博物馆组学揭示了一个神秘的脊椎动物家族的系统发育位置(水母目:水母科)。

IF 3.6 1区 生物学 Q2 BIOCHEMISTRY & MOLECULAR BIOLOGY
Moritz Muschick , Lukas Rüber , Michael Matschiner
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引用次数: 0

摘要

Lophichthys boschmai是Lophichthyidae家族中唯一的成员,是一种难以捉摸的Lophichthys,其系统发育关系存在争议。该科是最后两个缺乏DNA序列数据的脊椎动物科之一,主要原因是该物种稀有,缺乏新鲜材料,以及对经福尔马林处理的博物馆标本进行测序存在挑战。在这项研究中,我们提供了从两个博物馆标本中获得的线粒体和核DNA序列。利用古代DNA技术,我们成功地提取并分析了降解和碎片化的DNA。我们的研究结果来自线粒体基因组和核超保守元件(UCE),揭示了天线科中Lophichthyidae是tathiarpidae的姐妹谱系。本研究展示了在可用的UCE数据集的背景下,使用福尔马林固定的博物馆标本的全基因组“鸟枪”测序数据。考虑到这种方法在数据可重用性方面的增强的多功能性,我们建议在研究稀有标本时应该使用这种方法。
本文章由计算机程序翻译,如有差异,请以英文原文为准。

Museomics reveals the phylogenetic position of an enigmatic vertebrate family (Lophiiformes: Lophichthyidae)

Museomics reveals the phylogenetic position of an enigmatic vertebrate family (Lophiiformes: Lophichthyidae)
Lophichthys boschmai, the only member of the family Lophichthyidae, is an elusive lophiiform fish whose phylogenetic associations are debated. This family is among the last two vertebrate families lacking DNA sequence data, primarily due to the species’ rarity, lack of fresh material and challenges associated with sequencing formalin-treated museum specimens. In this study, we provide mitochondrial and nuclear DNA sequences obtained from two museum specimens of Lophichthys boschmai. Employing ancient DNA techniques, we successfully extracted and analyzed the degraded and fragmented DNA. Our findings, derived from both mitochondrial genomes and nuclear ultra-conserved elements (UCE), reveal the Lophichthyidae as sister lineage to Tathicarpidae within the Antennarioidei. This study showcases the use of whole-genome “shotgun” sequencing data from formalin-fixed museum specimens in the context of an available UCE dataset. Given the enhanced versatility in data reusability this approach offers, we suggest it should be a favored approach when studying rare specimens.
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来源期刊
Molecular Phylogenetics and Evolution
Molecular Phylogenetics and Evolution 生物-进化生物学
CiteScore
7.50
自引率
7.30%
发文量
249
审稿时长
7.5 months
期刊介绍: Molecular Phylogenetics and Evolution is dedicated to bringing Darwin''s dream within grasp - to "have fairly true genealogical trees of each great kingdom of Nature." The journal provides a forum for molecular studies that advance our understanding of phylogeny and evolution, further the development of phylogenetically more accurate taxonomic classifications, and ultimately bring a unified classification for all the ramifying lines of life. Phylogeographic studies will be considered for publication if they offer EXCEPTIONAL theoretical or empirical advances.
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