دورية أكاديمية
Disease swamps molecular signatures of genetic-environmental associations to abiotic factors in Tasmanian devil (Sarcophilus harrisii) populations.
العنوان: | Disease swamps molecular signatures of genetic-environmental associations to abiotic factors in Tasmanian devil (Sarcophilus harrisii) populations. |
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المؤلفون: | Fraik AK; School of Biological Sciences, Washington State University, Pullman, Washington, 99164., Margres MJ; School of Biological Sciences, Washington State University, Pullman, Washington, 99164., Epstein B; School of Biological Sciences, Washington State University, Pullman, Washington, 99164.; Plant Biology, University of Minnesota, Minneapolis, Minnesota, 55455., Barbosa S; Department of Biological Sciences, Institute for Bioinformatics and Evolutionary Studies, University of Idaho, 875 Perimeter Drive, Moscow, Idaho, 83844., Jones M; School of Biological Sciences, University of Tasmania, Hobart, TAS, 7004, Australia., Hendricks S; Department of Biological Sciences, Institute for Bioinformatics and Evolutionary Studies, University of Idaho, 875 Perimeter Drive, Moscow, Idaho, 83844., Schönfeld B; School of Biological Sciences, University of Tasmania, Hobart, TAS, 7004, Australia., Stahlke AR; Department of Biological Sciences, Institute for Bioinformatics and Evolutionary Studies, University of Idaho, 875 Perimeter Drive, Moscow, Idaho, 83844., Veillet A; Department of Biological Sciences, Institute for Bioinformatics and Evolutionary Studies, University of Idaho, 875 Perimeter Drive, Moscow, Idaho, 83844., Hamede R; School of Biological Sciences, University of Tasmania, Hobart, TAS, 7004, Australia., McCallum H; School of Environment, Griffith University Nathan, Nathan, QLD, 4111, Australia., Lopez-Contreras E; School of Biological Sciences, Washington State University, Pullman, Washington, 99164., Kallinen SJ; School of Biological Sciences, Washington State University, Pullman, Washington, 99164., Hohenlohe PA; Department of Biological Sciences, Institute for Bioinformatics and Evolutionary Studies, University of Idaho, 875 Perimeter Drive, Moscow, Idaho, 83844., Kelley JL; School of Biological Sciences, Washington State University, Pullman, Washington, 99164., Storfer A; School of Biological Sciences, Washington State University, Pullman, Washington, 99164. |
المصدر: | Evolution; international journal of organic evolution [Evolution] 2020 Jul; Vol. 74 (7), pp. 1392-1408. Date of Electronic Publication: 2020 Jun 03. |
نوع المنشور: | Journal Article; Research Support, N.I.H., Extramural; Research Support, U.S. Gov't, Non-P.H.S. |
اللغة: | English |
بيانات الدورية: | Publisher: Oxford University Press Country of Publication: United States NLM ID: 0373224 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1558-5646 (Electronic) Linking ISSN: 00143820 NLM ISO Abbreviation: Evolution Subsets: MEDLINE |
أسماء مطبوعة: | Publication: 2023- : Oxford : Oxford University Press Original Publication: Lancaster, Pa. : Society for the Study of Evolution |
مواضيع طبية MeSH: | Gene-Environment Interaction* , Selection, Genetic*, Host-Pathogen Interactions/*genetics , Marsupialia/*genetics, Adaptation, Biological ; Animals ; Genetic Variation |
