Transposable element evolution in Heliconius suggests genome diversity within Lepidoptera.
Transposable element evolution in Heliconius suggests genome diversity within Lepidoptera.
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DOI：
10.1186/1759-8753-4-21
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发表时间：
2013-10-02
期刊：
影响因子：
4.9
通讯作者：
Ray DA
中科院分区：
文献类型：
--
作者：
Lavoie CA;Platt RN 2nd;Novick PA;Counterman BA;Ray DA
转座元件 (TE) 有可能对基因组结构、功能和进化产生深远的影响。为了了解转座元件（TE）对 Melpomene 的贡献，我们查询了 Melpomene 草图序列以识别重复序列。我们确定 TE 约占基因组的 25%。 TE 的主要类别（约占基因组的 12%）是非长末端重复（非 LTR）反转录转座子，包括一个新的 SINE 家族。然而，这仅略高于 DNA 转座子的含量，而 DNA 转座子的含量多种多样，最近有几个家族已经动员起来。与唯一经过充分研究的鳞翅目基因组家蚕 (Bombyx mori) 相比，H. melpomene 表现出更高的 DNA 转座子含量和独特的反转录转座子库。我们还发现 H.melpomene 表现出很高的 TE 周转率，基因组中积累的旧元件很少。我们的分析代表了蝴蝶基因组中 TE 含量的首次完整、从头表征，并表明，虽然 TE 能够入侵和繁殖，但 TE 具有总体有害影响和/或维持小基因组是有利的。我们的结果还暗示，对其他鳞翅目基因组的分析将揭示该群体内大量的 TE 多样性。
Transposable elements (TEs) have the potential to impact genome structure, function and evolution in profound ways. In order to understand the contribution of transposable elements (TEs) to Heliconius melpomene, we queried the H. melpomene draft sequence to identify repetitive sequences. We determined that TEs comprise ~25% of the genome. The predominant class of TEs (~12% of the genome) was the non-long terminal repeat (non-LTR) retrotransposons, including a novel SINE family. However, this was only slightly higher than content derived from DNA transposons, which are diverse, with several families having mobilized in the recent past. Compared to the only other well-studied lepidopteran genome, Bombyx mori, H. melpomene exhibits a higher DNA transposon content and a distinct repertoire of retrotransposons. We also found that H. melpomene exhibits a high rate of TE turnover with few older elements accumulating in the genome. Our analysis represents the first complete, de novo characterization of TE content in a butterfly genome and suggests that, while TEs are able to invade and multiply, TEs have an overall deleterious effect and/or that maintaining a small genome is advantageous. Our results also hint that analysis of additional lepidopteran genomes will reveal substantial TE diversity within the group.
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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：
1.7
作者：
Jurka, J;Kapitonov, VV;Walichiewicz, J
通讯作者：
Walichiewicz, J
影响因子：
14.9
作者：
Benson DA;Cavanaugh M;Clark K;Karsch-Mizrachi I;Lipman DJ;Ostell J;Sayers EW
通讯作者：
Sayers EW
影响因子：
3.8
作者：
Osanai-Futahashi, Mizuko;Suetsugu, Yoshitaka;Fujiwara, Haruhiko
通讯作者：
Fujiwara, Haruhiko
影响因子：
30.8
作者：
Dewannieux, M;Esnault, C;Heidmann, T
通讯作者：
Heidmann, T