Publications

2025

  1. Week B, Ralph PL, Tavalire HF, Cresko WA, Bohannan BJM. (2025). Quantitative genetics of microbiome-mediated traits. Evolution qpaf171.

  2. Leve LD, DeGarmo DS, Searcy J, Budd EL, Ramírez García JI, Mauricio AM, Cresko WA. (2025). Attendance of Underserved Populations at Field-Based Health Services Events. Prevention Science 1-11.

  3. Barker EM, Small CM, Bassham S, Beck EA, Currey MC, Healey HM, Johnson BD, Cresko WA, Jones AG. (2025). Signatures and likely sources of the male pregnancy microbiome in wild bay pipefish. Animal Microbiome 7(1):112.

  4. Healey HM, Penn HB, Small CM, Bassham S, Goyal V, Woods MA, Cresko WA. (2025). Single-cell sequencing provides clues about the developmental genetic basis of evolutionary adaptations in syngnathid fishes. eLife 13:RP97764.

  5. Snyder SN, Meyer WC, Jorgenson SL, Contreras EB, Bland T, Cresko WA. (2025). Predator induced phenotypes are inherited over four generations in genetically identical Daphnia lumholtzi. bioRxiv and in review at Evolution.

  6. Beck EA, Smith CA, Currey MC, Small CM, Bohannan BJM, Cresko WA. (2025). Spontaneous mutant in threespine stickleback connects endosome trafficking disorders and inflammatory bowel diseases. bioRxiv and in review at G3.

2024

  1. Ramesh B, Small CM, Bassham S, Johnson B, Barker E, Rose E, Currey MC, Healey HM, Myers M, Ahnesjö I, Kvarnemo L, Monteiro N, Cresko WA, Jones AG. (2024). Chromosome-scale genome assemblies for 10 syngnathiform fishes produced using a standardized sequencing and annotation workflow. bioRxiv and in review at Molecular Ecology.

2023

  1. Small CM, Beck EA, Currey MC, Tavalire HF, Bassham S, Cresko WA. (2023). Host genomic variation shapes gut microbiome diversity in threespine stickleback fish. mBio 14:e0021923.

  2. Currey MC, Walker C, Bassham S, Healey HM, Beck EA, Cresko WA. (2023). Genome-wide analysis facilitates estimation of male contribution in meiotic gynogenesis. Journal of Fish Biology 102(4):844-855.

  3. Ramesh B, Small CM, Healey HM, Johnson B, Barker E, Currey MC, Bassham S, Myers M, Cresko WA, Jones AG. (2023). Improvements to the Gulf pipefish genome. GigaByte 2023:gigabyte76.

  4. Searcy JA, Cioffi CC, Tavalire HF, Budd EL, Cresko WA, DeGarmo DS, Leve LD. (2023). Reaching Latinx communities with algorithmic optimization for SARS-CoV-2 testing locations. Prevention Science 24:1249-1260.

  5. Frantz SI, Small CM, Cresko WA, Singh ND. (2023). Ovarian transcriptional response to Wolbachia infection in D. melanogaster. G3: Genes|Genomes|Genetics 13(5):jkad047.

2022

  1. Beck EA, Bassham S, Cresko WA. (2022). Extreme intraspecific divergence in mitochondrial haplotypes makes threespine stickleback an emerging evolutionary model. Frontiers in Genetics 13:925786.

  2. Small CM, Healey HM, Currey MC, Beck EA, Catchen J, Lin ASP, Cresko WA, Bassham S. (2022). Leafy and weedy seadragon genomes connect genic and repetitive DNA to syngnathid biology. PNAS 119(26):e2119602119.

  3. Healey HM, Bassham S, Cresko WA. (2022). Single-cell Iso-Sequencing enables rapid genome annotation for scRNAseq analysis. Genetics 220(3):iyac017.

  4. Beck EA, Healey HM, Small CM, Currey MC, Desvignes T, Cresko WA, Postlethwait JH. (2022). Advancing human disease research with fish evolutionary mutant models. Trends in Genetics 38:22-44.

  5. Budd EL, McWhirter EH, De Anda S, Mauricio AM, Mueller MV, Cioffi CC, Nash A, Van Brocklin K, Yarris K, Jackson A, Terral H, García JR, Cresko WA, DeGarmo DS, Leve LD. (2022). Development and design of a culturally tailored intervention to address COVID-19 disparities. Frontiers in Public Health 10:962862.