مستخلص: | Landscape genomics studies focus on identifying candidate genes under selection via spatial variation in abiotic environmental variables, but rarely by biotic factors (i.e., disease). The Tasmanian devil (Sarcophilus harrisii) is found only on the environmentally heterogeneous island of Tasmania and is threatened with extinction by a transmissible cancer, devil facial tumor disease (DFTD). Devils persist in regions of long-term infection despite epidemiological model predictions of species' extinction, suggesting possible adaptation to DFTD. Here, we test the extent to which spatial variation and genetic diversity are associated with the abiotic environment (i.e., climatic variables, elevation, vegetation cover) and/or DFTD. We employ genetic-environment association analyses using 6886 SNPs from 3287 individuals sampled pre- and post-disease arrival across the devil's geographic range. Pre-disease, we find significant correlations of allele frequencies with environmental variables, including 365 unique loci linked to 71 genes, suggesting local adaptation to abiotic environment. The majority of candidate loci detected pre-DFTD are not detected post-DFTD arrival. Several post-DFTD candidate loci are associated with disease prevalence and were in linkage disequilibrium with genes involved in tumor suppression and immune response. Loss of apparent signal of abiotic local adaptation post-disease suggests swamping by strong selection resulting from the rapid onset of DFTD. (© 2020 The Authors. Evolution © 2020 The Society for the Study of Evolution.) |
References: | Ecol Lett. 2009 Nov;12(11):1147-57. (PMID: 19694783) Genome. 2016 May;59(5):349-61. (PMID: 27074898) J Anim Ecol. 2013 Jan;82(1):182-90. (PMID: 22943286) Mol Ecol Resour. 2017 Jan;17(1):33-43. (PMID: 27473028) Cell. 2015 May 21;161(5):1215-1228. (PMID: 26000489) Cell. 2012 Feb 17;148(4):780-91. (PMID: 22341448) Mol Ecol. 2016 Jan;25(1):324-41. (PMID: 26578090) Database (Oxford). 2017 Jan 1;2017:. (PMID: 28605766) Mol Ecol. 2018 Nov;27(21):4189-4199. (PMID: 30171778) Proc Natl Acad Sci U S A. 1979 Oct;76(10):5269-73. (PMID: 291943) Conserv Genet. 2019 Feb;20(1):81-87. (PMID: 31551664) Mol Ecol. 2017 Sep;26(18):4700-4711. (PMID: 28734070) Am Nat. 2015 Oct;186 Suppl 1:S24-36. (PMID: 26656214) Mol Biol Evol. 2019 Dec 1;36(12):2906-2921. (PMID: 31424552) Biol Lett. 2016 Oct;12(10):. (PMID: 28120799) Mol Ecol. 2014 May;23(9):2178-92. (PMID: 24655127) Mol Ecol. 2010 Sep;19(17):3760-72. (PMID: 20723056) Proc Natl Acad Sci U S A. 2007 May 15;104 Suppl 1:8655-60. (PMID: 17494744) Genome Res. 2002 Dec;12(12):1805-14. (PMID: 12466284) Cancer Immunol Immunother. 2000 Nov;49(9):476-84. (PMID: 11092614) Nucleic Acids Res. 2007 Jan;35(Database issue):D5-12. (PMID: 17170002) J Anim Ecol. 2007 Sep;76(5):926-36. (PMID: 17714271) Conserv Biol. 2006 Oct;20(5):1349-57. (PMID: 17002752) PLoS Pathog. 2018 Aug 2;14(8):e1007098. (PMID: 30071111) Genome Res. 2010 Sep;20(9):1297-303. (PMID: 20644199) Mol Ecol. 2016 Jan;25(1):380-402. (PMID: 26333947) Genetics. 2014 May;197(1):285-9. (PMID: 24561481) Int J Cancer. 2003 Jun 10;105(2):149-57. (PMID: 12673672) Genetics. 2016 Feb;202(2):389-400. (PMID: 26715661) Trends Ecol Evol. 2008 Nov;23(11):631-7. (PMID: 18715674) New Phytol. 2018 Jan;217(1):277-289. (PMID: 28892165) Ecol Evol. 2017 May 10;7(12):4367-4376. (PMID: 28649348) Nat Genet. 2000 May;25(1):25-9. (PMID: 10802651) Front Genet. 2018 Mar 13;9:68. (PMID: 29593776) Cancer Cell. 2018 Apr 9;33(4):620-633.e6. (PMID: 29634949) Am Nat. 1993 Dec.;142(6):911-927. (PMID: 29519140) Mol Ecol. 2013 Jun;22(11):3124-40. (PMID: 23701397) Mol Ecol Resour. 2017 Mar;17(2):142-152. (PMID: 27860289) Gene. 2008 Apr 15;412(1-2):84-94. (PMID: 18313863) Sci Rep. 2017 Mar 24;7(1):423. (PMID: 28341828) Oncotarget. 2014 Jan 15;5(1):211-23. (PMID: 24457556) Mol Biol Evol. 2013 Jul;30(7):1687-99. (PMID: 23543094) Evolution. 1976 Jun;30(2):314-334. (PMID: 28563044) Proc Natl Acad Sci U S A. 2011 Jul 26;108(30):12348-53. (PMID: 21709235) Genet Mol Res. 2017 Jun 20;16(2):. (PMID: 28653738) Trends Parasitol. 2017 Apr;33(4):264-275. (PMID: 27863902) Proc Biol Sci. 2010 Jul 7;277(1690):2001-6. (PMID: 20219742) Genetics. 