2023
Zhang, L., G.R. Hood, J.R. Ott, & S.P. Egan. The role of ecology and geography in the evolution of habitat isolation and sexual isolation among sister species of host-plant-specific insects, in review.
(*) these authors contributed equally
Andrés, J., P. Czechowski, E. Grey, M. Saebi, K. Andres, C. Brown, N. Chawla, J.J. Corbett, R. Brys, P. Cassey, N. Correa, M.R. Deveney, S.P. Egan, J.P. Fisher, R. vanden Hooff, C.R. Knapp, S.C.Y. Leong, B.J. Neilson, E.M. Paolucci, M.E. Pfrender, M.R. Pochardt, T.A.A. Prowse, S.S. Rumrill, C.Scianni, F. Sylvester, M.N. Tamburri, T.W. Therriault, D.C.J. Yeo, & D.M. Lodge. Environment and shipping drive eDNA beta-diversity among commercial ports. Molecular Ecology, accepted. *link* (bioRxiv preprint: *link*)
Size-associated energetic constraints on the onset of reproduction in a species with indeterminate growth. Oikos, accepted. *link*
2022
Martinson, E.O., J. Werren, & S.P. Egan. 2022. Tissue-specific gene expression shows cynipid wasps repurpose host gene networks to create complex and novel parasite-specific organs on oaks. Molecular Ecology 31: 3228-3240. *link* (Preprint: Authorea *link*)
**Featured in News & Views: , & (2022). A tale of two tissues: Probing gene expression in a complex insect-induced gall. Molecular Ecology, 31, 3031– 3034. *link*
Brandão-Dias, P.F.P., A.E. Deatsch, J.L. Tank, A.J. Shogren, E.J. Rosi, S.T. Ruggiero, C.E. Tanner, & S.P. Egan. 2022. Novel field-based protein detection method using Light Transmission Spectroscopy and antibody functionalized gold nanoparticles. Nano Letters 22: 2611–2617. *link*
Brandão-Dias, P.F.P., Zhang, Y.M., Pirro, S., Vinson, C.C., Weinersmith, K.L., Ward, A.K.G., Forbes, A.A. and Egan, S.P. 2022. Describing biodiversity in the genomics era: A new species of Nearctic Cynipidae gall wasp and its genome. Systematic Entomology 47: 94-112. *link*
**Press coverage: Texas Monthly, SYFY Wire, The Hill, Houston Chronicle, Exame (Brazil), Daily Mail, (U.K.), The Rice Thresher, Rice News, Futurity, International Business News
**Radio: Houston Matters on NPR
**Selected by Royal Entomological Society for a special issue to mark the UN Biodiversity Conference (COP-15). LINK
Zhang, L., B.F. Mullin, S. Shzu, C.K. Davis, E.G. Hu, I.J. Carroo, & S.P. Egan. 2022. Parallel divergence in an extended phenotype between ecologically divergent populations of six species of gall-forming insects. Ecological Entomology 47: 323-330. *link*
Sheikh, S.I., A.K.G. Ward, Y.M. Zhang, C.K. Davis, L. Zhang, S.P. Egan, & A.A. Forbes. 2022. Ormyrus labotus Walker (Hymenoptera: Ormyridae): another generalist that should not be a generalist is not a generalist. Insect Systematics and Diversity 6 (1): 8. *link* (preprint: bioRxiv)
**Press coverage: New York Times, Entomology Today
Comerford, M.S. & S.P. Egan. 2022. The potential role of spatial sorting in speciation and adaptive radiations. Population Ecology 64: 119-126. *link*
Comerford, M.S., S.P. Carroll, & S.P. Egan. 2022. A test of adaptive divergence in a newly discovered host association of the soapberry bug Jadera haematoloma on Mexican buckeye, Ungnadia speciosa. Entomologia Experimentalis et Applicata 170: 64-78. *link*
**Cover image for special issue on “Host race formation and speciation”
Calvert, M.B., M.M. Doellman, J.L. Feder, G.R. Hood, P. Meyers, S.P. Egan, T.H.Q. Powell, M.M. Glover, C. Tait, H. Schuler, S.H. Berlocher, J.J. Smith, P. Nosil, D.A. Hahn, & G.J. Ragland. 2022. Genomically correlated trait combinations and antagonistic selection contributing to counterintuitive genetic patterns of adaptive diapause divergence in Rhagoletis flies. Journal of Evolutionary Biology 35: 146-163. *link* (Preprint: bioRxiv 2020.06.19.161539)
**Press coverage: Elementy Science News (in Russian)
Samacá-Sáenz, E., B.F. Santos, J.J. Martínez, S.P. Egan, S.R. Shaw, P.E. Hanson, & A. Zaldívar-Riverón. 2022. Ultraconserved elements-based systematics reveals evolutionary patterns of host-plant family shifts and phytophagy within the predominantly parasitoid braconid wasp subfamily Doryctinae. Molecular Phylogenetics and Evolution 166: 107319. *link*
