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Jesse W. Breinholt, Ph.D. - Publications

Affiliations: 
Biology Brigham Young University, Provo, UT, United States 
Area:
Population genetics, evolutionary biology, bioinformatics, crustacean systematics
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46 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2024 Frandsen PB, Holzenthal RW, Espeland M, Breinholt J, Thomas Thorpe JA, Simon S, Kawahara AY, Plotkin D, Hotaling S, Li Y, Nelson CR, Niehuis O, Mayer C, Podsiadlowski L, Donath A, et al. Phylogenomics recovers multiple origins of portable case making in caddisflies (Insecta: Trichoptera), nature's underwater architects. Proceedings. Biological Sciences. 291: 20240514. PMID 38955232 DOI: 10.1098/rspb.2024.0514  0.435
2024 Carvalho APS, Owens HL, St Laurent RA, Earl C, Dexter KM, Messcher RL, Willmott KR, Aduse-Poku K, Collins SC, Homziak NT, Hoshizaki S, Hsu YF, Kizhakke AG, Kunte K, Martins DJ, ... ... Breinholt JW, et al. Comprehensive phylogeny of Pieridae butterflies reveals strong correlation between diversification and temperature. Iscience. 27: 109336. PMID 38500827 DOI: 10.1016/j.isci.2024.109336  0.33
2023 Li X, Breinholt JW, Martinez JI, Keegan K, Ellis EA, Homziak NT, Zwick A, Storer CG, McKenna D, Kawahara AY. Large-scale genomic data reveal the phylogeny and evolution of owlet moths (Noctuoidea). Cladistics : the International Journal of the Willi Hennig Society. PMID 37787424 DOI: 10.1111/cla.12559  0.513
2023 Kawahara AY, Storer C, Carvalho APS, Plotkin DM, Condamine FL, Braga MP, Ellis EA, St Laurent RA, Li X, Barve V, Cai L, Earl C, Frandsen PB, Owens HL, Valencia-Montoya WA, ... ... Breinholt JW, et al. A global phylogeny of butterflies reveals their evolutionary history, ancestral hosts and biogeographic origins. Nature Ecology & Evolution. PMID 37188966 DOI: 10.1038/s41559-023-02041-9  0.396
2022 Shalev TJ, Gamal El-Dien O, Yuen MMS, Shengqiang S, Jackman SD, Warren RL, Coombe L, van der Merwe L, Stewart A, Boston LB, Plott C, Jenkins J, He G, Yan J, Yan M, ... ... Breinholt JW, et al. The western redcedar genome reveals low genetic diversity in a self-compatible conifer. Genome Research. PMID 36109148 DOI: 10.1101/gr.276358.121  0.305
2021 Hamilton CA, Winiger N, Rubin JJ, Breinholt J, Rougerie R, Kitching IJ, Barber JR, Kawahara AY. Hidden phylogenomic signal helps elucidate arsenurine silkmoth phylogeny and the evolution of body size and wing shape trade-offs. Systematic Biology. PMID 34791485 DOI: 10.1093/sysbio/syab090  0.338
2021 Bybee SM, Kalkman VJ, Erickson RJ, Frandsen PB, Breinholt JW, Suvorov A, Dijkstra KB, Cordero-Rivera A, Skevington JH, Abbott JC, Sanchez Herrera M, Lemmon AR, Moriarty Lemmon E, Ware JL. Phylogeny and classification of Odonata using targeted genomics. Molecular Phylogenetics and Evolution. 107115. PMID 33609713 DOI: 10.1016/j.ympev.2021.107115  0.784
2019 Kawahara AY, Plotkin D, Espeland M, Meusemann K, Toussaint EFA, Donath A, Gimnich F, Frandsen PB, Zwick A, Dos Reis M, Barber JR, Peters RS, Liu S, Zhou X, Mayer C, ... ... Breinholt JW, et al. Phylogenomics reveals the evolutionary timing and pattern of butterflies and moths. Proceedings of the National Academy of Sciences of the United States of America. PMID 31636187 DOI: 10.1073/Pnas.1907847116  0.53
2019 Hamilton CA, St Laurent RA, Dexter K, Kitching IJ, Breinholt JW, Zwick A, Timmermans MJTN, Barber JR, Kawahara AY. Phylogenomics resolves major relationships and reveals significant diversification rate shifts in the evolution of silk moths and relatives. Bmc Evolutionary Biology. 19: 182. PMID 31533606 DOI: 10.1186/S12862-019-1505-1  0.554
