FrogCap for the Taxonomic Gap: Harnessing Hybrid Enrichment for Next-Generation Taxonomy

FrogCap 弥补分类学空白：利用混合富集实现下一代分类学

• 批准号: 447176041
• 负责人: Professor Dr. Michael Hofreiter, since 9/2021
• 金额: --
• 依托单位: Zoological Museum
• 依托单位国家: 德国
• 项目类别: Priority Programmes
• 财政年份: 2020
• 资助国家: 德国
• 起止时间: 2019-12-31 至 2022-12-31
• 项目状态: 已结题
• 来源: https://gepris.dfg.de/gepris/projekt/447176041?language=en
• 关键词: FrogCap; Taxonomic; Gap; Harnessing; Hybrid

Of the estimated eight million species that are taxonomically undescribed, an inestimable but undoubtedly large portion are blocked from taxonomic resolution because they belong to species complexes or cryptic species, or because there is uncertainty surrounding the assignment of historical names, which take precedence over new names. This impediment to the resolution of the taxonomic gap is a major factor delaying the completion of the global biodiversity inventory. To tackle this impediment and set the stage for understanding the diversity of life more completely, we need rigorous methods to identify and describe species that also avoid inflation by arbitrarily naming everything that is marginally distinct. In this project, I will use FrogCap, a recently developed bait set for hybrid enrichment sequence capture, to sequence around 13,000 nuclear markers from museomic type material potentially stored in formalin, as well as high-quality tissue samples, of narrow-mouthed frogs of the Madagascar-endemic subfamily Cophylinae. These frogs exemplify the case of a highly diverse group with many cryptic species and often ambiguous type material, making them ideally suited as a clade in which to test new methods to increase the rate and reliability of taxonomic progress in the face of typical taxonomic challenges. I will integrate the genomic FrogCap dataset with an existing micro-CT and morphometric dataset in a novel, type-specimen explicit species delimitation protocol, and use the genealogical divergence index to identify ambiguously delimited sister species in allopatry or parapatry. A selection of such ambiguously delimited units will then be proofed by field sampling along a transect between their core ranges, and subjected to genomic cline analyses to identify the extent of gene flow between them. The resulting rigorous species delimitation will be used in the assembly of peer-reviewed taxonomic monographs on the individual genera, describing a significant portion of the hitherto indescribable diversity of these frogs. The overall approach used in this project will yield a robust taxonomic framework with lower risk of producing synonyms and incorrectly applying names, and will have broad applicability and scalability to other taxa.

在估计的800万种分类学上未描述的物种中，无法估计但无疑很大一部分无法进行分类学解析，因为它们属于物种复合体或神秘物种，或者因为历史名称的分配存在不确定性，优先于新名称。解决分类学差距的这一障碍是推迟完成全球生物多样性清单的一个主要因素。为了解决这一障碍，并为更全面地理解生命的多样性奠定基础，我们需要严格的方法来识别和描述物种，这些方法还可以通过任意命名所有稍微不同的东西来避免通货膨胀。在这个项目中，我将使用FrogCap，一个最近开发的诱饵集的杂交富集序列捕获，测序约13,000核标记从museomic类型的材料可能存储在福尔马林，以及高品质的组织样本，窄口蛙的马达加斯加特有亚科Cophylinae。这些青蛙是一个高度多样化的群体，有许多神秘的物种和模糊的类型材料，使它们非常适合作为一个分支，在面对典型的分类学挑战时，测试新方法以提高分类学进展的速度和可靠性。我将整合现有的micro-CT和形态数据集的基因组FrogCap数据集在一个新的，类型标本明确的物种划界协议，并使用系谱分歧指数，以确定模糊界定的姐妹物种在异地或parapatry。然后，将通过沿着其核心范围之间的横断面沿着进行田间取样来证明对这种模糊界定的单元的选择，并进行基因组渐变群分析以确定它们之间的基因流动的程度。由此产生的严格的物种界定将用于组装同行评议的分类学专着的个别属，描述了迄今难以形容的这些青蛙的多样性的一个重要部分。在这个项目中使用的整体方法将产生一个强大的分类框架，产生同义词和错误应用名称的风险较低，并将具有广泛的适用性和可扩展性，以其他类群。