Genomic novelty within a "great speciator" revealed by a high-quality reference genome of the collared kingfisher (Todiramphus chloris collaris).
Genomic novelty within a "great speciator" revealed by a high-quality reference genome of the collared kingfisher (Todiramphus chloris collaris).
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DOI：
10.1093/g3journal/jkac260
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发表时间：
2022-11-04
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--
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岛屿是研究进化模式和过程的天然实验室。对岛屿特有鸟类的研究表明，几个种群（如白眼雀、达尔文雀）的物种形成率提高，表型进化迅速。然而，理解这些模式背后的进化过程需要理解基因型如何映射到新的表型。迄今为止，岛屿上发现的物种的高质量参考基因组很少。在这里，我们对恩斯特·迈尔的“伟大物种”之一，领翠鸟（Todiramphus chloris collaris）的基因组进行了测序。利用高分子量DNA和连接阅读测序技术，我们组装了一个高质量的基因组草案与高度连续的支架（支架N50 = 19 Mb）。基于通用单拷贝直系同源物，我们估计基因组组装草图的基因空间完整性为96.6%。人口的人口历史分析揭示了一个独特的模式，在整个更新世的人口规模的收缩和扩张。基因家族进化的比较基因组学分析显示，领翠鸟（相对于其他Coraciiformes）中的物种特异性和快速扩展的基因家族主要参与ErbB信号通路和黏着斑。翠鸟是一个物种丰富的群体，已成为物种形成研究的焦点。该基因组草图将成为该小组未来分类学、地理学和物种形成研究的平台。例如，靶基因将能够测试与翠鸟视觉和味觉基因变化相关的感觉结构变化。
Islands are natural laboratories for studying patterns and processes of evolution. Research on island endemic birds has revealed elevated speciation rates and rapid phenotypic evolution in several groups (e.g. white-eyes, Darwin’s finches). However, understanding the evolutionary processes behind these patterns requires an understanding of how genotypes map to novel phenotypes. To date, there are few high-quality reference genomes for species found on islands. Here, we sequence the genome of one of Ernst Mayr’s “great speciators,” the collared kingfisher (Todiramphus chloris collaris). Utilizing high molecular weight DNA and linked-read sequencing technology, we assembled a draft high-quality genome with highly contiguous scaffolds (scaffold N50 = 19 Mb). Based on universal single-copy orthologs, we estimated a gene space completeness of 96.6% for the draft genome assembly. The population demographic history analyses reveal a distinct pattern of contraction and expansion in population size throughout the Pleistocene. Comparative genomic analysis of gene family evolution revealed that species-specific and rapidly expanding gene families in the collared kingfisher (relative to other Coraciiformes) are mainly involved in the ErbB signaling pathway and focal adhesion. Todiramphus kingfishers are a species-rich group that has become a focus of speciation research. This draft genome will be a platform for future taxonomic, phylogeographic, and speciation research in the group. For example, target genes will enable testing of changes in sensory structures associated with changes in vision and taste genes across kingfishers.
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影响因子：
3.3
作者：
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通讯作者：
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影响因子：
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