2019 Wolfe JM, Breinholt JW, Crandall KA, Lemmon AR, Lemmon EM, Timm LE, Siddall ME, Bracken-Grissom HD. A phylogenomic framework, evolutionary timeline and genomic resources for comparative studies of decapod crustaceans. Proceedings. Biological Sciences. 286: 20190079. PMID 31014217 DOI: 10.1098/Rspb.2019.0079  0.788
2019 Pfeiffer JM, Breinholt JW, Page LM. Unioverse: A phylogenomic resource for reconstructing the evolution of freshwater mussels (Bivalvia, Unionoida). Molecular Phylogenetics and Evolution. PMID 30797940 DOI: 10.1016/J.Ympev.2019.02.016  0.489
2018 Espeland M, Breinholt J, Barbosa EP, Casagrande M, Huertas B, Lamas G, Marín MA, Mielke OHH, Miller JY, Nakahara S, Tan D, Warren AD, Zacca T, Kawahara AY, Freitas ALV, et al. Four hundred shades of brown: Higher level phylogeny of the problematic Euptychiina (Lepidoptera, Nymphalidae, Satyrinae) based on hybrid enrichment data. Molecular Phylogenetics and Evolution. PMID 30423438 DOI: 10.1016/J.Ympev.2018.10.039  0.624
2018 Homziak NT, Breinholt JW, Branham MA, Storer CG, Kawahara AY. Anchored hybrid enrichment phylogenomics resolves the backbone of erebine moths. Molecular Phylogenetics and Evolution. PMID 30391315 DOI: 10.1016/J.Ympev.2018.10.038  0.619
2018 Johns CA, Toussaint EFA, Breinholt JW, Kawahara AY. Origin and macroevolution of micro-moths on sunken Hawaiian Islands. Proceedings. Biological Sciences. 285. PMID 30158307 DOI: 10.1098/Rspb.2018.1047  0.457
2018 Toussaint EFA, Breinholt JW, Earl C, Warren AD, Brower AVZ, Yago M, Dexter KM, Espeland M, Pierce NE, Lohman DJ, Kawahara AY. Anchored phylogenomics illuminates the skipper butterfly tree of life. Bmc Evolutionary Biology. 18: 101. PMID 29921227 DOI: 10.1186/S12862-018-1216-Z  0.527
2018 Kawahara AY, Breinholt JW, Espeland M, Storer C, Plotkin D, Dexter KM, Toussaint EFA, St Laurent RA, Brehm G, Vargas S, Forero D, Pierce NE, Lohman DJ. Phylogenetics of moth-like butterflies (Papilionoidea: Hedylidae) based on a new 13-locus target capture probe set. Molecular Phylogenetics and Evolution. PMID 29902572 DOI: 10.1016/J.Ympev.2018.06.002  0.59
2018 Espeland M, Breinholt J, Willmott KR, Warren AD, Vila R, Toussaint EFA, Maunsell SC, Aduse-Poku K, Talavera G, Eastwood R, Jarzyna MA, Guralnick R, Lohman DJ, Pierce NE, Kawahara AY. A Comprehensive and Dated Phylogenomic Analysis of Butterflies. Current Biology : Cb. PMID 29456146 DOI: 10.1016/J.Cub.2018.01.061  0.611
2018 Miller DB, Bartlett S, Sartori M, Breinholt JW, Ogden TH. Anchored phylogenomics of burrowing mayflies (Ephemeroptera) and the evolution of tusks Systematic Entomology. 43: 692-701. DOI: 10.1111/Syen.12298  0.412
2017 Scott Chialvo CH, Chialvo P, Holland JD, Anderson TJ, Breinholt JW, Kawahara AY, Zhou X, Liu S, Zaspel JM. A phylogenomic analysis of lichen-feeding tiger moths uncovers evolutionary origins of host chemical sequestration. Molecular Phylogenetics and Evolution. PMID 29274497 DOI: 10.1016/J.Ympev.2017.12.015  0.446
2017 Stern DB, Breinholt J, Pedraza C, López-Mejía M, Owen CL, Bracken-Grissom H, Fetzner JW, Crandall KA. Phylogenetic evidence from freshwater crayfishes that cave adaptation is not an evolutionary dead-end. Evolution; International Journal of Organic Evolution. PMID 28804900 DOI: 10.1111/Evo.13326  0.714
