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Genomic analysis of the four ecologically distinct cactus host populations of Drosophila mojavensis.

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  • Additional Information
    • Source:
      Publisher: BioMed Central Country of Publication: England NLM ID: 100965258 Publication Model: Electronic Cited Medium: Internet ISSN: 1471-2164 (Electronic) Linking ISSN: 14712164 NLM ISO Abbreviation: BMC Genomics Subsets: MEDLINE
    • Publication Information:
      Original Publication: London : BioMed Central, [2000-
    • Subject Terms:
    • Abstract:
      Background: Relationships between an organism and its environment can be fundamental in the understanding how populations change over time and species arise. Local ecological conditions can shape variation at multiple levels, among these are the evolutionary history and trajectories of coding genes. This study examines the rate of molecular evolution at protein-coding genes throughout the genome in response to host adaptation in the cactophilic Drosophila mojavensis. These insects are intimately associated with cactus necroses, developing as larvae and feeding as adults in these necrotic tissues. Drosophila mojavensis is composed of four isolated populations across the deserts of western North America and each population has adapted to utilize different cacti that are chemically, nutritionally, and structurally distinct.
      Results: High coverage Illumina sequencing was performed on three previously unsequenced populations of D. mojavensis. Genomes were assembled using the previously sequenced genome of D. mojavensis from Santa Catalina Island (USA) as a template. Protein coding genes were aligned across all four populations and rates of protein evolution were determined for all loci using a several approaches.
      Conclusions: Loci that exhibited elevated rates of molecular evolution tend to be shorter, have fewer exons, low expression, be transcriptionally responsive to cactus host use and have fixed expression differences across the four cactus host populations. Fast evolving genes were involved with metabolism, detoxification, chemosensory reception, reproduction and behavior. Results of this study give insight into the process and the genomic consequences of local ecological adaptation.
    • References:
      Nat Rev Genet. 2011 Oct 18;12(11):767-80. (PMID: 22005986)
      Mol Biol Evol. 1994 Sep;11(5):725-36. (PMID: 7968486)
      Genome Dyn. 2007;3:101-118. (PMID: 18753787)
      Genome Biol Evol. 2014 Dec 31;7(1):349-66. (PMID: 25552534)
      Appl Environ Microbiol. 1994 Feb;60(2):619-25. (PMID: 8135520)
      Proc Natl Acad Sci U S A. 2007 Mar 20;104(12):4996-5001. (PMID: 17360391)
      Genetics. 1998 Mar;148(3):929-36. (PMID: 9539414)
      Genetics. 2012 Oct;192(2):533-98. (PMID: 22673804)
      Bioinformatics. 2009 Apr 15;25(8):1091-3. (PMID: 19237447)
      Genetics. 2003 Aug;164(4):1471-80. (PMID: 12930753)
      Microb Ecol. 1985 Jun;11(2):165-73. (PMID: 24221304)
      Nat Rev Genet. 2003 Aug;4(8):651-7. (PMID: 12897776)
      PLoS One. 2012;7(9):e42304. (PMID: 23028432)
      Nat Rev Genet. 2002 Feb;3(2):137-44. (PMID: 11836507)
      Genome Res. 2012 Mar;22(3):549-56. (PMID: 22156294)
      Nucleic Acids Res. 2017 Jan 4;45(D1):D663-D671. (PMID: 27799470)