  6. De Anda S, Budd EL, Halvorson S, Mauricio AM, McWhirter EH, Cioffi CC, García JR, Cresko WA, Leve LD, DeGarmo DS. (2022). Effects of a health education intervention for COVID-19 prevention in Latinx communities. American Journal of Public Health 112:S923-S927.

  7. DeGarmo DS, De Anda S, Cioffi CC, Tavalire HF, Searcy JA, Budd EL, McWhirter EH, Mauricio AM, Halvorson S, Beck EA, Fernandes L, Currey MC, García JR, Cresko WA, Leve LD. (2022). Effectiveness of a COVID-19 testing outreach intervention for Latinx communities. JAMA Network Open 5:e2216796.

  8. Petersen AM, Small CM, Yan YL, Wilson C, Batzel P, Bremiller RA, Buck CL, von Hippel FA, Cresko WA, Postlethwait JH. (2022). Evolution and developmental expression of the sodium-iodide symporter gene family. Evolutionary Applications 15:1079-1098.

2021

  1. Tavalire HF, Christie DM, Leve LD, Ting N, Cresko WA, Bohannan BJM. (2021). Shared environment and genetics shape the gut microbiome after infant adoption. mBio 12(2):e00548-21.

  2. O’Connor CH, Sikkink KL, Nelson TC, Fierst JL, Cresko WA, Phillips PC. (2021). Complex pleiotropic genetic architecture of evolved heat stress and oxidative stress resistance. G3: Genes|Genomes|Genetics 11(4):jkab045.

  3. Fuiten AM, Cresko WA. (2021). Evolutionary divergence of a Hoxa2b hindbrain enhancer in syngnathids. Development, Genes and Evolution 231:57-71.

  4. Rengefors K, Gollnisch R, Sassenhagen I, Härnström Aloisi K, Svensson M, Lebret K, Čertnerová D, Cresko WA, Bassham S, Ahrén D. (2021). Genome-wide single nucleotide polymorphism markers reveal population structure. Molecular Ecology 30:912-925.

  5. Stervander M, Cresko WA. (2021). A highly contiguous nuclear genome assembly of the mandarinfish. G3: Genes|Genomes|Genetics 11(12):jkab306.

2020

  1. Beck EA, Currey MC, Small CM, Cresko WA. (2020). QTL mapping of intestinal neutrophil variation in threespine stickleback. G3: Genes|Genomes|Genetics 10(2):613-622.

  2. Galloway J, Cresko WA, Ralph P. (2020). A few stickleback suffice for the transport of alleles to new lakes. G3: Genes|Genomes|Genetics 10(2):505-514.

2019

  1. Small CM, Currey MC, Beck EA, Bassham S, Cresko WA. (2019). Highly reproducible 16S sequencing facilitates measurement of host genetic influences on the stickleback gut microbiome. mSystems 4(4):e00331-19.

  2. Currey MC, Bassham S, Cresko WA. (2019). Genetic divergence outpaces phenotypic evolution among threespine stickleback populations. Biological Journal of the Linnean Society 128(2):415-434.

  3. Steury RA, Currey MC, Cresko WA, Bohannan BJM. (2019). Population genetic divergence and environment influence the gut microbiome. Genes 10(7):484.

  4. Nelson TC, Crandall JG, Ituarte CM, Catchen JM, Cresko WA. (2019). Selection, linkage, and population structure interact to shape genetic variation. Genetics 212:1367-1382.

  5. Sikkink KL, Reynolds RM, Ituarte CM, Cresko WA, Phillips PC. (2019). Environmental and evolutionary drivers of the modular gene regulatory network. G3: Genes|Genomes|Genetics 9(3):969-982.

  6. Tavalire HF, Cresko WA, Leve LD. (2019). Determining the contributions of stress and inflammation to child health. Behavior Genetics 49(6):504-505.

2018

  1. Bassham S, Catchen J, Lescak E, von Hippel FA, Cresko WA. (2018). Repeated selection of alternatively adapted haplotypes creates sweeping genomic remodeling. Genetics 209(3):921-939.

