The Institute of Ecology and Evolution, University of Oregon IEE University of Oregon

Publications

2017

Gardell, A.M., von Hippel, F.A., Adams, E.M., Dillon, D.M., Petersen, A.M., Postlethwait, J.H., Cresko, W.A. & Buck, C.L. (2017). Exogenous iodide ameliorates perchlorate-induced thyroid phenotypes in threespine stickleback. General and Comparative Endocrinology 243: 60–69. [reprint]

Leve, L.D., Neiderhiser, J.M., Harold, G.T., Natsuaki, M.N., Bohannan, B.J.M. & Cresko, W.A. (2017). Naturalistic Experimental Designs as Tools for Understanding the Role of Genes and the Environment in Prevention Research. Prevention Science 1–11. [reprint]

2016

Small, C.M., Bassham, S., Catchen, J., Amores, A., Fuiten, A.M., Brown, R.S., Jones, A.G. & Cresko, W.A. (2016). The genome of the Gulf pipefish enables understanding of evolutionary innovations. Genome Biology 17: 258. [reprint]

Petersen, A.M., Earp, N.C., Redmond, M.E., Postlethwait, J.H., Hippel, F.A. von, Buck, C.L. & Cresko, W.A. (2016). Perchlorate Exposure Reduces Primordial Germ Cell Number in Female Threespine Stickleback. PLOS ONE 11(7): e0157792. [reprint]

Milligan-Myhre, K., Small, C.M., Mittge, E.K., Agarwal, M., Currey, M., Cresko, W.A. & Guillemin, K. (2016). Innate immune responses to gut microbiota differ between oceanic and freshwater threespine stickleback populations. Disease Models & Mechanisms 9(2): 187–198. [reprint]

2015

Petersen, A.M., Dillon, D., Bernhardt, R.R., Torunsky, R., Postlethwait, J.H., von Hippel, F.A., Loren Buck, C. & Cresko, W.A. (2015). Perchlorate disrupts embryonic androgen synthesis and reproductive development in threespine stickleback without changing whole-body levels of thyroid hormone. General and Comparative Endocrinology 210: 130–144. [reprint]

Allendorf, F.W., Bassham, S., Cresko, W.A., Limborg, M.T., Seeb, L.W., & Seeb, J.E. (2015). Effects of Crossovers Between Homeologs on Inheritance and Population Genomics in Polyploid-Derived Salmonid Fishes. Journal of Heredity 106(3): 217–227. [reprint]

Furin, C.G., von Hippel, F.A., Postlethwait, J.H., Buck, C.L., Cresko, W.A. & O’Hara, T.M. (2015). Developmental timing of sodium perchlorate exposure alters angiogenesis, thyroid follicle proliferation and sexual maturation in stickleback. General and Comparative Endocrinology. [reprint]

Sikkink, K.L., Reynolds, R.M., Cresko, W.A. & Phillips, P.C. (2015). Environmentally induced changes in correlated responses to selection reveal variable pleiotropy across a complex genetic network. Evolution. [reprint]

Furin, C.G., von Hippel, F.A., Postlethwait, J., Buck, C.L., Cresko, W.A. & O’Hara, T.M. (2015). Developmental timing of perchlorate exposure alters threespine stickleback dermal bone. General and Comparative Endocrinology. [reprint]

Gardell, A.M., Dillon, D.M., Smayda, L.C., von Hippel, F.A., Cresko, W.A., Postlethwait, J.H. & Buck, C.L. (2015). Perchlorate exposure does not modulate temporal variation of whole-body thyroid and androgen hormone content in threespine stickleback. General and Comparative Endocrinology. [reprint]

Lescak, E.A., Marcotte, R.W., Kenney, L.A., von Hippel, F.A., Cresko, W.A., Sherbick, M.L., Colgren, J.J. & Andrés López, J. (2015). Admixture of ancient mitochondrial lineages in three-spined stickleback populations from the North Pacific. Journal of Biogeography 42(3): 532–539. [reprint]

Petersen, A.M., Dillon, D., Bernhardt, R.R., Torunsky, R., Postlethwait, J.H., von Hippel, F.A., Loren Buck, C. & Cresko, W.A. (2015). Perchlorate disrupts embryonic androgen synthesis and reproductive development in threespine stickleback without changing whole-body levels of thyroid hormone. General and Comparative Endocrinology 210: 130–144. [reprint]

2014

Sikkink, K.L., Ituarte, C.M., Reynolds, R.M., Cresko, W.A. & Phillips, P.C. (2014). The transgenerational effects of heat stress in the nematode Caenorhabditis remanei are negative and rapidly eliminated under direct selection for increased stress resistance in larvae. Genomics 104(6, Part A): 438–446. [reprint]

