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两型黄守瓜 Hycleus cichorii 和 Hycleus phaleratus 的基因组草图。

Draft genomes of two blister beetles Hycleus cichorii and Hycleus phaleratus.

机构信息

Institute of Entomology/Special Key Laboratory for Development and Utilization of Insect Resources, Guizhou University, Guiyang, Guizhou, P.R. China, 550025.

Department of Parasitology/Laboratory of Pathogenic Biology, Basic Medical College, Guizhou Medical University, Guiyang, Guizhou, P.R. China, 550025.

出版信息

Gigascience. 2018 Mar 1;7(3):1-7. doi: 10.1093/gigascience/giy006.

Abstract

BACKGROUND

Commonly known as blister beetles or Spanish fly, there are more than 1500 species in the Meloidae family (Hexapoda: Coleoptera: Tenebrionoidea) that produce the potent defensive blistering agent cantharidin. Cantharidin and its derivatives have been used to treat cancers such as liver, stomach, lung, and esophageal cancers. Hycleus cichorii and Hycleus phaleratus are the most commercially important blister beetles in China due to their ability to biosynthesize this potent vesicant. However, there is a lack of genome reference, which has hindered development of studies on the biosynthesis of cantharidin and a better understanding of its biology and pharmacology.

RESULTS

We report 2 draft genomes and quantified gene sets for the blister beetles H. cichorii and H. phaleratus, 2 complex genomes with >72% repeats and approximately 1% heterozygosity, using Illumina sequencing data. An integrated assembly pipeline was performed for assembly, and most of the coding regions were obtained. Benchmarking universal single-copy orthologs (BUSCO) assessment showed that our assembly obtained more than 98% of the Endopterygota universal single-copy orthologs. Comparison analysis showed that the completeness of coding genes in our assembly was comparable to other beetle genomes such as Dendroctonus ponderosae and Agrilus planipennis. Gene annotation yielded 13 813 and 13 725 protein-coding genes in H. cichorii and H. phaleratus, of which approximately 89% were functionally annotated. BUSCO assessment showed that approximately 86% and 84% of the Endopterygota universal single-copy orthologs were annotated completely in these 2 gene sets, whose completeness is comparable to that of D. ponderosae and A. planipennis.

CONCLUSIONS

Assembly of both blister beetle genomes provides a valuable resource for future biosynthesis of cantharidin and comparative genomic studies of blister beetles and other beetles.

摘要

背景

芫菁科(鞘翅目: Coleoptera: Tenebrionoidea)有超过 1500 种,俗称斑蝥或西班牙苍蝇,能产生强效防御性水疱剂斑蝥素。斑蝥素及其衍生物曾被用于治疗肝癌、胃癌、肺癌和食管癌等癌症。Hycleus cichorii 和 Hycleus phaleratus 是中国最重要的两种芫菁,因为它们能够生物合成这种强效的致疱剂。然而,由于缺乏基因组参考,阻碍了对斑蝥素生物合成的研究,也阻碍了对其生物学和药理学的更好理解。

结果

我们使用 Illumina 测序数据,报道了两种斑蝥 H. cichorii 和 H. phaleratus 的 2 个草案基因组和定量基因集,这是 2 个复杂的基因组,重复率>72%,杂合率约为 1%。我们采用了集成组装管道进行组装,获得了大部分编码区。基准通用单拷贝同源物(BUSCO)评估表明,我们的组装获得了超过 98%的内翅目通用单拷贝同源物。比较分析表明,我们组装的编码基因完整性与其他甲虫基因组(如 Dendroctonus ponderosae 和 Agrilus planipennis)相当。基因注释在 H. cichorii 和 H. phaleratus 中分别得到了 13813 和 13725 个蛋白质编码基因,其中约 89%具有功能注释。BUSCO 评估表明,这两个基因集中约 86%和 84%的内翅目通用单拷贝同源物完全注释,其完整性与 D. ponderosae 和 A. planipennis 相当。

结论

这两个斑蝥基因组的组装为未来的斑蝥素生物合成和斑蝥及其他甲虫的比较基因组研究提供了有价值的资源。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/2e89/5905561/61324b7f77fa/giy006fig1.jpg

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