  2. Nelson TC, Cresko WA. (2018). Ancient genomic variation underlies repeated ecological adaptation in young stickleback populations. Evolution Letters 2(1):9-21.

  3. Leve LD, Neiderhiser JM, Harold GT, Natsuaki MN, Bohannan BJM, Cresko WA. (2018). Naturalistic experimental designs as tools for understanding the role of genes and the environment. Prevention Science 19(1):68-78.

2017

  1. Small CM, Milligan-Myhre K, Bassham S, Guillemin K, Cresko WA. (2017). Host genotype and microbiota contribute asymmetrically to transcriptional variation. Genome Biology and Evolution 9(3):504-520.

  2. Gardell AM, von Hippel FA, Adams EM, Dillon DM, Petersen AM, Postlethwait JH, Cresko WA, Buck CL. (2017). Exogenous iodide ameliorates perchlorate-induced thyroid phenotypes in stickleback. General and Comparative Endocrinology 243:60-69.

  3. Currey MC, Bassham S, Perry S, Cresko WA. (2017). Developmental timing differences underlie armor loss across threespine stickleback populations. Evolution and Development 19(6):231-243.

  4. Lescak EA, Wund MA, Bassham S, Catchen J, Prince DJ, Lucas R, Dominguez G, von Hippel FA, Cresko WA. (2017). Ancient three-spined stickleback mtDNA lineages are not associated with phenotypic or nuclear genetic variation. Biological Journal of the Linnean Society 122(3):579-588.

2016

  1. Small CM, Bassham S, Catchen J, Amores A, Fuiten AM, Brown RS, Jones AG, Cresko WA. (2016). The genome of the Gulf pipefish enables understanding of evolutionary innovations. Genome Biology 17:258.

  2. Milligan-Myhre K, Small CM, Agarwal M, Mittge EK, Cresko WA, Guillemin K. (2016). Innate immune responses to gut microbiota differ between threespine stickleback populations. Disease Models and Mechanisms 9(2):187-198.

  3. Petersen AM, Earp N, Redmond M, Postlethwait JH, von Hippel FA, Buck CL, Cresko WA. (2016). Perchlorate exposure reduces primary germ cell number in female stickleback. PLoS One 11(7):e0157792.

2015

  1. Lescak EA, Bassham S, Catchen J, Gelmond O, Sherbick ML, von Hippel FA, Cresko WA. (2015). Evolution of stickleback in 50 years on earthquake-uplifted islands. PNAS 112(52):E7204-E7212.

  2. Petersen AM, Dillon D, Bernhardt RR, Torunsky R, Postlethwait JH, von Hippel FA, Buck CL, Cresko WA. (2015). Perchlorate disrupts embryonic androgen synthesis without changing thyroid hormone. General and Comparative Endocrinology 210:130-144.

  3. Sikkink KL, Reynolds RM, Cresko WA, Phillips PC. (2015). Environmentally induced changes in correlated responses to selection reveal variable pleiotropy. Evolution 69:1128-1142.

  4. Allendorf FW, Bassham S, Cresko WA, Limborg MT, Seeb LW, Seeb JE. (2015). Effects of crossovers between homeologs on inheritance and population genomics in polyploid-derived salmonid fishes. Journal of Heredity 106:217-227.

  5. Catchen JM, Hohenlohe PA, Bernatchez L, Funk WC, Andrews KR, Allendorf FW, Cresko WA. (2015). Unbroken: RADseq remains a powerful tool for understanding the genetics of adaptation in natural populations. Molecular Ecology Resources 17(3):362-365.

2014

  1. Sikkink KL, Reynolds RM, Ituarte CM, Cresko WA, Phillips PC. (2014). Rapid evolution of phenotypic plasticity and shifting thresholds of genetic assimilation. G3: Genes|Genomes|Genetics 4(6):1103-1112.

  2. Sikkink KL, Ituarte CM, Reynolds RM, Cresko WA, Phillips PC. (2014). The transgenerational effects of heat stress in the nematode Caenorhabditis remanei. Genomics 104:438-446.

  3. Reynolds RM, Temiyasathit S, Reedy MM, Ruedi EA, Drnevich JM, Leips J, Cresko WA. (2014). Evolutionary change in the developmental timing of an adaptive phenotype. Evolution 68(12):3607-3616.