Voelker, R. B., Cresko, W. A., and Berglund, J. A. (2014). “Computational Approaches to Mine Publicly Available Databases - Springer.” Methods in Molecular Biology 1126(2014).: 325-340. [reprint]

Jamniczky, H.A., Harper, E.E., Garner, R., Cresko, W.A., Wainwright, P.C., Hallgrímsson, B. & Kimmel, C.B. (2014). Association between integration structure and functional evolution in the opercular four-bar apparatus of the threespine stickleback, Gasterosteus aculeatus (Pisces: Gasterosteidae). Biological Journal of the Linnean Society 111(2): 375–390. [reprint]

Sikkink, K.L., Reynolds, R.M., Ituarte, C.M., Cresko, W.A. & Phillips, P.C. (2014). Rapid Evolution of Phenotypic Plasticity and Shifting Thresholds of Genetic Assimilation in the Nematode Caenorhabditis remanei. G3: Genes|Genomes|Genetics 4(6): 1103–1112. [reprint]

2013

Catchen, J., Bassham, S., Wilson, T., Currey, M., O'Brien, C., Yeates, Q., Cresko, W.A. (2013). The population structure and recent colonization history of Oregon threespine stickleback determined using restriction-site associated DNA-sequencing. Molecular Ecology, (11), 2864-83. [reprint]

Catchen, J., Hohenlohe, P.A., Bassham, S., Amores, A., Cresko, W.A. (2013). Stacks: an analysis tool set for population genomics. Molecular Ecology, (11), 3124-40. [reprint]

O'Brien, C., Unruh, L., Zimmerman, C., Bradshaw, W. E., Holzapfel, C. M., & Cresko, W. A. (2013). Geography of the circadian gene clock and photoperiodic response in western North American populations of the three-spined stickleback Gasterosteus aculeatus. Journal of Fish Biology, 82(3), 827-39. [reprint]

2012

Shen, Y., Garcia, T., Pabuwal, V., Boswell, M., Pasquali, A., Beldorth, I., Warren, W., Schartl, M., Cresko, W. A., & Walter, R. B. (2012). Alternative strategies for development of a reference transcriptome for quantification of allele specific expression in organisms having sparse genomic resources. Comparative Biochemistry and Physiology Part D: Genomics Proteomics, 8(1), 11-6. [reprint]

Bradshaw, W. E., Emerson, K. J., Catchen, J. M., Cresko, W. A., & Holzapfel, C. M. (2012). Footprints in time: comparative quantitative trait loci mapping of the pitcher-plant mosquito, Wyeomyia smithii. Proceedings of the Royal Society B Biological Sciences, 279(1747), 4551-8. [reprint]

O'Brien, C. S., Bourdo, R., Bradshaw, W. E., Holzapfel, C. M., & Cresko, W. A. (2012). Conservation of the photoperiodic neuroendocrine axis among vertebrates: evidence from the teleost fish, Gasterosteus aculeatus. General Comparative Endocrinology, 178(1), 19-27. [reprint]

Kimmel, C. B., Hohenlohe, P. A., Ullmann, B., Currey, M., & Cresko, W. A. (2012). Developmental dissociation in morphological evolution of the stickleback opercle. Evolution and Development, 14(4), 326–337. [reprint]

Hohenlohe, P. A., Bassham, S., Currey, M., & Cresko, W. A. (2012). Extensive linkage disequilibrium and parallel adaptive divergence across threespine stickleback genomes. Philosophical Transactions of the Royal Society London B Biological Sciences, 367(1587), 395-408. [reprint]

Hohenlohe, P. A., Catchen, J., & Cresko, W. A. (2012). Population genomic analysis of model and nonmodel organisms using sequenced RAD tags. Methods in Molecular Biology, 888, 235-60. [reprint]

2011

Kimmel, C. B., Cresko, W. A., Phillips, P. C., Ullmann, B., Currey, M., von Hippel, F., Kristjánsson, B. K., Gelmond, O., & McGuigan, K. (2011). Independent axes of genetic variation and parallel evolutionary divergence of opercle bone shape in threespine stickleback. Evolution, 66(2), 419-34. [reprint]

Catchen, J., Amores, A., Hohenlohe, P. A., Cresko, W. A., & Postlethwait, J. (2011). Stacks: building and genotyping loci de novo from short-read sequences. G3: Genes, Genomes, Genetics, 1, 171-182. [reprint]

Amores, A., Catchen, J., Ferrara, A., Fontenot, Q., & Postlethwait, J. (2011). Genome evolution and meiotic maps by massively parallel DNA sequencing: Spotted gar, an outgroup for the teleost genome duplication. Genetics, 188, 799–808. [reprint]