Zhang, M., S.I. Sheikh, A.K.G. Ward, A.A. Forbes, K.M. Prior, G.N. Stone, M.W. Gates, S.P. Egan, L. Zhang, C. Davis, K.L. Weinersmith, G. Melika & A. Lucky. 2022. Delimiting the cryptic diversity and host preferences of Sycophila parasitoid wasps associated with oak galls using phylogenomic data, Molecular Ecology 31: 4417-4433. *link* (preprint: bioRxiv)
, , , , , , , , , , &
2021
Zhang, L., G.R. Hood, I. Carroo, J.R. Ott, & S.P. Egan. 2021. Context-dependent reproductive isolation: Host plant variability drives fitness of hybrid herbivores. The American Naturalist 197: 732–739. *link*
Zhang, L., G.R. Hood, A.M. Roush, S. Shzu, M.S. Comerford, J.R. Ott , & S.P. Egan. 2021. Asymmetric, but opposing reductions in immigrant viability and fecundity promote reproductive isolation among host-associated populations of an insect herbivore. Evolution 75: 476–489. *link*
Brandão-Dias, P.F.P., E.J. Rosi, A.J. Shogren, J.L. Tank, D.Fischer, & S.P. Egan. 2021. Fate of environmental proteins (eProteins) from genetically engineered crops in streams is controlled by water pH and ecosystem metabolism. Environmental Science & Technology 55: 4688–4697. *link*
Drummond, J.A., E.R. Larson, Y. Li, D.M. Lodge, C.A. Gantz, M. Pfrender, M.A. Renshaw, A.M.S. Correa, & S.P. Egan. 2021. Diversity metrics are robust to differences in sampling location and depth for environmental DNA of plants in small temperate lakes. Frontiers in Environmental Science 2021.617924. *link*
Zhang, M., S.P. Egan, & J.R. Ott. 2021. One hundred and sixty years of taxonomic confusion resolved: Belonocnema Mayr (Hymenoptera: Cynipidae, Cynipini) gall wasps associated with live oaks in the USA. Zoological Journal of the Linnean Society, zlab001. *link*
2020
Duran, D.P., R.A. Laroche, H.M. Gough, R.A. Gwiazdowski, C.B. Knisley, D.P. Herrmann, S.J. Roman, & S.P. Egan. 2020. Geographic life history differences predict genomic divergence better than mitochondrial barcodes or phenotype. Genes 11: 265. *link*
Weaver, A.K., G.R. Hood, M. Foster, & S.P. Egan. 2020. Trade-off between fecundity and survival generates stabilizing selection on gall size. Ecology & Evolution 10: 10207–10218. *link*
Samaca-Saenz, E., S.P. Egan, A. Zaldivar-Riveron. 2020. Species diversity in the braconid wasp genus Allorhogas (Doryctinae) associated with cynipid galls on live oaks (Quercus: Fagaceae) using natural history, phylogenetics and morphology. Insect Systematics and Diversity Volume 4, Issue 5, September 2020, 3. *link*
**highlighted in: Futurity, Treehugger, Rice University News, Top 10 post in 2020 at Futurity New.
Doellman, M.M., SaintJean, G., S.P. Egan, T.H.Q. Powell, G.R. Hood, H. Schuler, M.M. Glover, J.J. Smith, W. Yee, R. Goughnour, J. Rull, M. Aluja, & J.L. Feder. 2020. Evidence for spatial clines and mixed geographic modes of speciation for North American cherry-infesting Rhagoletis (Diptera:Tephritidae) flies. Ecology & Evolution 10: 12727–12744. *link*
Weinersmith, K.L., A. A. Forbes, A.K.G. Ward, P.F.P. Brandão-Dias, Y. Miles Zhang, & S.P. Egan. 2020. Arthropod community associated with the asexual generation of Bassettia pallida Ashmead (Hymenoptera: Cynipidae). Annals of the Entomological Society of America 5: 373–388. *link* (*preprint: bioRxiv 909648*)
Nguyen, B.N., E.W. Shen, J. Seemann, A.M.S. Correa, J.L. O’Donnell, A.H. Altieri, N. Knowlton, K.A. Crandall, S.P. Egan, W.O. McMillan, & M. Leray. 2020. Environmental DNA survey captures patterns of fish and invertebrate diversity across a tropical seascape. Scientific Reports 10: 6729. *link* (preprint: bioRxiv 797712)
Meyers, P.J., M.M. Doellman, G.J. Ragland, G.R. Hood, S.P. Egan, T.H.Q. Powell, P. Nosil, & J.L. Feder. 2020. Can the genomics of ecological speciation be predicted across the divergence continuum from host races to species? A case study in Rhagoletis. Philosophical Transactions of the Royal Society B 375: 20190534. *link*
2019