  4. Malek TB, Boughman JW, Dworkin I, Peichel CL, Cresko WA. (2014). Admixture mapping of male nuptial color and body shape in a recently formed hybrid population of threespine stickleback. Molecular Ecology 21(21):5265-5279.

2013

  1. Catchen J, Bassham S, Wilson T, Currey MC, O’Brien C, Yeates Q, Cresko WA. (2013). The population structure and recent colonization history of Oregon threespine stickleback. Molecular Ecology 22(11):2864-2883.

  2. Catchen J, Hohenlohe PA, Bassham S, Amores A, Cresko WA. (2013). Stacks: an analysis tool set for population genomics. Molecular Ecology 22(11):3124-3140.

  3. O’Brien CS, Unruh L, Zimmerman C, Bradshaw WE, Holzapfel CM, Cresko WA. (2013). Geography of the circadian gene clock and photoperiodic response in western North American populations. Journal of Fish Biology 82(3):827-839.

2012

  1. Kimmel CB, Hohenlohe PA, Ullmann B, Currey MC, Cresko WA. (2012). Developmental dissociation in morphological evolution of the stickleback opercle. Evolution and Development 14(4):326-337.

  2. Hohenlohe PA, Bassham S, Currey MC, Cresko WA. (2012). Extensive linkage disequilibrium and parallel adaptive divergence across threespine stickleback genomes. Philosophical Transactions of the Royal Society B 367(1587):395-408.

  3. Hohenlohe PA, Catchen J, Cresko WA. (2012). Population genomic analysis of model and nonmodel organisms using sequenced RAD tags. Methods in Molecular Biology 888:235-260.

  4. Kimmel CB, McGuigan K, Phillips PC, Ullmann B, Currey MC, von Hippel FA, Kristjánsson BK, Gelmond O, Cresko WA. (2012). Independent axes of genetic variation and parallel evolutionary divergence of opercle bone shape. Evolution 66(2):419-434.

  5. O’Brien CS, Bourdo R, Bradshaw WE, Holzapfel CM, Cresko WA. (2012). Conservation of the photoperiodic neuroendocrine axis among vertebrates. General and Comparative Endocrinology 178:19-27.

2011

  1. McGuigan K, Nishimura N, Currey MC, Hurwit D, Cresko WA. (2011). Cryptic genetic variation and body size evolution in threespine stickleback. Evolution 65:1203-1211.

  2. Etter PD, Bassham S, Hohenlohe PA, Johnson EA, Cresko WA. (2011). SNP discovery and genotyping for evolutionary genetics using RAD sequencing. Methods in Molecular Biology 772:157-178.

  3. Catchen JM, Amores A, Hohenlohe PA, Cresko WA, Postlethwait JH. (2011). Stacks: building and genotyping loci de novo from short-read sequences. G3: Genes|Genomes|Genetics 1:171-182.

  4. Etter P, Preston J, Bassham S, Cresko WA, Johnson EA. (2011). Local de novo assembly of RAD paired-end contigs using short sequencing reads. PLoS One 6(4):e18561.

  5. Nishimura N, Heins D, Anderson R, Barber I, Cresko WA. (2011). Distinct lineages of Schistocephalus parasites in threespine and ninespine stickleback hosts. PLoS One 6(7):e22505.

2010

  1. Hohenlohe PA, Bassham S, Etter PD, Stiffler N, Johnson EA, Cresko WA. (2010). Population genomics of parallel adaptation in threespine stickleback using sequenced RAD tags. PLoS Genetics 6(2):e1000862.

  2. Hohenlohe PA, Phillips PC, Cresko WA. (2010). Using population genomics to detect selection in natural populations. International Journal of Plant Sciences 171(9):1059-1071.

  3. Emerson KJ, Merz CR, Catchen JM, Hohenlohe PA, Cresko WA, Bradshaw WE, Holzapfel CM. (2010). Resolving postglacial phylogeography using high-throughput sequencing. PNAS 107(37):16196-16200.

  4. McGuigan K, Nishimura N, Currey MC, Hurwit D, Cresko WA. (2010). Quantitative genetic variation in static allometry in threespine stickleback. Integrative and Comparative Biology 50(6):1067-1080.