      Heredity (Edinb). 2002 Feb;88(2):85-93. (PMID: 11932766)
      Mol Ecol. 2013 Oct;22(20):5084-97. (PMID: 24102956)
      J Evol Biol. 2009 Jul;22(7):1387-95. (PMID: 19508411)
      Mol Biol Evol. 2004 Feb;21(2):276-85. (PMID: 14660699)
      Genetics. 2003 Jan;163(1):181-94. (PMID: 12586706)
      Mol Ecol. 2012 Jul;21(13):3293-307. (PMID: 22571504)
      J Evol Biol. 2015 Feb;28(2):403-14. (PMID: 25522894)
      BMC Bioinformatics. 2012 Aug 21;13:209. (PMID: 22909249)
      Mol Ecol. 2011 Nov;20(22):4671-82. (PMID: 21999361)
      Trends Genet. 2000 Jun;16(6):276-7. (PMID: 10827456)
      Mol Biol Evol. 2015 Dec;32(12):3236-51. (PMID: 26354524)
      PLoS Genet. 2007 Aug;3(8):e148. (PMID: 17784792)
      Fly (Austin). 2007 Jan-Feb;1(1):33-7. (PMID: 18690059)
      Mol Ecol. 2006 Dec;15(14):4635-43. (PMID: 17107489)
      Curr Opin Genet Dev. 2001 Dec;11(6):660-6. (PMID: 11682310)
      Genetics. 1996 Dec;144(4):1565-75. (PMID: 8978045)
      Ecol Evol. 2018 Jun 11;8(14):6921-6931. (PMID: 30073056)
      Evolution. 1989 Jul;43(4):908-913. (PMID: 28564202)
      Proc Natl Acad Sci U S A. 1994 Aug 16;91(17):7990-4. (PMID: 11607491)
      Mol Biol Evol. 2019 Mar 1;36(3):500-515. (PMID: 30590559)
      Proc Natl Acad Sci U S A. 1960 Jun;46(6):842-59. (PMID: 16590681)
      Annu Rev Entomol. 2007;52:231-53. (PMID: 16925478)
      Genetics. 2007 Nov;177(3):1395-416. (PMID: 18039874)
      Mol Biol Evol. 2007 Aug;24(8):1586-91. (PMID: 17483113)
      PLoS Genet. 2014 Jan;10(1):e1004108. (PMID: 24453993)
      Mol Biol Evol. 2004 Jul;21(7):1308-17. (PMID: 15034135)
      J Evol Biol. 2011 Oct;24(10):2217-29. (PMID: 21726331)
      Nature. 2005 Oct 20;437(7062):1153-7. (PMID: 16237444)
      Genome Res. 2002 Oct;12(10):1611-8. (PMID: 12368254)
      Chem Biol Interact. 2005 Dec 15;157-158:277-83. (PMID: 16243304)
      Mol Ecol. 2012 May;21(10):2428-39. (PMID: 22512269)
      Appl Environ Microbiol. 1993 Jan;59(1):1-6. (PMID: 8439142)
      Nat Commun. 2016 Jun 13;7:ncomms11855. (PMID: 27292132)
      Proc Natl Acad Sci U S A. 2005 Oct 4;102(40):14338-43. (PMID: 16176987)
      Annu Rev Neurosci. 2007;30:505-33. (PMID: 17506643)
      PLoS Genet. 2012;8(12):e1003080. (PMID: 23284287)
      Proc Natl Acad Sci U S A. 2011 May 10;108(19):7878-83. (PMID: 21518862)
      Mol Biol Evol. 2011 Oct;28(10):2731-9. (PMID: 21546353)
      Mol Ecol. 2007 Mar;16(5):1007-22. (PMID: 17305857)
      Proc Biol Sci. 2003 Jul 22;270(1523):1507-12. (PMID: 12965017)
      Genome Res. 2003 Nov;13(11):2498-504. (PMID: 14597658)
      Genomics Proteomics Bioinformatics. 2006 Nov;4(4):259-63. (PMID: 17531802)
      Annu Rev Genet. 2016 Nov 23;50:29-44. (PMID: 27574843)
      Annu Rev Entomol. 2011;56:21-40. (PMID: 20868282)
      Nature. 2007 Nov 8;450(7167):203-18. (PMID: 17994087)
      Mol Biol Evol. 1986 Sep;3(5):418-26. (PMID: 3444411)
      Trends Genet. 2008 Mar;24(3):114-23. (PMID: 18249460)
      Bioinformatics. 2010 Jan 1;26(1):139-40. (PMID: 19910308)
      Nat Rev Genet. 2004 Feb;5(2):114-22. (PMID: 14735122)
      Proc Natl Acad Sci U S A. 2001 Jul 17;98(15):8692-6. (PMID: 11447265)
      Insect Biochem Mol Biol. 2002 Dec;32(12):1597-604. (PMID: 12429111)
      Genetics. 2006 May;173(1):473-81. (PMID: 16489231)
      BMC Evol Biol. 2018 Sep 20;18(1):144. (PMID: 30236055)