Zhang, L., G.R. Hood, J.R. Ott, & S.P. Egan. 2019. Temporal isolation between sympatric host plants cascades across multiple trophic levels of host-associated insects. Biology Letters 15: 20190572. *link*
Driscoe, A., Nice, C., Busbee, R., Hood, G., Egan, S.P., & Ott, J. 2019. Host plant associations and geography interact to shape diversification in a specialist insect herbivore. Molecular Ecology 28: 4197-4211. *link*
**highlighted in: Molecular Ecology Spotlight
Duran, D.P., D.P. Herrmann, S.J. Roman, R.A. Gwiazdowski, J.A. Drummond, G.R. Hood, & S.P. Egan. 2019. Cryptic diversity in the North American Dromochorus tiger beetles (Coleoptera: Carabidae: Cicindelinae): Congruence-based method for species discovery. Zoological Journal of the Linnean Society 186: 250–285. *link*
Hood, G.R., L. Zhang, E.G. Hu, J.R. Ott, & S.P. Egan. 2019. Cascading reproductive isolation: Plant phenology drives temporal isolation among populations of a host-specific herbivore. Evolution 73: 554-568. *link*
Hood, G.R., M. Comerford, A.K. Weaver, P.M. Morton, & S.P. Egan. 2019. Human-mediated disturbance in multitrophic interactions results in outbreak levels of North America’s most venomous caterpillar. Biology Letters 15: 20190470. *link* *Rice University News* *VIDEO by Rice News*
**highlighted in: Newsweek, MSN News, Houston Chronicle, Sputnik News, Science Daily, DotMed, ScienceBlog.com, Houstonia Magazine, Fort Worth Star-Telegram, San Antonio KENS5 News, Houston KHOU11 News, The Blaze, Phys.org, Texas Public Radio.
Zhang, L. & S.P. Egan. 2019. “Adaptive Radiation.” In Oxford Bibliographies in Ecology. Ed. David Gibson. New York: Oxford University Press, forthcoming.
Ward, A.K.G., O.S. Khodor, S.P. Egan, K.L. Weinersmith, & A.A. Forbes. 2019. A keeper of many crypts: the parasitoid Euderus set manipulates the behavior of a taxonomically diverse array of oak gall wasp species. Biology Letters 15: 20190428. *link* (preprint: bioRxiv 516104)
**highlighted in: New York Times, Smithsonian Magazine, Science, New Scientist, The Independent, Cosmos, Fox News, and Scimex.
Doellman, M.M., H. Schuler, G. SaintJean, G.R. Hood, S. P. Egan, T.H.Q. Powell, M.M. Glover, D.J. Bruzzese, J.J. Smith, W.L. Yee, R.B. Goughnour, J.Rull, M. Aluja, & J.L. Feder. 2019. Geographic and ecological dimensions of host plant associated genetic differentiation and speciation in the Rhagoletis cingulata (Diptera: Tephritidae) sibling species group. Insects 10(9): 275. *link*
Doellman, M., S.P. Egan, G.J. Ragland, P.J. Meyers, G.R. Hood, T.H.Q. Powell, P. Lazorchak, D.A. Hahn, S.H. Berlocher, P. Nosil, & J.L. Feder. 2019. Standing genetic variation in eclosion time and its relationship to genome wide patterns of geographic and host-related differentiation in Rhagoletis pomonella (Diptera: Tephritidae). Ecology and Evolution 9: 393-409. *link*
Schuler, H., J. A. Lopez, M.M. Doellman, G.R. Hood, S.P. Egan, & J. L. Feder. 2019. Target enriched endosymbiont sequencing (TEEseq): A new high-throughput sequencing approach for the comprehensive characterization of endosymbionts. Methods in Molecular Biology: Insect Genomics. *link*
Shogren, A.J., J.L. Tank, E. Rossi, M.M. Dee, S.L. Speir, D. Bolster, & S.P. Egan. 2019. Transport and in-stream removal of the Cry1Ab protein from genetically engineered maize is mediated by biofilms in experimental streams. PLoS ONE 4: e0216481. *link*
Deatsch, A.E., A.J.,Shogren, J.L. Tank, S.P. Egan, N. Sun, S.T. Ruggiero, & C.E. Tanner. 2019. Rapid Quantitative Protein Detection by Light Transmission Spectroscopy. Applied Optics 58: 1121-1127. *link*
Shogren, A.J., J.L. Tank, T. Riis, S.P. Egan & D. Bolster. 2019. Estimating mussel biomass in a river using environmental DNA. Freshwater Biology 64: 1467-1479. *link*
2018
Egan, S.P., M. Comerford, L. Zhang, & G.R. Hood. 2018. Botanical parasitism of an insect by a parasitic vine. Current Biology 28: PR863-R864. *link* *Rice University News* *Dispatch in Current Biology*
VIDEO by Rice News
Radio interview on Quirks and Quarks Podcast
Podcast interview on Science . . . sort of.
