Long, Anthony Douglas

InstitutionUniversity of California, Irvine
DepartmentEcology & Evolutionary Biology
Address5210 McGaugh Hall
Zot 2525
Irvine CA 92697
Phone(949) 824-2562
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    Collapse Research 
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    A heterogeneous stock paradigm of dissecting complex traits in Peromyscus leucopus, a major natural host of Lyme disease and other emerging infections
    NIH/NIAID R21AI126037Jun 3, 2016 - May 31, 2018
    Role: Principal Investigator
    Elucidating Mechanisms of Adaptive Change Using Outbred Recombining Yeast
    NIH/NIGMS R01GM115562Sep 15, 2015 - May 31, 2019
    Role: Principal Investigator
    Drosophila as a model for chemotherapy pharmacogenomics
    NIH/NIGMS R01GM085251Mar 1, 2009 - Feb 28, 2015
    Role: Principal Investigator
    A resource for the genetic analysis of complex traits
    NIH R01OD010974Jul 15, 2008 - May 31, 2020
    Role: Co-Principal Investigator
    NIH/NIGMS R01GM058564Jan 1, 1999 - Dec 31, 2004
    Role: Principal Investigator

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    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help.
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    1. Baldwin-Brown JG, Weeks SC, Long AD. A New Standard for Crustacean Genomes: The Highly Contiguous, Annotated Genome Assembly of the Clam Shrimp Eulimnadia texana Reveals HOX Gene Order and Identifies the Sex Chromosome. Genome Biol Evol. 2018 Jan 01; 10(1):143-156. PMID: 29294012.
      View in: PubMed
    2. King EG, Long AD. The Beavis Effect in Next-Generation Mapping Panels in Drosophila melanogaster. G3 (Bethesda). 2017 Jun 07; 7(6):1643-1652. PMID: 28592647.
      View in: PubMed
    3. Sanjak JS, Long AD, Thornton KR. A Model of Compound Heterozygous, Loss-of-Function Alleles Is Broadly Consistent with Observations from Complex-Disease GWAS Datasets. PLoS Genet. 2017 Jan; 13(1):e1006573. PMID: 28103232.
      View in: PubMed
    4. Phillips MA, Long AD, Greenspan ZS, Greer LF, Burke MK, Villeponteau B, Matsagas KC, Rizza CL, Mueller LD, Rose MR. Genome-wide analysis of long-term evolutionary domestication in Drosophila melanogaster. Sci Rep. 2016 Dec 22; 6:39281. PMID: 28004838.
      View in: PubMed
    5. Chakraborty M, Baldwin-Brown JG, Long AD, Emerson JJ. Contiguous and accurate de novo assembly of metazoan genomes with modest long read coverage. Nucleic Acids Res. 2016 Nov 02; 44(19):e147. PMID: 27458204.
      View in: PubMed
    6. Sanjak JS, Long AD, Thornton KR. Efficient Software for Multi-marker, Region-Based Analysis of GWAS Data. G3 (Bethesda). 2016 04 07; 6(4):1023-30. PMID: 26865700.
      View in: PubMed
    7. Najarro MA, Hackett JL, Smith BR, Highfill CA, King EG, Long AD, Macdonald SJ. Identifying Loci Contributing to Natural Variation in Xenobiotic Resistance in Drosophila. PLoS Genet. 2015 Nov; 11(11):e1005663. PMID: 26619284; PMCID: PMC4664282.
    8. Long A, Liti G, Luptak A, Tenaillon O. Elucidating the molecular architecture of adaptation via evolve and resequence experiments. Nat Rev Genet. 2015 Oct; 16(10):567-82. PMID: 26347030; PMCID: PMC4733663.
    9. Cridland JM, Thornton KR, Long AD. Gene expression variation in Drosophila melanogaster due to rare transposable element insertion alleles of large effect. Genetics. 2015 Jan; 199(1):85-93. PMID: 25335504.
      View in: PubMed
    10. Marriage TN, King EG, Long AD, Macdonald SJ. Fine-mapping nicotine resistance loci in Drosophila using a multiparent advanced generation inter-cross population. Genetics. 2014 Sep; 198(1):45-57. PMID: 25236448; PMCID: PMC4174953.