2017 Breinholt JW, Earl C, Lemmon AR, Moriarty Lemmon E, Xiao L, Kawahara AY. Resolving relationships among the megadiverse butterflies and moths with a novel pipeline for Anchored Phylogenomics. Systematic Biology. PMID 28472519 DOI: 10.1093/Sysbio/Syx048  0.585
2016 Homziak NT, Breinholt JW, Kawahara AY. A historical review of the classification of Erebinae (Lepidoptera: Erebidae). Zootaxa. 4189: zootaxa.4189.3.4. PMID 27988746 DOI: 10.11646/Zootaxa.4189.3.4  0.561
2016 Ahmed MZ, Breinholt JW, Kawahara AY. Evidence for common horizontal transmission of Wolbachia among butterflies and moths. Bmc Evolutionary Biology. 16: 118. PMID 27233666 DOI: 10.1186/S12862-016-0660-X  0.434
2016 KAWAHARA AY, PLOTKIN D, OHSHIMA I, LOPEZ-VAAMONDE C, HOULIHAN PR, BREINHOLT JW, KAWAKITA A, XIAO L, REGIER JC, DAVIS DR, KUMATA T, SOHN J, DE PRINS J, MITTER C. A molecular phylogeny and revised higher-level classification for the leaf-mining moth family Gracillariidae and its implications for larval host-use evolution Systematic Entomology. 42: 60-81. DOI: 10.1111/Syen.12210  0.499
2015 Ahmed MZ, Ma J, Qiu BL, He RR, Wu MT, Liang F, Zhao JP, Lin L, Hu XN, Lv LH, Breinholt JW, Lu YY. Genetic Record for a Recent Invasion of Phenacoccus solenopsis (Hemiptera: Pseudococcidae) in Asia. Environmental Entomology. 44: 907-918. PMID 26313998 DOI: 10.1093/Ee/Nvv034  0.392
2015 Storer CG, Breinholt JW, Hulcr J. Wallacellus is Euwallacea: molecular phylogenetics settles generic relationships (Coleoptera: Curculionidae: Scolytinae: Xyleborini). Zootaxa. 3974: 391-400. PMID 26249912 DOI: 10.11646/Zootaxa.3974.3.6  0.591
2015 Hossie TJ, Skelhorn J, Breinholt JW, Kawahara AY, Sherratt TN. Body size affects the evolution of eyespots in caterpillars. Proceedings of the National Academy of Sciences of the United States of America. 112: 6664-9. PMID 25964333 DOI: 10.1073/Pnas.1415121112  0.339
2015 Barber JR, Leavell BC, Keener AL, Breinholt JW, Chadwell BA, McClure CJ, Hill GM, Kawahara AY. Moth tails divert bat attack: evolution of acoustic deflection. Proceedings of the National Academy of Sciences of the United States of America. 112: 2812-6. PMID 25730869 DOI: 10.1073/Pnas.1421926112  0.375
2015 Domínguez J, Aira M, Breinholt JW, Stojanovic M, James SW, Pérez-Losada M. Underground evolution: new roots for the old tree of lumbricid earthworms. Molecular Phylogenetics and Evolution. 83: 7-19. PMID 25463017 DOI: 10.1016/J.Ympev.2014.10.024  0.576
2015 Ponce FV, Breinholt JW, Hossie T, Barber JR, Janzen DH, Hallwachs W, Kawahara AY. A molecular phylogeny of Eumorpha (Lepidoptera: Sphingidae) and the evolution of anti-predator larval eyespots Systematic Entomology. 40: 401-408. DOI: 10.1111/Syen.12111  0.579
2014 Speiser DI, Pankey MS, Zaharoff AK, Battelle BA, Bracken-Grissom HD, Breinholt JW, Bybee SM, Cronin TW, Garm A, Lindgren AR, Patel NH, Porter ML, Protas ME, Rivera AS, Serb JM, et al. Using phylogenetically-informed annotation (PIA) to search for light-interacting genes in transcriptomes from non-model organisms. Bmc Bioinformatics. 15: 350. PMID 25407802 DOI: 10.1186/S12859-014-0350-X  0.716
2014 Kawahara AY, Breinholt JW. Phylogenomics provides strong evidence for relationships of butterflies and moths. Proceedings. Biological Sciences / the Royal Society. 281: 20140970. PMID 24966318 DOI: 10.1098/Rspb.2014.0970  0.611
2014 Bracken-Grissom HD, Ahyong ST, Wilkinson RD, Feldmann RM, Schweitzer CE, Breinholt JW, Bendall M, Palero F, Chan TY, Felder DL, Robles R, Chu KH, Tsang LM, Kim D, Martin JW, et al. The emergence of lobsters: phylogenetic relationships, morphological evolution and divergence time comparisons of an ancient group (decapoda: achelata, astacidea, glypheidea, polychelida). Systematic Biology. 63: 457-79. PMID 24562813 DOI: 10.1093/Sysbio/Syu008  0.762