**highlighted in: The Atlantic, Science, New York Times, Earth & Sky, Quirks & Quarks, Scientific American, Popular Science, Live Science, Newsweek, Futurity, Daily Mail, The Scientist, Miami Herald (and 25 other newspapers), Cosmos, Phys.org, and BBC Wildlife Magazine.
Hood, G.R., L. Zhang, & S.P. Egan. Disentangled bank: Less diverse urban environments modify the shape and magnitude of natural selection (Digest article). Evolution 72: 1972-1973. *link*
Egan, S.P., G.R. Hood, E. Martinson, & J.R. Ott. 2018. Quick Guide: Cynipid gall wasps. Current Biology 28: PR1370-R1374. *link*
Egan, S.P., G.R. Hood, L. Zhang, M. Comerford, & K. Weinersmith. 2018. Borders on the rise: A review of the evolutionary impacts of border barriers on natural populations. Public Policy Brief, Mexico Center at the Baker Institute of Public Policy. *link* *Mexico Centered podcast*
Gantz, C., M. Renshaw, D. Erickson, D.M. Lodge, & S.P. Egan. 2018. Environmental DNA detection of aquatic invasive plants in lab mesocosms and natural field conditions. Biological Invasions 20: 2535–2552. *link*
Hood, G.H., L. Zhang, L. Topper, P.F.P. Brandão-Dias F. Pinto, G.A. Del Pino, M.S. Comerford, & S.P. Egan. 2018. ‘Closing the life cycle’ of Andricus quercuslanigera Ashmead 1881 (Hymenoptera: Cynipidae). Annals of the Entomological Society of America 111: 103-113. *link*
Shogren, A.J., J.L. Tank, E.J. Rossi, S.P. Egan, O. August, B.R. Hanrahan, M.A. Renshaw, C.A. Gantz, & D. Bolster. 2018. Water flow and biofilm cover influence eDNA detection in recirculating streams. Environmental Science & Technology 52: 8530–8537. *link*
SaintJean, G., G.R. Hood, S.P. Egan, T.H.Q. Powell, H. Schuler, M.M. Doellman, M. Glover, J.J. Smith, W. Yee, R. Goughnour, J. Rull, M. Aluja, & J.L. Feder. 2018. Lack of genetic evidence for host plant-related differentiation in the Western Cherry Fruit Fly Rhagoletis indifferens (Diptera: Tephritidae). Entomologia Experimentalis et Applicata 166: 739-751. *link*
Doellman, M.M, G.J. Ragland, G.R. Hood, P.J. Meyers, S.P. Egan, T.H.Q. Powell, P. Lazorchak, M.M. Glover, C. Tait, H. Schuler, D.A. Hahn, S.H. Berlocher, J.J. Smith, P. Nosil, & J.L. Feder. 2018. Genomic differentiation during speciation-with-gene-flow: Comparing geographic and host-related variation in divergent life history adaptation in Rhagoletis pomonella. Genes 9: 262. *link*
Schuler, H., S.P. Egan, G.R. Hood, R.W. Busbee, A. Driscoe & J.R. Ott. 2018. Diversity and distribution of Wolbachia in relation to geography, host plant affiliation, and life cycle of a heterogonic gall wasp. BMC Evolutionary Biology 18: 37. *link*
Glover, M.M., S.P. Egan, G.R. Hood, J. Rull, M. Aluja, & J.L. Feder. 2018. Phylogeography of walnut-infesting Rhagoletis suavis (Diptera: Tephritidae) flies. Insect Systematics and Diversity 2:1. *link*
Hood, G.R., & S.P. Egan. 2018. Ecological relevance of speciation. Oxford Bibliographies, Oxford Press. *link*
Cowart, D.A., M.A. Renshaw, C.A. Gantz, J. Umek, S. Chandra, S.P. Egan, D.M. Lodge, & E.R. Larson. 2018. Development and field validation of an environmental DNA (eDNA) assay for the invasive Asian clam, Corbicula fluminea (Müller, 1774). Management of Biological Invasions9: 27–37.*link* *press release*
2017
Egan S.P., K.L. Weinersmith, S. Liu, R.D. Ridenbaugh, Y.M. Zhang, & A.A. Forbes. 2017. Description of a new species of Euderus Haliday from the southeastern United States (Hymenoptera, Chalcidoidea, Eulophidae): the crypt-keeper wasp. ZooKeys 645: 37-49. *link* Discover Magazine’s Top 100 Science Stories of 2017
Weinersmith, K.L., S.M. Liu, A.A. Forbes, & S.P. Egan. 2017. Tales from the crypt: A parasitoid manipulates the behavior of its parasite host. Proceedings of the Royal Society, B284: 20162365. *link*Rice University News
** highlighted in: The Atlantic, National Geographic, BBC World, BBC Earth, CBC Quirks & Quarks, Science, Nature, New Scientist, Popular Science, Gizmodo, Live Science, The Scientist, CBS News, Futurity, & Yahoo News
Egan, S.P. 2017. Book review: The web of life, the tangled bank, and the frequency of genetic exchange. BioScience 67: 91-91. *link*
