Widespread introgression across a phylogeny of 155 Drosophila genomes.
Widespread introgression across a phylogeny of 155 Drosophila genomes.
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DOI：
10.1016/j.cub.2021.10.052
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发表时间：
2022-01-10
期刊：
影响因子：
--
通讯作者：
Comeault AA
中科院分区：
文献类型：
--
作者：
Suvorov A;Kim BY;Wang J;Armstrong EE;Peede D;D'Agostino ERR;Price DK;Waddell P;Lang M;Courtier-Orgogozo V;David JR;Petrov D;Matute DR;Schrider DR;Comeault AA
基因组尺度的序列数据为杂交和基因渗入的研究注入了活力，尤其是在动物中。然而，除了少数值得注意的案例外，我们缺乏在整个进化枝上更大的系统发育尺度上的系统测试。在这里，我们利用来自149个物种的155个基因组组装，来产生一个化石校准的系统发育，并在果蝇属的9个单系辐射中进行多位点测试。利用互补的系统基因组学方法，我们确定了果蝇进化史上广泛的基因渗入。将基因树的不一致性映射到系统发育上显示，我们研究的9个进化支中的大多数都发生了古代和近代的基因渗入。我们的研究结果提供了在果蝇进化史上发生基因渗入的第一个证据，并强调了继续研究这一属和整个生命之树中杂交和基因渗入的进化后果的必要性。Suvorov等人使用来自155个果蝇基因组组合的多位点数据来重建该属的系统发育并估计分化时间。他们使用多种系统基因组学方法来阐明属内基因流动的模式。他们的研究结果表明，在果蝇生命之树上存在多个基因渗入的实例。
Genome-scale sequence data have invigorated the study of hybridization and introgression, particularly in animals. However, outside of a few notable cases, we lack systematic tests for introgression at a larger phylogenetic scale across entire clades. Here we leverage 155 genome assemblies, from 149 species, to generate a fossil-calibrated phylogeny and conduct multilocus tests for introgression across nine monophyletic radiations within the genus Drosophila. Using complementary phylogenomic approaches, we identify widespread introgression across the evolutionary history of Drosophila. Mapping gene-tree discordance onto the phylogeny revealed that both ancient and recent introgression has occurred across most of the nine clades that we examined. Our results provide the first evidence of introgression occurring across the evolutionary history of Drosophila and highlight the need to continue to study the evolutionary consequences of hybridization and introgression in this genus and across the Tree of Life. Suvorov et al. use multi-locus data from 155 Drosophila genome assemblies to reconstruct the phylogeny of the genus and estimate divergence times. They used multiple phylogenomic methods to shed light on patterns of gene flow within the genus. Their results suggest multiple instances of introgression across the Drosophila Tree of Life.
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影响因子：
6.5
作者：
Anisimova M;Gil M;Dufayard JF;Dessimoz C;Gascuel O
通讯作者：
Gascuel O
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.
DOI：
10.1126/science.1165448
发表时间：
2009-03-06
期刊：
Science (New York, N.Y.)
影响因子：
--
作者：
Anderson TM;vonHoldt BM;Candille SI;Musiani M;Greco C;Stahler DR;Smith DW;Padhukasahasram B;Randi E;Leonard JA;Bustamante CD;Ostrander EA;Tang H;Wayne RK;Barsh GS
通讯作者：
Barsh GS
影响因子：
14.9
作者：
Abascal F;Zardoya R;Telford MJ
通讯作者：
Telford MJ
影响因子：
10.7
作者：
Minh BQ;Nguyen MA;von Haeseler A
通讯作者：
von Haeseler A