Davey, J., Hohenlohe, P., Etter, P., Boone, J., Catchen, J., & Blaxter, M. (2011). Genome-wide genetic marker discovery and genotyping using next-generation sequencing. Nature Reviews Genetics, 12, 499-510. [reprint]

Hohenlohe, P., Amish, S., Catchen, J., Allendorf, F., & Luikart, G. (2011). RAD sequencing identifies thousands of SNPs for assessing hybridization between rainbow trout and westslope cutthroat trout. Molecular Ecology Resources, 11(s1), 117-122. [reprint]

McGuigan, K., Nishimura, N., Currey, M., Hurwit, D. & Cresko, W. A. (2011). Cryptic Genetic Variation and Body Size Evolution in Threespine Stickleback. Evolution, 65, 1203–1211. [reprint]

Etter, P. D., Preston, J. L., Bassham, S., Cresko, W. A., & Johnson, E. A. (2011). Local De Novo Assembly of RAD Paired-End Contigs Using Short Sequencing Reads. PLoS ONE, 6(4), e18561. [reprint]

Etter, P. D., Bassham, S., Hohenlohe, P. A., Johnson, E. A., & Cresko, W. A. (2011). SNP Discovery and Genotyping for Evolutionary Genetics Using RAD Sequencing. Methods in Molecular Biology, 772, 157-78. [reprint]

Nishimura, N., Heins, D. C., Andersen, R. O., Barber, I., & Cresko, W. A. (2011). Distinct Lineages of Schistocephalus Parasites in Threespine and Ninespine Stickleback Hosts Revealed by DNA Sequence Analysis. PLoS ONE, 6(7), e22505. [reprint]

2010

McGuigan, K., Nishimura, N., Currey, M., Hurwit, D., & Cresko, W. A. (2010). Quantitative Genetic Variation in Static Allometry in the Threespine Stickleback. Integrative and Comparative Biology, 50(6), 1067-1080. [reprint]

Allendorf, F. W., Hohenlohe, P. A., & Luikart, G. (2010). Genomics and the future of conservation genetics. Nature Reviews Genetics, 11, 697-709. [reprint]

Hohenlohe, P. A., & Arnold, S. J. (2010). The dimensionality of mate choice, sexual isolation, and speciation. Proceedings of the National Academy of Sciences, 107(38), 16583-16588. [reprint].

Emerson, K. J., Merz, C. R., Catchen, J. M., Hohenlohe, P. A., Cresko, W. A., Bradshaw, W. E., & Holzapfel, C. M. (2010). Out of Appalachia: Resolving post-glacial phylogeography using high-throughput sequencing. Proceedings of the National Academy of Sciences, 107(37), 16196-200. [reprint]

Hohenlohe, P. A., Phillips, P. C., & Cresko, W. A. (2010). Using population genomics to detect selection in natural populations: key concepts and methodological considerations. International Journal of Plant Sciences, 171(9), 1059-1071. [reprint]

Hohenlohe, P. A., Bassham, S., Etter, P. D., Stiffler, N., Johnson, E. A., & Cresko, W. A. (2010). Population genomic analysis of parallel adaptation in threespine stickleback using sequenced RAD tags. PLoS Genetics 6(2), e1000862. [reprint]

2009

Yeates-Burghart, Q. S., O’Brien, C., Cresko, W. A., Holzapfel, C. M., & Bradshaw, W. E. (2009). Latitudinal variation in photoperiodic response of the three-spined stickleback Gasterosteus aculeatus in western North America. Journal of Fish Biology, 75(8), 2075-81. [reprint]

Albertson, R. C., Cresko, W., Detrich, H. W., & Postlethwait, J. H. (2009). Evolutionary mutant models for human disease. Trends in Genetics, 25(2), 74-81. [reprint]

2008

Cresko, W. A. (2008). Armor Development and Fitness. Science, 322(5899), 204-206. [reprint]

Kimmel, C. B., Aguirre, W. E., Ullmann, B., Currey, M., & Cresko, W. A. (2008). Allometric change accompanies opercular shape evolution in Alaskan threespine sticklebacks. Behaviour, 145(4-5), 669-691. [reprint]

Lewis, Z. R., McClellan, M. C., Postlethwait, J. H., Cresko, W. A., & Kaplan, R. H. (2008). Female-specific increaes in primordial germ cells marks sex differntiation in threespine stickleback (Gasterosteus aculeatus). Journal of Morphology, 269(8), 909-921. [reprint]

Baird, N. A., Eter, P. D., Atwood, T. S., Currey, M. C., Shiver, A. L., Lewis, A., Selker, E. U., Cresko, W. A., & Johnson, E. A. (2008). Rapid SNP discovery and genetic mapping using sequenced RAD markers. PLoS One, 3(10), e3376. [reprint]