Zhang, L., A. Driscoe, R. Izen, C. Toussaint, J.R. Ott, & S.P. Egan. 2017. Immigrant inviability promotes reproductive isolation among host-associated populations of the gall wasp Belonocnema treatae. Entomologia Experimentalis et Applicata 162: 379–388. *link*
Ragland, G., Meyers, P., Doellman, M., Hood, G., Egan, S.P., Powell, T.H.Q., Hahn, D., Nosil, P. & J. Feder. 2017. A test of genomic modularity among life history adaptations promoting speciation-with-gene-flow. Molecular Ecology26: 3926-3942.*link* *featured in The Molecular Ecologist*
Gompert, Z., S.P. Egan, R. Barrett, J.L. Feder, & P. Nosil. 2017. Multi-locus approaches for the measurement of selection on correlated genetic loci. Molecular Ecology 26: 365–382. *link*
Sim, S., M.M. Doellman, G.R. Hood, W.L. Lee, T.H.Q. Powell, D. Schwarz, R.B. Goughnour, S.P. Egan, G. St. Jean, J.J. Smith, T.E. Arcella, J.D.K, Dzurisin, & J.L. Feder. Genetic evidence for the introduction of Rhagoletis pomonella (Diptera: Tephritidae) into the Northwestern United States. Journal of Economic Entomology 110: 2599–2608. *link*
Larson, E.R., M.A. Renshaw, C.A. Gantz, J. Umek, S. Chandra, D.M. Lodge, & S.P. Egan. 2017. Using environmental DNA (eDNA) to survey for the crayfishes Orconectes rusticus and Pacifastacus leniusculus between their reciprocal invasive ranges in North America. Hydrobiologia 800: 173-185. *link*
Trebitz, A., J. Hoffman, J. Darling, E. Pilgrim, J. Kelly, J. Schardt, E. Brown, L. Chadderton, S.P. Egan, E. Grey, S. Hashsham, K. Klymus, A. Mahon, J. Ram, M. Schultz, & C. Stepien. 2017. Science status and needs for implementing early detection monitoring of aquatic non-indigenous species. Journal of Environmental Management 202: 299-310. *link*
2016
Egan, S.P., G.R. Hood, & J.L. Feder. 2016. ‘Speciation-with-gene-flow’ In: Encyclopedia of Evolutionary Biology. Elsevier Press. *link* *abstract*
Feder, J.L. & S.P. Egan. 2016. Sympatry and patterns of genetic differentiation in sympatry. Reference Module in Life Sciences, Elsevier Press. *link*
Reynolds, R.J., G. de los Campos, S.P. Egan, & J.R. Ott. 2016. Modeling heterogeneity among fitness functions using random regression. Methods in Ecology and Evolution 7: 70–79. *link*
Forbes, G.R. Hood, M.C. Hall, J. Lund, R. Izen, S.P. Egan & J.R. Ott. 2016. Parasitoids, hyperparasitoids and inquilines associated with the sexual and agamic generations of the oak gall former, Belonocnema treatae (Hymenoptera: Cynipidae). Annals of the Entomological Society of America 109: 49–63. *link*
Schuler, H., G.R. Hood, S.P. Egan & J.L. Feder. 2016. Modes and Mechanisms of Speciation. Reviews in Cell Biology and Molecular Medicine 2:60–93. *link*
Lodge, D.M., P.W. Simonin, S.W. Burgiel, R.P. Keller, J.M. Bossenbroek, C.L. Jerde, A.M. Kramer, E.S. Rutherford, M.A. Barnes, M.E. Wittmann, W.L. Chadderton, J.L. Apriesnig, D. Beletsky, R. Cooke, J. M. Drake, S.P. Egan, D.C. Finnoff, C.A. Gantz, E.K. Grey, M.H. Hoff, J.G. Howeth, R.A. Jensen, E.R. Larson, N.E. Mandrak, D.M. Mason, F.A. Martinez, T.J. Newcomb, J.D. Rothlisberger, A.J. Tucker, T.W. Warziniack, & H. Zhang. 2016. Risk Analysis and Bioeconomics of Invasive Species to Inform Policy and Management. Annual Review of Environment and Resources 41: 453-488. *link*
Dougherty, M.M., E.R. Larson, M.A. Renshaw, C.A. Gantz, S.P. Egan, D.M. Erickson & D.M. Lodge. 2016. Environmental DNA (eDNA) detects the invasive rusty crayfish (Orconectes rusticus) at low abundances. Journal of Applied Ecology 53: 722–732. *link* *The Applied Ecologists’ Blog*
2015
Egan, S.P., G.R. Ragland, L. Assour, T.H.Q. Powell, G.R. Hood, S. Emrich, P. Nosil & J.L. Feder. 2015. Experimental evidence of genome-wide impact of ecological selection during early stages of speciation-with-gene-flow. Ecology Letters 18: 817–825. open access: *link* *press release1* *press release 2* *press release 3*