    11. King EG, Kislukhin G, Walters KN, Long AD. Using Drosophila melanogaster to identify chemotherapy toxicity genes. Genetics. 2014 Sep; 198(1):31-43. PMID: 25236447; PMCID: PMC4174942.
    12. Burke MK, Liti G, Long AD. Standing genetic variation drives repeatable experimental evolution in outcrossing populations of Saccharomyces cerevisiae. Mol Biol Evol. 2014 Dec; 31(12):3228-39. PMID: 25172959; PMCID: PMC4245818.
    13. Long AD, Macdonald SJ, King EG. Dissecting complex traits using the Drosophila Synthetic Population Resource. Trends Genet. 2014 Nov; 30(11):488-95. PMID: 25175100; PMCID: PMC4253597.
    14. King EG, Sanderson BJ, McNeil CL, Long AD, Macdonald SJ. Genetic dissection of the Drosophila melanogaster female head transcriptome reveals widespread allelic heterogeneity. PLoS Genet. 2014 May; 10(5):e1004322. PMID: 24810915.
      View in: PubMed
    15. Baldwin-Brown JG, Long AD, Thornton KR. The power to detect quantitative trait loci using resequenced, experimentally evolved populations of diploid, sexual organisms. Mol Biol Evol. 2014 Apr; 31(4):1040-55. PMID: 24441104.
      View in: PubMed
    16. Burke MK, King EG, Shahrestani P, Rose MR, Long AD. Genome-wide association study of extreme longevity in Drosophila melanogaster. Genome Biol Evol. 2014 Jan; 6(1):1-11. PMID: 24259311; PMCID: PMC3914684.
    17. Kislukhin G, King EG, Walters KN, Macdonald SJ, Long AD. The genetic architecture of methotrexate toxicity is similar in Drosophila melanogaster and humans. G3 (Bethesda). 2013 Aug 07; 3(8):1301-10. PMID: 23733889; PMCID: PMC3737169.
    18. Cridland JM, Macdonald SJ, Long AD, Thornton KR. Abundance and distribution of transposable elements in two Drosophila QTL mapping resources. Mol Biol Evol. 2013 Oct; 30(10):2311-27. PMID: 23883524; PMCID: PMC3773372.
    19. Thornton KR, Foran AJ, Long AD. Properties and modeling of GWAS when complex disease risk is due to non-complementing, deleterious mutations in genes of large effect. PLoS Genet. 2013; 9(2):e1003258. PMID: 23437004; PMCID: PMC3578756.
    20. Burke MK, Long AD. What paths do advantageous alleles take during short-term evolutionary change? Mol Ecol. 2012 Oct; 21(20):4913-6. PMID: 23227489.
      View in: PubMed
    21. Martin A, Papa R, Nadeau NJ, Hill RI, Counterman BA, Halder G, Jiggins CD, Kronforst MR, Long AD, McMillan WO, Reed RD. Diversification of complex butterfly wing patterns by repeated regulatory evolution of a Wnt ligand. Proc Natl Acad Sci U S A. 2012 Jul 31; 109(31):12632-7. PMID: 22802635; PMCID: PMC3411988.
    22. King EG, Macdonald SJ, Long AD. Properties and power of the Drosophila Synthetic Population Resource for the routine dissection of complex traits. Genetics. 2012 Jul; 191(3):935-49. PMID: 22505626; PMCID: PMC3389985.
    23. King EG, Merkes CM, McNeil CL, Hoofer SR, Sen S, Broman KW, Long AD, Macdonald SJ. Genetic dissection of a model complex trait using the Drosophila Synthetic Population Resource. Genome Res. 2012 Aug; 22(8):1558-66. PMID: 22496517; PMCID: PMC3409269.
    24. Kislukhin G, Murphy ML, Jafari M, Long AD. Chemotherapy-induced toxicity is highly heritable in Drosophila melanogaster. Pharmacogenet Genomics. 2012 Apr; 22(4):285-9. PMID: 22336958; PMCID: PMC3303944.
    25. Tenaillon O, Rodríguez-Verdugo A, Gaut RL, McDonald P, Bennett AF, Long AD, Gaut BS. The molecular diversity of adaptive convergence. Science. 2012 Jan 27; 335(6067):457-61. PMID: 22282810.
