线粒体DNA的核拷贝是蜻蜓系统发育和群体遗传学研究的一个潜在问题

IF 4.7 1区 农林科学 Q1 ENTOMOLOGY
Stanislav Ožana, A. Dolný, T. Pánek
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引用次数: 6

摘要

使用线粒体标记进行分类鉴定和生物多样性监测并非没有风险或局限性。最重要的是,DNA从线粒体自然转移到细胞核会产生线粒体DNA的无功能细胞核拷贝(NUMT)。它们的丰度和大小在不同的分类群中差异很大,据报道,NUMT使基于线粒体标记的分子研究复杂化,在直翅目中最为突出。这种现象在蜻蜓中的重要性尚未得到适当的解决。在这里,我们展示了白鳍豚(Odonata:Libellulidae)的完整线粒体基因组和核基因组草案,以及相关物种白鳍豚的NUMT和cox1序列。我们记录了在L.albifrons核基因组和公共数据库中可用的另外两个Ododata物种的核基因组中存在NUMT。我们的研究结果表明,NUMTs可以对Ododata的条形码、系统发育、种群和系统地理学研究产生严重影响,尤其是当条形码位于最常用的Ododata分子标记cox1基因时。我们建议nad1应单独使用或与cox1联合使用,以尽量减少与NUMT的意外混淆。最后,我们对Ododata进行了线粒体系统发育分析,并记录了几例线粒体基因组被错误识别的案例,这些基因组属于与公共数据库中显示的不同的物种。总之,我们的发现为未来基于线粒体DNA标记的Ododa代谢编码研究迈出了重要一步。
本文章由计算机程序翻译,如有差异,请以英文原文为准。

Nuclear copies of mitochondrial DNA as a potential problem for phylogenetic and population genetic studies of Odonata

Nuclear copies of mitochondrial DNA as a potential problem for phylogenetic and population genetic studies of Odonata
The use of mitochondrial markers for taxonomic identification and biodiversity monitoring is not without risks or limitations. Most importantly, the natural transfer of DNA from the mitochondria to the nucleus generates nonfunctional nuclear copies of mitochondrial DNA (NUMTs). Their abundance and size vary significantly among taxa, and NUMTs have been reported to complicate molecular studies based on mitochondrial markers in several insect orders, most prominently in Orthoptera. The significance of this phenomenon in Odonata has not yet been properly addressed. Here, we present a complete mitochondrial genome and a draft nuclear genome of Leucorrhinia albifrons (Odonata: Libellulidae), as well as NUMT and cox1 sequences from the related species Leucorrhinia dubia. We document the presence of NUMTs in the L. albifrons nuclear genome and in nuclear genomes of two other Odonata species available in public databases. Our results show that NUMTs can have a serious impact on barcoding, phylogenetic, population and phylogeographic studies of Odonata, especially when the barcode is located in the cox1 gene, the most frequently used molecular marker for Odonata. We suggest that nad1 should be used alone or in combination with cox1 to minimize unintended confusion with NUMTs. Finally, we present a mitophylogenomic analysis of Odonata and document several cases of misidentified mitochondrial genomes belonging to species different from those indicated in public databases. In conclusion, our findings represent an important step for future metabarcoding studies of Odonata based on mitochondrial DNA markers.
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来源期刊
Systematic Entomology
Systematic Entomology 生物-进化生物学
CiteScore
10.50
自引率
8.30%
发文量
49
审稿时长
>12 weeks
期刊介绍: Systematic Entomology publishes original papers on insect systematics, phylogenetics and integrative taxonomy, with a preference for general interest papers of broad biological, evolutionary or zoogeographical relevance.
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