*Eco-Evo Blog post* *Data available on Dryad database*
Selected by the editors of Ecology Letters for a special issue “The Joint Dynamics of Ecology & Evolution“. LINK
Egan, S.P., E. Grey, B. Olds, J.L. Feder, S. Ruggiero, C. Tanner, & D.M Lodge. 2015. Molecular detection of invasive species in ballast water using environmental DNA and Laser Transmission Spectroscopy. Environmental Science & Technology 49: 4113–4121. open access: *link*
Hood, G.H., A.A. Forbes, T.H.Q. Powell, S.P. Egan, G. Hamerlinck, J.J. Smith & J.L. Feder. 2015. Sequential speciation and the multiplicative origin of community diversity.Proceedings of the National Academy of Sciences 112: E5980-E5989. *link* *press release 1* *press release 2* *press release 3*
* highlighted in: *Wall Street Journal article* *National Geographic – Italy* *Eco-Evo Blog post*
Arcella, T., S.B. Sim, W.L. Yee, G.R. Hood, T.H.Q. Powell, D. Schwarz, S.P. Egan, R.B. Goughnour, J.J. Smith, & J.L. Feder. 2015. Hybridization and the spread of the Apple Maggot Fly, Rhagoletis pomonella (Diptera: Tephritidae), in the Northwestern United States. Evolutionary Applications 8: 834-846. *link*
Tadeo, E., J.L. Feder, S.P. Egan, H. Schuler, M. Aluja, & J. Rull. 2015. Divergence and evolution of reproductive barriers among three allopatric populations of Rhagoletis cingulata across eastern North America and México. Entomologia Experimentalis et Applicata 156: 301-311. *link*
Gokham, V.E., J.R. Ott, & S.P. Egan. 2015. Chromosomes of Belonocnema treatae Mayr, 1881 (Hymenoptera: Cynipidae). Comparative Cytogenetics 9: 221-226. *link*
2014
Soria-Carrasco, V., Z. Gompert, A.A. Comeault, T.E. Farkas, T.L. Parchman, J.S. Johnson, C.A. Buerkle, J.L. Feder, J. Bast, T. Schwander, S.P. Egan, B.J. Crespi, & P. Nosil. 2014. Stick insect genomes reveal natural selection’s role in parallel speciation. Science 344: 738-742. *link* *Science NOW* *Press Release* *Science Feature article*
Feder, J.L., P. Nosil, A. Wacholder, S.P. Egan, S. Berlocher, & S. Flaxman. 2014. Genome-wide congealing and rapid transitions across the speciation continuum during speciation with gene flow. Journal of Heredity 105: 810-820. *link*
Ott, J.R. & S.P. Egan. 2014. Interspecific patterns of phenotypic selection do not predict intraspecific patterns. Journal of Evolutionary Biology 27: 214-219. *link*
2013
Egan, S.P., G.R. Hood, G. DeVela, & J.R. Ott. 2013. Parallel patterns of morphological and behavioral variation among host-associated populations of two gall wasp species. PLoS ONE 8: e54690. *link* *press*
Egan, S.P., M. Barnes, C.-T. Hwang, A.R. Mahon, J.L. Feder, S. Ruggiero, C. Tanner, & D.L. Lodge. 2013. Rapid invasive species detection by combining environmental DNA with Light Transmission Spectroscopy. Conservation Letters 6: 402-409. *link* *press1* *press2* * featured in ‘Dispatches‘ section by Frontiers in Ecology and the Environment *
Feder, J., S. Flaxman, S.P. Egan, A. Comeault, & P. Nosil. 2013. Geographic mode of speciation and genomic divergence. Annual Review of Ecology, Evolution, and Systematics 44: 73-97. *link*
Feder, J.L., S.M. Flaxman, S.P. Egan, & P. Nosil. 2013. Hybridization and the buildup of genomic divergence during speciation. Journal of Evolutionary Biology 26: 261-266. *link*
Schuler, H., Bertheau, C., Egan, S.P., Feder, J.L., Riegler, M., Schlick-Steiner, B., Steiner, F., Johannesen, J., Kern, P., Koeppler, K., Arthofer, W., & Stauffer, C. 2013. Evidence for a recent horizontal transmission and expansion of Wolbachia from endemic Rhagoletis cerasi to invasive Rhagoletis cingulata in Europe. Molecular Ecology 22: 4101-4111. *link*
Rull, J., M. Aluja, E. Tadeo, L. Guillen, S.P. Egan, M. Glover, & J.L. Feder. 2013. Distribution, host plant affiliation, phenology, and phylogeny of walnut-infesting Rhagoletis flies (Diptera: Tephritidae) in Mexico. Biological Journal of the Linnean Society 110: 765-779. *link*