      View in: PubMed
    26. Conceição IC, Long AD, Gruber JD, Beldade P. Genomic sequence around butterfly wing development genes: annotation and comparative analysis. PLoS One. 2011; 6(8):e23778. PMID: 21909358; PMCID: PMC3166123.
    27. Burke MK, Dunham JP, Shahrestani P, Thornton KR, Rose MR, Long AD. Genome-wide analysis of a long-term evolution experiment with Drosophila. Nature. 2010 Sep 30; 467(7315):587-90. PMID: 20844486.
      View in: PubMed
    28. Beldade P, Van't Hof AE, Jerónimo MA, Long AD. Microsatellite markers associated with genes expressed in developing wings of Bicyclus anynana butterflies. Mol Ecol Resour. 2009 Nov; 9(6):1487-92. PMID: 21564941.
      View in: PubMed
    29. Beldade P, Saenko SV, Pul N, Long AD. A gene-based linkage map for Bicyclus anynana butterflies allows for a comprehensive analysis of synteny with the lepidopteran reference genome. PLoS Genet. 2009 Feb; 5(2):e1000366. PMID: 19197358; PMCID: PMC2629579.
    30. Teotónio H, Chelo IM, Bradic M, Rose MR, Long AD. Experimental evolution reveals natural selection on standing genetic variation. Nat Genet. 2009 Feb; 41(2):251-7. PMID: 19136954.
      View in: PubMed
    31. Gruber JD, Long AD. Cis-regulatory variation is typically polyallelic in Drosophila. Genetics. 2009 Feb; 181(2):661-70. PMID: 19064705; PMCID: PMC2644954.
    32. Macdonald SJ, Long AD. Joint estimates of quantitative trait locus effect and frequency using synthetic recombinant populations of Drosophila melanogaster. Genetics. 2007 Jun; 176(2):1261-81. PMID: 17435224; PMCID: PMC1894589.
    33. Gruber JD, Genissel A, Macdonald SJ, Long AD. How repeatable are associations between polymorphisms in achaete-scute and bristle number variation in Drosophila? Genetics. 2007 Apr; 175(4):1987-97. PMID: 17277365; PMCID: PMC1855119.
    34. Long AD, Beldade P, Macdonald SJ. Estimation of population heterozygosity and library construction-induced mutation rate from expressed sequence tag collections. Genetics. 2007 May; 176(1):711-4. PMID: 17179075; PMCID: PMC1893025.
    35. Jafari M, Long AD, Mueller LD, Rose MR. The pharmacology of ageing in Drosophila. Curr Drug Targets. 2006 Nov; 7(11):1479-83. PMID: 17100588.
      View in: PubMed
    36. Beldade P, Rudd S, Gruber JD, Long AD. A wing expressed sequence tag resource for Bicyclus anynana butterflies, an evo-devo model. BMC Genomics. 2006 May 31; 7:130. PMID: 16737530; PMCID: PMC1534037.
    37. Macdonald SJ, Long AD. Fine scale structural variants distinguish the genomes of Drosophila melanogaster and D. pseudoobscura. Genome Biol. 2006; 7(7):R67. PMID: 16872532; PMCID: PMC1779558.
    38. Macdonald SJ, Pastinen T, Genissel A, Cornforth TW, Long AD. A low-cost open-source SNP genotyping platform for association mapping applications. Genome Biol. 2005; 6(12):R105. PMID: 16356268; PMCID: PMC1414086.
    39. Drapeau MD, Cyran SA, Viering MM, Geyer PK, Long AD. A cis-regulatory sequence within the yellow locus of Drosophila melanogaster required for normal male mating success. Genetics. 2006 Feb; 172(2):1009-30. PMID: 16272418; PMCID: PMC1456202.
    40. Macdonald SJ, Pastinen T, Long AD. The effect of polymorphisms in the enhancer of split gene complex on bristle number variation in a large wild-caught cohort of Drosophila melanogaster. Genetics. 2005 Dec; 171(4):1741-56. PMID: 16143618; PMCID: PMC1456100.
    41. Riehle MM, Bennett AF, Long AD. Differential Patterns of Gene Expression and Gene Complement in Laboratory-Evolved Lines of E. coli. Integr Comp Biol. 2005 Jun; 45(3):532-8. PMID: 21676798.
