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缪斯基因组学允许对蟋蟀科(昆虫纲,直翅目)的线粒体基因组进行比较分析,并证实其系统发育关系。

Museomics allows comparative analyses of mitochondrial genomes in the family Gryllidae (Insecta, Orthoptera) and confirms its phylogenetic relationships.

机构信息

School of Life Sciences, Jiangsu Key Laboratory of Brain Disease and Bioinformation, Research Center for Biochemistry and Molecular Biology, Xuzhou Medical University, Xuzhou, China.

Institut de Systématique, Evolution et Biodiversité (ISYEB), Muséum national d'Histoire naturelle, CNRS, SU, EPHE-SPL, UA, Paris, France.

出版信息

PeerJ. 2024 Aug 8;12:e17734. doi: 10.7717/peerj.17734. eCollection 2024.

Abstract

BACKGROUND

Next-generation sequencing technology can now be used to sequence historical specimens from natural history collections, an approach referred to as museomics. The museomics allows obtaining molecular data from old museum-preserved specimens, a resource of biomolecules largely underexploited despite the fact that these specimens are often unique samples of nomenclatural types that can be crucial for resolving scientific questions. Despite recent technical progress, cricket mitogenomes are still scarce in the databases, with only a handful of new ones generated each year from freshly collected material.

METHODS

In this study, we used the genome skimming method to sequence and assemble three new complete mitogenomes representing two tribes of the cricket subfamily Eneopterinae: two were obtained from old, historical type material of (68 years old) and (80 years old), the third one from a freshly collected specimen of . We compared their genome organization and base composition, and reconstructed the molecular phylogeny of the family Gryllidae.

RESULTS

Our study not only confirmed that the genome skimming method used by next generation sequencing allows us to efficiently obtain the whole mitogenome from dry-pinned historical specimens, but we also confirmed how promising it is for large-scale comparative studies of mitogenomes using resources from natural history collections. Used in a phylogenetic context the new mitogenomes attest that the mitogenomic data contain valuable information and also strongly support phylogenetic relationships at multiple time scales.

摘要

背景

新一代测序技术现在可用于对自然历史收藏中的历史标本进行测序,这种方法被称为博物馆基因组学。博物馆基因组学允许从旧的博物馆保存标本中获取分子数据,尽管这些标本通常是命名类型的独特样本,对于解决科学问题至关重要,但这些生物分子资源在很大程度上尚未得到充分利用。尽管最近取得了技术进展,但数据库中蟋蟀的线粒体基因组仍然很少,每年仅从新收集的材料中生成少数几个新的基因组。

方法

在这项研究中,我们使用基因组掠过法对三个新的完整线粒体基因组进行测序和组装,它们代表蟋蟀亚科 Eneopterinae 的两个部落:两个是从(68 岁)和(80 岁)的旧历史标本中获得的,第三个是从新采集的标本中获得的。我们比较了它们的基因组组织和碱基组成,并重建了蟋蟀科的分子系统发育。

结果

我们的研究不仅证实了下一代测序中使用的基因组掠过法使我们能够从干燥的针插历史标本中有效地获得整个线粒体基因组,而且还证实了它在使用自然历史收藏资源进行大规模线粒体基因组比较研究方面的巨大潜力。在系统发育背景下,新的线粒体基因组证明线粒体基因组数据包含有价值的信息,并强烈支持在多个时间尺度上的系统发育关系。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1e3f/11317039/da556c9679dd/peerj-12-17734-g001.jpg

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