G, Harmon LJ. Nine exceptional radiations plus high turnover explain species diversity in jawed vertebrates. Proceedings of the National Academy Sciences (106):13410–13414. PDF
  • 2009. Dornburg A, Moore J, Watkins-Colwell GJ. Distribution of freshwater fishes in Connecticut based on museum voucher specimens. Bulletin of the Peabody Museum of Natural History (50):347-379. PDF
  • 2009. Dornburg A & Weaver RE. First Report of Scavenging by the Northern Pacific Rattlesnake (Crotalus oreganus). Northwestern Naturalist (90) 55-57. PDF
  • 2008. Dornburg A, Santini F, Alfaro ME. The influence of model-averaging on clade posteriors: an example using the triggerfishes (Family: Balistidae). Systematic Biology 57(6):905–919 PDF
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Non peer-reviewed publications

Under Construction