Khan Shagufta, Sowpati Divya Tej, Srinivasan Arumugam, Soujanya Mamilla, Mishra Rakesh K
CSIR - Centre for Cellular and Molecular Biology, Hyderabad - 500007, Telangana, India.
CSIR - Centre for Cellular and Molecular Biology, Hyderabad - 500007, Telangana, India
G3 (Bethesda). 2020 May 4;10(5):1485-1494. doi: 10.1534/g3.120.401151.
(Hymenoptera: Figitidae) is a specialist parasitoid of The system has emerged as a suitable model for understanding several aspects of host-parasitoid biology. However, a good quality genome of the wasp counterpart was lacking. Here, we report a whole-genome assembly of to bring it in the scope of the applied and fundamental research on parasitoids with access to epigenomics and genome editing tools. The 375Mb draft genome has an N50 of 275Kb with 6315 scaffolds >500bp and encompasses >95% complete BUSCOs. Using a combination of and RNA-Seq based methods, 25259 protein-coding genes were predicted and 90% (22729) of them could be annotated with at least one function. We demonstrate the quality of the assembled genome by recapitulating the phylogenetic relationship of with other Hymenopterans. The key developmental regulators like Hox genes and sex determination genes are well conserved in , and so is the basic toolkit for epigenetic regulation. The search for epigenetic regulators has also revealed that genome possesses DNMT1 (maintenance DNA methyltransferase), DNMT2 (tRNA methyltransferase) but lacks the DNA methyltransferase (DNMT3). Also, the heterochromatin protein 1 family appears to have expanded as compared to other hymenopterans. The draft genome of (Lb17) will expedite the research on parasitoids. This genome resource and early indication of epigenetic aspects in its specialization make it an interesting system to address a variety of questions on host-parasitoid biology.
(膜翅目:枝跗瘿蜂科)是[具体物种]的专性寄生蜂。该系统已成为理解宿主 - 寄生蜂生物学多个方面的合适模型。然而,缺乏该黄蜂对应物的高质量基因组。在此,我们报告了[具体物种]的全基因组组装,以便将其纳入利用表观基因组学和基因组编辑工具对寄生蜂进行应用和基础研究的范畴。这个375兆碱基的基因组草图N50为275千碱基,有6315个大于500碱基对的支架,涵盖了超过95%完整的BUSCOs。使用基于[具体方法1]和RNA - Seq的方法相结合,预测出25259个蛋白质编码基因,其中90%(22729个)至少可以用一种功能进行注释。我们通过重现[具体物种]与其他膜翅目昆虫的系统发育关系来证明组装基因组的质量。关键的发育调节因子如Hox基因和性别决定基因在[具体物种]中保存良好,表观遗传调控的基本工具包也是如此。对表观遗传调节因子的搜索还发现,[具体物种]的基因组拥有DNMT1(维持性DNA甲基转移酶)、DNMT2(tRNA甲基转移酶),但缺乏DNA甲基转移酶(DNMT3)。此外,与其他膜翅目昆虫相比,异染色质蛋白1家族似乎有所扩展。[具体物种](Lb17)的基因组草图将加快对[具体物种]寄生蜂的研究。这种基因组资源及其在特化过程中表观遗传方面的早期迹象使其成为解决宿主 - 寄生蜂生物学各种问题的有趣系统。