      Adv Exp Med Biol. 2014;781:233-47. (PMID: 24277303)
      Evolution. 1991 Sep;45(6):1525-1529. (PMID: 28563820)
      Genetics. 2000 May;155(1):431-49. (PMID: 10790415)
      Mol Biol Evol. 2009 Sep;26(9):2125-34. (PMID: 19546158)
      Genet Res. 1966 Dec;8(3):269-94. (PMID: 5980116)
      Proc Natl Acad Sci U S A. 1997 Jul 22;94(15):7756-60. (PMID: 9223260)
      G3 (Bethesda). 2015 Feb 11;5(4):593-603. (PMID: 25673134)
      Microb Ecol. 1982 Jun;8(1):71-81. (PMID: 24225700)
      BMC Genomics. 2019 Jan 16;20(1):52. (PMID: 30651071)
      PLoS One. 2013 Jul 25;8(7):e70027. (PMID: 23936137)
      PLoS Genet. 2008 Aug 01;4(8):e1000144. (PMID: 18670650)
      Genome Res. 2004 Jul;14(7):1394-403. (PMID: 15231754)
      Genetics. 2001 Jun;158(2):927-31. (PMID: 11430355)
      Biochem J. 2001 Oct 15;359(Pt 2):295-304. (PMID: 11583575)
      Insect Biochem Mol Biol. 2009 May-Jun;39(5-6):366-71. (PMID: 19328853)
      Nature. 2011 Mar 24;471(7339):473-9. (PMID: 21179090)
      Bioinformatics. 2009 Nov 1;25(21):2839-40. (PMID: 19737799)
      Nucleic Acids Res. 1988 Nov 11;16(21):9893-908. (PMID: 3057449)
      Genome Res. 2006 Apr;16(4):498-504. (PMID: 16520459)
      Mol Biol Evol. 2005 Dec;22(12):2519-30. (PMID: 16120803)
      Genetics. 2008 Jul;179(3):1601-55. (PMID: 18622037)
      Bioinformatics. 2009 Aug 15;25(16):2078-9. (PMID: 19505943)
      Oecologia. 1987 Feb;71(3):375-381. (PMID: 28312984)
      Mol Ecol. 2016 Mar;25(5):1157-74. (PMID: 26547394)
      Mol Biol Evol. 2011 Jun;28(6):1893-900. (PMID: 21239389)
      Trends Biochem Sci. 2000 Mar;25(3):106-10. (PMID: 10694877)
      Evolution. 1998 Dec;52(6):1744-1759. (PMID: 28565322)
      G3 (Bethesda). 2013 Dec 09;3(12):2257-71. (PMID: 24142924)
      Trends Ecol Evol. 2010 Dec;25(12):705-12. (PMID: 20952088)
      Genome Biol Evol. 2015 Oct 01;7(10):2843-58. (PMID: 26430061)
      Genetics. 2018 Nov;210(3):757-772. (PMID: 30401762)
      G3 (Bethesda). 2015 Mar 04;5(5):719-40. (PMID: 25740935)
      Mol Biol Evol. 2004 Nov;21(11):2130-9. (PMID: 15282334)
      Genetics. 2008 Feb;178(2):1073-83. (PMID: 18245335)
      J Hered. 1990 Jan-Feb;81(1):30-42. (PMID: 2332612)
      Evolution. 2010 Sep;64(9):2489-509. (PMID: 20500215)
      Nucleic Acids Res. 2004 Mar 19;32(5):1792-7. (PMID: 15034147)
      Proc Natl Acad Sci U S A. 1981 Jul;78(7):4435-9. (PMID: 16593060)
      PLoS Biol. 2005 Jun;3(6):e170. (PMID: 15869325)
      Proc Natl Acad Sci U S A. 2005 Mar 1;102(9):3179-80. (PMID: 15728394)
      Science. 2003 Dec 12;302(5652):1960-3. (PMID: 14671302)
      Heredity (Edinb). 2008 Feb;100(2):178-83. (PMID: 17519970)
      Ecol Evol. 2017 Apr 18;7(11):3815-3825. (PMID: 28616178)
    • Grant Information:
      1219387 Division of Environmental Biology; 1557697 Division of Integrative Organismal Systems
    • Contributed Indexing:
      Keywords: Adaptation; Drosophila; Drosophila mojavensis; Ecological genomics; Genome assembly; Genome evolution; Genome sequencing
    • Accession Number:
      0 (Drosophila Proteins)
    • Publication Date:
      Date Created: 20191014 Date Completed: 20200225 Latest Revision: 20200225
    • Publication Date:
      20211214
    • Accession Number:
      PMC6790045
    • Accession Number:
      10.1186/s12864-019-6097-z
    • Accession Number:
      31606030