2010 Aug;185(4):1411-23. (PMID: 20516501) PLoS One. 2011;6(8):e23381. (PMID: 21853123) Dev Biol. 2002 Mar 1;243(1):44-54. (PMID: 11846476) Am Nat. 2016 Oct;188(4):379-97. (PMID: 27622873) J Anim Ecol. 2009 Mar;78(2):427-36. (PMID: 19021786) J Biol Chem. 2017 Jan 20;292(3):1005-1028. (PMID: 27909055) J Appl Ecol. 2018 May;55(3):1368-1379. (PMID: 30089931) Mol Ecol. 2015 Feb;24(4):771-84. (PMID: 25581109) Bioinformatics. 2011 Aug 1;27(15):2156-8. (PMID: 21653522) Mol Ecol Resour. 2014 Jan;14(1):209-14. (PMID: 23992227) Nat Methods. 2012 Mar 04;9(4):357-9. (PMID: 22388286) Genes (Basel). 2019 Oct 12;10(10):. (PMID: 31614864) PLoS One. 2018 Apr 27;13(4):e0196469. (PMID: 29702669) Philos Trans R Soc Lond B Biol Sci. 2012 Oct 19;367(1604):2828-39. (PMID: 22966138) Proc Natl Acad Sci U S A. 2013 Mar 26;110(13):5103-8. (PMID: 23479617) Genetics. 2013 Sep;195(1):205-20. (PMID: 23821598) Mol Ecol. 2010 Sep;19(17):3515-31. (PMID: 20618897) Genomics. 2020 Jan;112(1):252-262. (PMID: 30822468) N Engl J Med. 2007 Aug 23;357(8):775-88. (PMID: 17671248) Mol Ecol. 2015 Sep;24(17):4348-70. (PMID: 26184487) BMC Genet. 2010 Oct 15;11:94. (PMID: 20950446) Conserv Biol. 2012 Feb;26(1):124-34. (PMID: 21978020) Comp Biochem Physiol Part D Genomics Proteomics. 2014 Jun;10:30-43. (PMID: 24713300) Proc Natl Acad Sci U S A. 2015 Mar 31;112(13):E1624-31. (PMID: 25775561) Mol Ecol. 2014 May;23(10):2500-13. (PMID: 24750317) Mol Biol Evol. 2011 Feb;28(2):1075-81. (PMID: 21030426) J Leukoc Biol. 2003 Jul;74(1):102-10. (PMID: 12832448) Proc Natl Acad Sci U S A. 2008 Jul 22;105(29):10023-7. (PMID: 18626026) Bioinformatics. 2008 Jun 1;24(11):1403-5. (PMID: 18397895) Mol Biol Evol. 2016 May;33(5):1188-204. (PMID: 26744416) Proc Biol Sci. 2015 Sep 7;282(1814):. (PMID: 26336167) Evol Appl. 2018 Jul 28;11(10):1763-1778. (PMID: 30459828) Nat Med. 2012 Aug;18(8):1248-53. (PMID: 22772464) Cancer Genet. 2012 Mar;205(3):101-12. (PMID: 22469509) Proc Natl Acad Sci U S A. 2016 Jan 12;113(2):374-9. (PMID: 26711993) Nat Commun. 2016 Aug 30;7:12684. (PMID: 27575253) Ecology. 2009 Dec;90(12):3379-92. (PMID: 20120807) Int J Cancer. 2009 Feb 15;124(4):793-8. (PMID: 19048595) Mol Ecol. 2004 Aug;13(8):2197-209. (PMID: 15245394) Mol Ecol. 2016 Jan;25(2):454-69. (PMID: 26671840) Bioessays. 2018 Mar;40(3):. (PMID: 29446482) J Biol Chem. 2003 Oct 24;278(43):42190-9. (PMID: 12923170) Genome Res. 2009 Sep;19(9):1655-64. (PMID: 19648217) Cancer Immunol Immunother. 2008 Feb;57(2):165-74. (PMID: 17628800) Evolution. 1984 Nov;38(6):1358-1370. (PMID: 28563791) Cancer Cell. 2018 Apr 9;33(4):607-619.e15. (PMID: 29634948) Conserv Genet. 2017 Aug;18(4):977-982. (PMID: 28966567) Mol Ecol. 2016 Jan;25(1):5-23. (PMID: 26224644) Science. 2010 Jan 1;327(5961):84-7. (PMID: 20044575) Hum Mutat. 1996;7(1):30-5. (PMID: 8664898) Genome Biol Evol. 2018 Nov 1;10(11):3012-3025. (PMID: 30321343) Bioinformatics. 2010 Mar 15;26(6):841-2. (PMID: 20110278) Genetics. 1989 Nov;123(3):585-95. (PMID: 2513255) PLoS One. 2016 Mar 01;11(3):e0147875. (PMID: 26930198) Biol Lett. 2014 Nov;10(11):20140619. (PMID: 25376800) Ann N Y Acad Sci. 1974;231(1):32-42. (PMID: 4522894) Biochem Biophys Res Commun. 2014 Jul 25;450(2):1021-6. (PMID: 24976398) |
معلومات مُعتمدة: | P30 GM103324 United States GM NIGMS NIH HHS; R01 GM126563 United States GM NIGMS NIH HHS; DEB-1316549 International National Science Foundation |
تواريخ الأحداث: | Date Created: 20200524 Date Completed: 20210323 Latest Revision: 20240607 |
رمز التحديث: | 20240607 |
مُعرف محوري في PubMed: | PMC7384379 |
DOI: | 10.1111/evo.14023 |
PMID: | 32445281 |
قاعدة البيانات: | MEDLINE |
تدمد: | 1558-5646 |
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DOI: | 10.1111/evo.14023 |