Saint Jean, G., S.P. Egan, W.L. Yee, & J.L. Feder. 2013. Genetic identification of an unknown Rhagoletis fruit fly (Diptera: Tephritidae) infesting Chinese crabapple: Implications for apple pest management. Journal of Economic Entomology 106: 1511-1515. *link* *press*
Feder, J.L., S.P. Egan, & P. Nosil. 2013. ‘Speciation and Genome Evolution‘. In: Princeton Guide to Evolution (J. Losos, ed.) Princeton University Press, New Jersey, in press. *link*
Mahon, A.R., M.A. Barnes, F. Li, S.P. Egan, C.E. Tanner, S.T. Ruggiero, J.L. Feder, & D.M. Lodge. 2013. DNA-based species detection capabilities using Laser Transmission Spectroscopy. Journal of the Royal Society Interface 10 (78): 20120637. *link*
Hood, G.R. ,W.Yee, R. Goughnour, S. Sim, S.P. Egan, T. Arcella, G. St. Jean, T.H.Q. Powell, C. Xu & J.L. Feder. 2013. The geographic distribution of Rhagoletis pomonella (Diptera: Tephritidae) in the western United States: Introduced species or native population? Annals of the Entomological Society of America 106: 59-65. *link*
Feder, J.L. & S.P. Egan. 2013. ‘Sympatry and patterns of genetic differentiation in sympatry‘. In: Encyclopedia of Genetics, 2nd edition (S. Malloy & K. Hughes, eds.). Elsevier Press.
2012
Egan, S.P., G.R. Hood, J.L. Feder, & J.R. Ott. 2012. Divergent host plant use promotes reproductive isolation among cynipid gall wasp populations. Biology Letters 8: 605-608. *link* *featured by The Earth Times*
Egan, S.P., G.R. Hood, & J.R. Ott. 2012. Testing the role of habitat isolation among ecologically divergent gall wasp populations. International Journal of Ecology (special issue on Ecological Speciation), vol. 2012, Article ID 809897, 8 pgs. *link*
Feder, J.L., S.P. Egan, & P. Nosil. 2012. The genomics of speciation-with-gene-flow. Trends in Genetics 28: 342-350. *link* *featured cover article*
Reidenbach, K.R., D.E. Neafsey, C. Costantini, N. Sagon, F. Simard, G.J. Ragland, S.P. Egan, J.L. Feder, M. Muskavitch, & N. Besansky. 2012. Patterns of genomic differentiation between ecologically differentiated M and S forms of Anopheles gambiae in West and Central Africa. Genome Biology and Evolution 12: 1202-1212. *link*
Hood, G.R., S.P. Egan, & J.L. Feder. 2012. Evidence for sexual isolation as a prezygotic barrier to gene flow between morphologically divergent species of Rhagoletis fruit flies. Ecological Entomology 37: 521-528. *link*
Hood, G.R., S.P. Egan, & J.L. Feder. 2012. Interspecific competition and speciation in endoparasitoids. Evolutionary Biology 39: 219-230. *link*
Rull, J., E. Tadeo, M. Aluja, L. Guillen, S.P. Egan, & J.L. Feder. 2012. Hybridization and sequential components of reproductive isolation between parapatric walnut-infesting sister species Rhagoletis completa and R. zoqui. Biological Journal of the Linnean Society 107: 886-898. *link*
Lodge, D.M., C.R. Turner, C.L. Jerde, M.A. Barnes, L. Chadderton, S.P. Egan, J.L. Feder, A.R. Mahon, & M.E. Pfrender. 2012. Perspective: Conservation in a cup of water: estimating biodiversity and population abundance from environmental DNA. Molecular Ecology 21: 2555-2558. *link*
Feder, J.L., S.P. Egan, & A.A. Forbes. 2012. Ecological adaptation and speciation: The evolutionary significance of habitat avoidance as a postzygotic reproductive barrier to gene flow. International Journal of Ecology (special issue on Ecological Speciation) vol. 2012, Article ID 456374, 15 pgs. *link*
Li, F., A.R. Mahon, M.A. Barnes, S.P. Egan, J.L. Feder, D.M. Lodge, C.-T. Hwang, R. Schafer, S.T. Ruggiero, & C.E. Tanner. 2012. ‘DNA detection using Laser Transmission Spectroscopy‘. IN: Nanotech 2012: Bio Sensors, Instruments, Medical, Environmental and Energy (Volume 3). Nano Science and Technology Institute. *link*
Tanner, C., S. Ruggiero, F. Li, A.R. Mahon, M. Barnes, S.P. Egan, J.L. Feder, D.M. Lodge, C.-T. Hwang, & R. Shafer. 2012. DNA detection using Laser Transmission Spectroscopy. Bulletin of the American Physical Society, volume 57.
