Population genomics of parallel hybrid zones in the mimetic butterflies, H. melpomene and H. erato.
Population genomics of parallel hybrid zones in the mimetic butterflies, H. melpomene and H. erato.
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DOI：
10.1101/gr.169292.113
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发表时间：
2014-08
期刊：
影响因子：
7
通讯作者：
Papa R
中科院分区：
文献类型：
--
作者：
Nadeau NJ;Ruiz M;Salazar P;Counterman B;Medina JA;Ortiz-Zuazaga H;Morrison A;McMillan WO;Jiggins CD;Papa R
杂交区是研究进化和识别负责适应性分化和潜在表型变异的基因组区域的宝贵工具。蝴蝶亚种之间的杂交区域可能非常狭窄，并通过对颜色模式的强烈选择来维持。共生物种H.Erato和H.Melpomene具有平行的杂交区，在这些杂交区中，两个物种都经历了从一种颜色模式到另一种颜色模式的变化。我们使用限制相关DNA测序来获得数千个全基因组序列标记，并使用这些标记来分析秘鲁和厄瓜多尔两对平行杂交区的种群分化模式。我们比较了两种分析这类数据的方法-与参考基因组的比对和从头组装-发现对于与参考序列关系密切(H.Melpomene)和远离(H.Erato，∼15%分歧)的物种，比对都给出了最好的结果。我们的结果证实，颜色模式控制基因座占整个基因组中的大多数差异区域，但我们也检测到其他明显与颜色模式差异无关的差异区域。我们还使用关联映射来识别先前未映射的颜色模式轨迹，特别是Ro轨迹。最后，我们在厄瓜多尔发现了一个新的隐蔽种群，这种种群生活在相对较低的海拔地区，与黑斑潜蝇相似。
Hybrid zones can be valuable tools for studying evolution and identifying genomic regions responsible for adaptive divergence and underlying phenotypic variation. Hybrid zones between subspecies of Heliconius butterflies can be very narrow and are maintained by strong selection acting on color pattern. The comimetic species, H. erato and H. melpomene, have parallel hybrid zones in which both species undergo a change from one color pattern form to another. We use restriction-associated DNA sequencing to obtain several thousand genome-wide sequence markers and use these to analyze patterns of population divergence across two pairs of parallel hybrid zones in Peru and Ecuador. We compare two approaches for analysis of this type of data—alignment to a reference genome and de novo assembly—and find that alignment gives the best results for species both closely (H. melpomene) and distantly (H. erato, ∼15% divergent) related to the reference sequence. Our results confirm that the color pattern controlling loci account for the majority of divergent regions across the genome, but we also detect other divergent regions apparently unlinked to color pattern differences. We also use association mapping to identify previously unmapped color pattern loci, in particular the Ro locus. Finally, we identify a new cryptic population of H. timareta in Ecuador, which occurs at relatively low altitude and is mimetic with H. melpomene malleti.
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影响因子：
64.8
作者：
Dasmahapatra, Kanchon K.;Walters, James R.;Briscoe, Adriana D.;Davey, John W.;Whibley, Annabel;Nadeau, Nicola J.;Zimin, Aleksey V.;Hughes, Daniel S. T.;Ferguson, Laura C.;Martin, Simon H.;Salazar, Camilo;Lewis, James J.;Adler, Sebastian;Ahn, Seung-Joon;Baker, Dean A.;Baxter, Simon W.;Chamberlain, Nicola L.;Chauhan, Ritika;Counterman, Brian A.;Dalmay, Tamas;Gilbert, Lawrence E.;Gordon, Karl;Heckel, David G.;Hines, Heather M.;Hoff, Katharina J.;Holland, Peter W. H.;Jacquin-Joly, Emmanuelle;Jiggins, Francis M.;Jones, Robert T.;Kapan, Durrell D.;Kersey, Paul;Lamas, Gerardo;Lawson, Daniel;Mapleson, Daniel;Maroja, Luana S.;Martin, Arnaud;Moxon, Simon;Palmer, William J.;Papa, Riccardo;Papanicolaou, Alexie;Pauchet, Yannick;Ray, David A.;Rosser, Neil;Salzberg, Steven L.;Supple, Megan A.;Surridge, Alison;Tenger-Trolander, Ayse;Vogel, Heiko;Wilkinson, Paul A.;Wilson, Derek;Yorke, James A.;Yuan, Furong;Balmuth, Alexi L.;Eland, Cathlene;Gharbi, Karim;Thomson, Marian;Gibbs, Richard A.;Han, Yi;Jayaseelan, Joy C.;Kovar, Christie;Mathew, Tittu;Muzny, Donna M.;Ongeri, Fiona;Pu, Ling-Ling;Qu, Jiaxin;Thornton, Rebecca L.;Worley, Kim C.;Wu, Yuan-Qing;Linares, Mauricio;Blaxter, Mark L.;Ffrench-Constant, Richard H.;Joron, Mathieu;Kronforst, Marcus R.;Mullen, Sean P.;Reed, Robert D.;Scherer, Steven E.;Richards, Stephen;Mallet, James;McMillan, W. Owen;Jiggins, Chris D.
通讯作者：
Jiggins, Chris D.
影响因子：
3.7
作者：
Baird NA;Etter PD;Atwood TS;Currey MC;Shiver AL;Lewis ZA;Selker EU;Cresko WA;Johnson EA
通讯作者：
Johnson EA
影响因子：
4.5
作者：
Counterman BA;Araujo-Perez F;Hines HM;Baxter SW;Morrison CM;Lindstrom DP;Papa R;Ferguson L;Joron M;Ffrench-Constant RH;Smith CP;Nielsen DM;Chen R;Jiggins CD;Reed RD;Halder G;Mallet J;McMillan WO
通讯作者：
McMillan WO
影响因子：
4.5
作者：
Baxter SW;Nadeau NJ;Maroja LS;Wilkinson P;Counterman BA;Dawson A;Beltran M;Perez-Espona S;Chamberlain N;Ferguson L;Clark R;Davidson C;Glithero R;Mallet J;McMillan WO;Kronforst M;Joron M;Ffrench-Constant RH;Jiggins CD
通讯作者：
Jiggins CD
影响因子：
3.7
作者：
Baxter SW;Davey JW;Johnston JS;Shelton AM;Heckel DG;Jiggins CD;Blaxter ML
通讯作者：
Blaxter ML