      View in: PubMed
    42. Riehle MM, Bennett AF, Long AD. Changes in gene expression following high-temperature adaptation in experimentally evolved populations of E. coli. Physiol Biochem Zool. 2005 May-Jun; 78(3):299-315. PMID: 15887077.
      View in: PubMed
    43. Macdonald SJ, Long AD. Prospects for identifying functional variation across the genome. Proc Natl Acad Sci U S A. 2005 May 03; 102 Suppl 1:6614-21. PMID: 15851675; PMCID: PMC1131871.
    44. Beldade P, Brakefield PM, Long AD. Generating phenotypic variation: prospects from "evo-devo" research on Bicyclus anynana wing patterns. Evol Dev. 2005 Mar-Apr; 7(2):101-7. PMID: 15733307.
      View in: PubMed
    45. Macdonald SJ, Long AD. Identifying signatures of selection at the enhancer of split neurogenic gene complex in Drosophila. Mol Biol Evol. 2005 Mar; 22(3):607-19. PMID: 15537803.
      View in: PubMed
    46. Macdonald SJ, Long AD. A potential regulatory polymorphism upstream of hairy is not associated with bristle number variation in wild-caught Drosophila. Genetics. 2004 Aug; 167(4):2127-31. PMID: 15342546; PMCID: PMC1471012.
    47. Genissel A, Pastinen T, Dowell A, Mackay TF, Long AD. No evidence for an association between common nonsynonymous polymorphisms in delta and bristle number variation in natural and laboratory populations of Drosophila melanogaster. Genetics. 2004 Jan; 166(1):291-306. PMID: 15020426; PMCID: PMC1470686.
    48. Cornforth TW, Long AD. Inferences regarding the numbers and locations of QTLs under multiple-QTL models using interval mapping and composite interval mapping. Genet Res. 2003 Oct; 82(2):139-49. PMID: 14768898.
      View in: PubMed
    49. Gaut BS, Long AD. The lowdown on linkage disequilibrium. Plant Cell. 2003 Jul; 15(7):1502-6. PMID: 12837942; PMCID: PMC526043.
    50. Riehle MM, Bennett AF, Lenski RE, Long AD. Evolutionary changes in heat-inducible gene expression in lines of Escherichia coli adapted to high temperature. Physiol Genomics. 2003 Jun 24; 14(1):47-58. PMID: 12672900.
      View in: PubMed
    51. Drapeau MD, Radovic A, Wittkopp PJ, Long AD. A gene necessary for normal male courtship, yellow, acts downstream of fruitless in the Drosophila melanogaster larval brain. J Neurobiol. 2003 Apr; 55(1):53-72. PMID: 12605459.
      View in: PubMed
    52. Rose MR, Mueller LD, Long AD. Pharmacology, genomics, and the evolutionary biology of ageing. Free Radic Res. 2002 Dec; 36(12):1293-7. PMID: 12607820.
      View in: PubMed
    53. Drapeau MD, Long AD. Bioinformatics and cytogenetics of unusual Drosophila melanogaster X-chromosome morphology. DNA Seq. 2002 Oct; 13(5):241-3. PMID: 12592702.
      View in: PubMed
    54. Robin C, Lyman RF, Long AD, Langley CH, Mackay TF. hairy: A quantitative trait locus for drosophila sensory bristle number. Genetics. 2002 Sep; 162(1):155-64. PMID: 12242230; PMCID: PMC1462234.
    55. Radovic A, Wittkopp PJ, Long AD, Drapeau MD. Immunohistochemical colocalization of Yellow and male-specific Fruitless in Drosophila melanogaster neuroblasts. Biochem Biophys Res Commun. 2002 May 17; 293(4):1262-4. PMID: 12054512.
      View in: PubMed
    56. Rose MR, Long AD. Ageing: the many-headed monster. Curr Biol. 2002 Apr 30; 12(9):R311-2. PMID: 12007429.
      View in: PubMed
    57. Beldade P, Brakefield PM, Long AD. Contribution of Distal-less to quantitative variation in butterfly eyespots. Nature. 2002 Jan 17; 415(6869):315-8. PMID: 11797007.
      View in: PubMed
    58. Long AD, Langley CH. The power of association studies to detect the contribution of candidate genetic loci to variation in complex traits. Genome Res. 1999 Aug; 9(8):720-31. PMID: 10447507; PMCID: PMC310800.
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