2011
Egan. S.P., G.R. Hood, & J.R. Ott. 2011. Variable selection on gall size: differential contributions of individual host plants to population wide patterns. Evolution 65: 3543-3557. *link*
Egan, S.P., E.M. Janson, C.G. Brown, & D.J. Funk. 2011. Postmating isolation and genetically variable host use in ecologically divergent host forms of Neochlamisus bebbianae leaf beetles. Journal of Evolutionary Biology 24: 2217-2229. *link*
Ragland, G.J., S.P. Egan, J.L. Feder, S.H. Berlocher, & D.A. Hahn. 2011. Developmental trajectories of gene expression reveal regulatory candidates for diapause termination, a key life history transition in the apple maggot fly, Rhagoletis pomonella. Journal of Experimental Biology 214: 3948-3960. *link* *featured Inside JEB*
Funk, D.J., S.P. Egan, & P. Nosil. 2011. Isolation by adaptation in Neochlamisus leaf beetles: Host-related selection promotes neutral genomic divergence. Molecular Ecology 20: 4671-4682. *link*
2006-2010
Egan, S.P. 2010. Ecological speciation in Neochlamisus bebbinae leaf beetles. PhD dissertation. Vanderbilt University, Nashville, TN.
Egan, S.P. & D.J. Funk. 2009. Ecologically dependent postmating isolation between sympatric ‘host forms’ of Neochlamisus bebbianae leaf beetles. Proceedings of the National Academy of Sciences106: 19426 – 19431. *link* *featured in Exploration*
Egan, S.P., P. Nosil, & D.J. Funk. 2008. Selection and genomic differentiation during ecological speciation: isolating the contributions of host-association via a comparative genome scan of Neochlamisus bebbianae leaf beetles. Evolution 62: 1162-1181. *link*
Nosil, P., S.P. Egan, & D.J. Funk. 2008. Divergent selection plays multiple roles in generating heterogeneous genomic differentiation between walking-stick ecotypes. Evolution62: 316-336. *link*
Egan, S.P. & J.R. Ott. 2007. Host plant quality and local adaptation determine the distribution of a gall-forming herbivore. Ecology88: 2869-2879. *link*
Egan, S.P. & D.J. Funk. 2006. Individual advantages to ecological specialization: insights on cognitive constraints from three conspecific taxa. Proceedings of the Royal Society, B273: 843-848. *link*
Other Contributions
Egan, S.P., C. Gantz, D. Erickson, C. Tanner, S. Ruggiero, J. Feder, M. Pfrender, and D.M. Lodge. 2016. Improving eDNA based surveillance programs for high risk potentially invasive species. Final Technical Report – EPA-R5-GL2012-1, Environmental Protection Agency – Great Lakes Restoration Initiative (GL00E01147-1).
Egan, S.P. 2015. “Speciation, genomes, & pancakes” Post on Eco-Evolutionary Dynamics blog. *link*
Wetherington, R. & S.P. Egan. 2013. ‘Don’t let the science of evolution lose to the politics of teaching it’. Op-Ed piece on teaching mainstream science in public schools – Published in the Austin American-Statesman (link), Houston Chronicle (link), Fort Worth Star-Telegram (link), Corpus Christi Caller-Times (link), and the San Antonio Express-News (link).
Manuscripts in Review
Hood, G.R., A.A. Forbes, T.H.Q. Powell, A. Harada, S.P. Egan, & J.L. Feder. Interspecific competition and temporal resource partitioning facilitates the formation of parasitoid biodiversity, in review.
Egan, S.P., G.R. Hood, L. Zhang, M. Comerford, & K. Weinersmith. A review of the eco-evolutionary impacts of border barriers on natural populations, in review.
Manuscripts in Preparation
Larson, E.R., J.A. Drummond, Y. Li, D.M. Lodge, C.A. Gantz, M. Pfrender, M.A. Renshaw and S.P. Egan. Performance of environmental DNA metabarcoding for fish, zooplankton, and zoobenthos is sensitive to sample location and depth in temperate lakes, in prep.
Egan, S.P., G.R. Hood, & J.L. Feder. Ecological divergence promotes reproductive isolation across the genus Rhagoletis, in prep.