2009

  1. Albertson RC, Cresko WA, Dietrich HW III, Postlethwait JH. (2009). Evolutionary mutant models for human disease. Trends in Genetics 25(2):74-81.

  2. Yeates-Burghart QS, O’Brien CS, Cresko WA, Holzapfel CM, Bradshaw WE. (2009). Latitudinal variation in photoperiodic response of the three-spined stickleback. Journal of Fish Biology 75:2075-2081.

2008

  1. Baird NA, Etter PD, Atwood TS, Currey MC, Shiver AL, Lewis ZA, Selker EU, Cresko WA, Johnson EA. (2008). Rapid SNP discovery and genetic mapping using sequenced RAD markers. PLoS One 3(10):e3376.

  2. Cresko WA. (2008). Armor Development and Fitness. Science 322:204-206.

  3. Cresko WA. (2008). Special issue on stickleback behavior and evolution: Preface. Behaviour 145:409-411.

  4. Kimmel CB, Ullmann B, Currey MC, Aguirre WE, Cresko WA. (2008). Heterotopy explains opercular shape evolution in Alaskan threespine sticklebacks. Behaviour 145:669-691.

  5. Lewis ZR, McClellan MC, Postlethwait JH, Cresko WA, Kaplan RH. (2008). Female-specific increases in primordial germ cells marks sex differentiation in threespine stickleback. Journal of Morphology 269:909-921.

2007

  1. Miller MR, Dunham JP, Amores A, Cresko WA, Johnson EA. (2007). Rapid and cost-effective polymorphism identification and genotyping using RAD markers. Genome Research 17(2):240-248.

  2. Cresko WA, McGuigan K, Phillips PC, Postlethwait JH. (2007). Developmental basis of microevolution in threespine stickleback. Genetica 129(1):105-126.

2006

  1. Bernhardt RR, von Hippel FA, Cresko WA. (2006). Perchlorate induces hermaphroditism in threespine stickleback. Environmental Toxicology and Chemistry 25(8):2087-2096.

2005

  1. Kimmel CB, Ullmann B, Walker C, Wilson C, Currey MC, Phillips PC, Bell MA, Postlethwait JH, Cresko WA. (2005). Evolution and development of facial bone morphology in threespine sticklebacks. PNAS 102(16):5791-5796.

  2. Force A, Cresko WA, Pickett FB, Proulx SR, Amemiya C, Lynch M. (2005). The origin of subfunctions and modular gene regulation. Genetics 170:433-446.

2004

  1. Cresko WA, Amores A, Wilson C, Murphy J, Currey MC, Phillips P, Bell MA, Kimmel CB, Postlethwait JH. (2004). Parallel genetic basis for repeated evolution of armor loss in Alaskan threespine stickleback. PNAS 101(16):6050-6055.

  2. Postlethwait JH, Amores A, Cresko WA, Yan Y. (2004). Evolutionary and developmental consequences of teleost genome duplication. Trends in Genetics 20(10):481-490.

2003

  1. Cresko WA, Yan Y, Baltrus D, Amores A, Singer A, Rodriguez-Mari A, Postlethwait JH. (2003). Genome duplication, subfunction partitioning, and lineage divergence: Sox9 in stickleback and zebrafish. Developmental Dynamics 228:480-489.

2000

  1. Cresko WA. (2000). The ecology and geography of speciation: A case study using an adaptive radiation of threespine stickleback in Alaska. PhD Dissertation, Clark University, Worcester, MA.

1998

  1. Foster SA, Scott R, Cresko WA. (1998). Nested biological variation and speciation. Philosophical Transactions of the Royal Society of London B 353:207-218.

1997

  1. Roosenburg WM, Cresko WA, Modesitte M, Robbins MB. (1997). Diamondback terrapin mortality in crab pots. Conservation Biology 11:1166-1172.

1996

  1. Cresko WA, Baker JA. (1996). Two morphotypes of lacustrine threespine stickleback in Benka Lake, Alaska. Environmental Biology of Fishes 45:343-350.

  2. Cameron S, Whitfield J, Hulslander C, Cresko WA, Isenberg S, King R. (1996). Nesting biology and foraging patterns of the solitary bee Melissodes rustica. Journal of the Kansas Entomological Society 69(4):260-273.

Publication Profiles

Metrics

100+ publications | 15,000+ citations | h-index: 52

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