2014 Bracken-Grissom H, Collins AG, Collins T, Crandall K, Distel D, Dunn C, Giribet G, Haddock S, Knowlton N, Martindale M, Medina M, Messing C, O'Brien SJ, Paulay G, ... ... Breinholt J, et al. The Global Invertebrate Genomics Alliance (GIGA): developing community resources to study diverse invertebrate genomes. The Journal of Heredity. 105: 1-18. PMID 24336862 DOI: 10.1093/jhered/est084  0.737
2014 Quan AS, Pease KM, Breinholt JW, Wayne RK. Origins of the invasive red swamp crayfish (Procambarus clarkii) in the Santa Monica Mountains Aquatic Invasions. 9: 211-219. DOI: 10.3391/Ai.2014.9.2.10  0.397
2014 Robison HW, Mcallister CT, Breinholt JW, Crandall KA. Status, distribution, and genetics of Blair's fencing crayfish, Faxonella blairi (Decapoda: Cambaridae) Southwestern Naturalist. 59: 244-250. DOI: 10.1894/F12-Jhk-09.1  0.499
2013 Breinholt JW, Kawahara AY. Phylotranscriptomics: saturated third codon positions radically influence the estimation of trees based on next-gen data. Genome Biology and Evolution. 5: 2082-92. PMID 24148944 DOI: 10.1093/Gbe/Evt157  0.475
2013 Kawahara AY, Breinholt JW, Ponce FV, Haxaire J, Xiao L, Lamarre GP, Rubinoff D, Kitching IJ. Evolution of Manduca sexta hornworms and relatives: biogeographical analysis reveals an ancestral diversification in Central America. Molecular Phylogenetics and Evolution. 68: 381-6. PMID 23643972 DOI: 10.1016/J.Ympev.2013.04.017  0.487
2013 Vandergast AG, Inman RD, Barr KR, Nussear KE, Esque TC, Hathaway SA, Wood DA, Medica PA, Breinholt JW, Stephen CL, Gottscho AD, Marks SB, Bryan Jennings W, Fisher RN. Evolutionary hotspots in the mojave desert Diversity. 5: 293-319. DOI: 10.3390/D5020293  0.485
2013 Ainscough BJ, Breinholt JW, Robison HW, Crandall KA. Molecular phylogenetics of the burrowing crayfish genus Fallicambarus (Decapoda: Cambaridae) Zoologica Scripta. 42: 306-316. DOI: 10.1111/Zsc.12006  0.684
2013 Stephen CL, Reynoso VH, Collett WS, Hasbun CR, Breinholt JW. Geographical structure and cryptic lineages within common green iguanas, Iguana iguana Journal of Biogeography. 40: 50-62. DOI: 10.1111/J.1365-2699.2012.02780.X  0.555
2012 Pedraza-Lara C, Doadrio I, Breinholt JW, Crandall KA. Phylogeny and evolutionary patterns in the Dwarf crayfish subfamily (Decapoda: Cambarellinae). Plos One. 7: e48233. PMID 23155379 DOI: 10.1371/Journal.Pone.0048233  0.667
2012 Breinholt JW, Porter ML, Crandall KA. Testing phylogenetic hypotheses of the subgenera of the freshwater crayfish genus Cambarus (Decapoda: Cambaridae). Plos One. 7: e46105. PMID 23049950 DOI: 10.1371/Journal.Pone.0046105  0.752
2012 Pérez-Losada M, Bloch R, Breinholt JW, Pfenninger M, Domínguez J. Taxonomic assessment of Lumbricidae (Oligochaeta) earthworm genera using DNA barcodes European Journal of Soil Biology. 48: 41-47. DOI: 10.1016/J.Ejsobi.2011.10.003  0.479
2011 Pérez-Losada M, Breinholt JW, Porto PG, Aira M, Domínguez J. An earthworm riddle: systematics and phylogeography of the Spanish lumbricid Postandrilus. Plos One. 6: e28153. PMID 22140529 DOI: 10.1371/Journal.Pone.0028153  0.404
2009 Breinholt JW, Van Buren R, Kopp OR, Stephen CL. Population genetic structure of an endangered Utah endemic, Astragalus ampullarioides (Fabaceae). American Journal of Botany. 96: 661-7. PMID 21628222 DOI: 10.3732/Ajb.0800035  0.327
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