Calcott, B., Balcan, D., & Hohenlohe, P. A. (2008). A publish-subscribe model of genetic networks. PLoS ONE, 3(9), e3245. [reprint]

Stinchcombe, J. R., Agrawal, A. F., Hohenlohe, P. A., Arnold, S. J., & Blows, M. W. (2008). Estimating non-linear selection gradients using quadratic regression coefficients: double or nothing? Evolution, 62(9), 2435-2440. [reprint]

Hohenlohe, P. A., & Arnold, S. J. (2008). MIPoD: A hypothesis-testing framework for microevolutionary inference from patterns of divergence. American Naturalist, 171(3), 366-385. [reprint]

2007

Miller, M., Dunham, J., Amores, A., Cresko, W. A., & Johnson, E. (2007). Rapid and cost-effective polymorphism identification and genotyping using Restriction site Associated DNA (RAD) markers. Genome Research, 17(2), 240-248. [reprint]

Jovelin, R. He, X., Amores, A., Yan, Y., Cresko, W. A., & Postlethwait, J. H. (2007). FGF8 duplication and functional divergence in the ray-fin fish lineage. Journal of Experimental Zoology Part B: Molecular and Developmental Evolution, 308, 730-743. [reprint]

2006

Cresko, W. A., McGuigan, K. L., Phillips, P. C., & Postlethwait, J. H. (2006). Studies of threespine stickleback developmental evolution: progress and promise. Genetica, 129(1), 105-126. [reprint]

2005

Force, A., Cresko, W. A., Pickett, F. B., Proulx, S. R., Amemiya, C., & Lynch, M. (2005). The origin of subfunctions and modular gene regulation. Genetics, 170, 433-446. [reprint]

Baker, J., Cresko, W. A., Foster, S., & Heins, D. (2005). Life History differentiation of benthic and limnetic ecotypes in a polytypic population of threespine stickleback, Gasterosteus aculeatus. Evolutionary Ecology Research, 7, 121-131. [reprint]

Kimmel, C. B., Ullmann, B., Walker, C., Wilson, C., Currey, M., Phillips, P. C., Bell, M. A., Postlethwait, J. A., & Cresko, W. A. (2005). Evolution and development of facial bone morphology in threespine sticklebacks. Proceedings of the National Academy of Sciences of the United States of America, 102(16), 5791-6. [reprint]

2004

Force, A. G., Cresko, W. A., & Pickett, F. (2004). Informational accretion, gene duplication and the mechanisms of genetic module parcellation, in Schlosser, G., & Wagner, G. P. (Eds.). Modularity in Development and Evolution. Chicago: University of Chicago Press. 350-375.

Cresko, W. A., Amores, A., Wilson, C., Murphy, J., Currey, M., Phillips, P., Bell, M., Kimmel, C., & Postlethwait, J. (2004). Parallel genetic basis for repeated evolution of armor loss in Alaskan threespine stickleback populations. Proceedings of the National Academy of Sciences of the United States of America, 101, 6050-6055. [reprint]

2003 and earlier

Cresko, W. A., Yan, Y., Baltrus, D., Amores, A., Singer, A., Rodriguez-Mari, A., & Postlethwait, J. (2003). Genome Duplication, Subfunction Partitioning, and Lineage Divergence: Sox9 in Stickleback and Zebrafish. Developmental Dynamics, 228, 480-489. [reprint]

Foster, S. A., Scott, R., & Cresko, W. A. (1998). Nested biological variation and speciation. Philosophical Transactions of the Royal Society London B Biological Sciences, 353, 207-218. [reprint]

Cresko, W. A., & Baker, J. A. (1996). Two morphotypes of lacustrine threespine stickleback, Gasterosteus aculeatus, in Benka Lake, Alaska. Environmental Biology of Fishes, 45, 343-350. [reprint]

Cresko Laboratory, Center for Ecology and Evolution at the University of Oregon
News Brief

January 2017 - Kristin Alligood successfully defends Ph.D.


January 2017 - Allison Fuiten is awarded a DDIG from the NSF. See Lab News for more.


December 2016 - Gulf Pipefish genome paper published.


November 2016 - Bill Cresko elected AAAS Fellow.


April / July 2016 - Cresko Lab members receive six conference awards for posters or talks. See Lab News for more.


January / February 2016 - Susan Bassham appears in a short documentary and a more in-depth interview relating to the lab's recently published Middleton Island work. See Lab News or the link below for more.


December 2015 - "Evolution of stickleback in 50 years on earthquake-uplifted islands" paper published.


Lab News