Phylogeny of panpulmonate gastropods investigated using a 'reduced-representation' genomic approach

使用“减少代表性”基因组方法研究泛肺腹足动物的系统发育

• 批准号: 243478344
• 负责人: Professor Dr. Michael Schrödl
• 金额: --
• 依托单位: Leibniz-Institut zur Analyse des Biodiversitätswandels (LIB)
• 依托单位国家: 德国
• 项目类别: Research Grants
• 财政年份: 2013
• 资助国家: 德国
• 起止时间: 2012-12-31 至 2015-12-31
• 项目状态: 已结题
• 来源: https://gepris.dfg.de/gepris/projekt/243478344?language=en
• 关键词: Phylogeny; panpulmonate; gastropods; investigated; using

Analyses using transcriptomic sequence data are revolutionizing deep molluscan phylogeny. Generating whole genomes or expressed sequence tags (ESTs) still is, however, relatively costly and becomes less efficient for shallower phylogenetic levels with rapidly increasing taxon diversity. There is thus a persisting lack of molecular markers available to test novel hypotheses on subgroups. According to our 4-gene analyses, the inner topology and evolution of euthyneuran gastropods, representing roughly 50,000 species, radically differs from traditional concepts. Our recently established taxon Panpulmonata is diverse with regard to species numbers, morphology and biology, comprising a mix of traditional opisthobranch and pulmonate orders, and some enigmatic snail taxa. Mitochondrial gene trees contradicted such a new topology, while EST-based topologies have given local support. Urgent questions remain, i.e. whether or not there is a new euthyneuran tree with monophyletic Panpulmonata, how internal panpulmonate evolution was, and how to resolve the phylogeny of hyperdiverse taxa reliably and efficiently.Newly developed reduced representation genomic approaches using double digest Restriction-Site Associated DNA sequencing (ddRADseq) can generate thousands of independent nuclear genomic sequence markers for hundreds of samples in parallel, i.e. quickly and at very low costs per sample. In the herein proposed project, we want to explore and establish the use of ddRADseqs as phylogenetic markers, from shallow to deeper levels, within the framework of clarifying panpulmonate phylogeny and evolution. We apply for consumables generating more than 1000 ddRADseqs using available DNA from more than 1000 different euthyneurans. This includes an almost complete species sampling of global acochlidians, covers roughly half of the known panpulmonate families with multiple representatives, and considers all relevant major outgroup taxa. Already in the pilot phase of the project applied for herein, i.e. the first 18 months of funding, we hope for robust results, 1) testing the debated monophyly of Panpulmonata and resolving its origin, 2) reconstructing panpulmonate ordinal and family-level phylogeny (excluding most stylommatophorans), 3) resolving the origin and inner evolution of acochlidians, compared to available multi-locus and morphology-based trees. We will apply state of the art phylogenetic and evolutionary analyses, but also perform up-to-date molecular species delimitation approaches. With our massif genomic data (> 300,000 bp per sample) across many subtaxa we will evaluate current paradigms on character evolution and macro-evolutionary patterns among panpulmonates, such as the invasions of terrestrial and limnic systems.

使用转录组序列数据的分析正在革新深度软体动物的系统发育。但是，生成整个基因组或表达的序列标签（EST）仍然相对昂贵，并且对于较浅的系统发育水平而效率较低，并且分类量迅速增加。因此，缺乏可用于测试亚组的新假设的分子标记。根据我们的4种分析，代表大约50,000种物种的Euthyneuran Gastropods的内部拓扑和演变与传统概念不同。关于物种数量，形态和生物学，我们最近建立的分类单元panpulmonata是多种多样的，包括传统的Opisthobranch和肺酸盐订单以及一些神秘的蜗牛分类群。线粒体基因树与这种新的拓扑相矛盾，而基于EST的拓扑则给予了局部支持。紧急问题仍然存在，即是否有一棵新的室友树，带有单属panpulmonata，内部泛滥进化是如何可靠，有效地解决高多样性分类量的系统发育的，并使用双重挖掘限制的核定核定核元素（ddrads sequerence of Indordent of Irdioncer of Irdioncer of Irdioncer of Irdioncer of Irdioncer of Irdive dna cobles of Indortion coptient）（ddrade）的核能（DDRADS）（DDRADS）（DDRADS）（DDRADS）（DDRADS）（DDRADS）对于数百个并行的样本，即迅速，每个样本的成本非常低。在此处提出的项目中，我们希望在阐明泛硫酸泛酸的系统发育和进化的框架内探索并建立DDRADSEQ作为系统发育标记的使用。我们使用来自1000多种不同euthyneurans的可用DNA生成1000多个DDRADSEQS的消耗品。这包括几乎完整的物种对全球高速滑翔机的采样，涵盖了大约一半的具有多个代表的泛量家庭，并考虑了所有相关的主要外部类群。本文中已经申请了该项目的试点阶段，即资金的前18个月，我们希望取得良好的结果，1）测试泛普罗门塔（Panpulmonata）的辩论单一的辩论并解决其起源，2）重建Panpulmoninal和家庭水平的序列和家庭水平的系统发育（不包括最固定的植物），并将其分辨出启发，并在3）中脱离了Innindution and Inntolution and Inndultion in Inndultion of Origindl of Origin vertloins in Indindl of Originl of Origin of Origt oil基于多形态和形态的树木。我们将采用ART系统发育和进化分析的状态，但也采用最新的分子划界方法。借助我们在许多亚麻中进行的地层基因组数据（> 300,000 bp），我们将评估泛孔群中特征演化和宏观进化模式的当前范式，例如陆生和lim虫系统的入侵。

项目成果

Exploring the Diversity of Mesopsammic Gastropods: How to Collect, Identify, and Delimitate Small and Elusive Sea Slugs?*

探索中栖腹足类动物的多样性：如何收集、识别和界定小型且难以捉摸的海蛞蝓？*

• DOI: 10.4003/006.032.0205
• 发表时间: 2014
• 作者: Jörger;Neusser;Brenzinger;Schrödl
• 通讯作者: Schrödl

Panpulmonate habitat transitions: tracing the evolution of Acochlidia (Heterobranchia, Gastropoda)

• DOI: 10.1101/010322
• 发表时间: 2014-01-01
• 期刊: BioRxiv
• 作者: Jorger, KM;Brenzinger, B;Schrodl, M.
• 通讯作者: Schrodl, M.

Revised Classification, Nomenclator and Typification of Gastropod and Monoplacophoran Families

• DOI: 10.4002/040.061.0201
• 发表时间: 2017-12
• 期刊: Malacologia
• 影响因子: 1.3
• 作者: P. Bouchet;J. Rocroi;B. Hausdorf;A. Kaim;Y. Kano;A. Nützel;P. Parkhaev;M. Schrödl;E. Strong

Life on a leaf: 3D-reconstruction and description of a new limapontiid sacoglossan (Gastropoda: Heterobranchia: ‘Opisthobranchia’) living on the seagrass Halophila ovalis

叶子上的生命：生活在海草 Halophila ovalis 上的新 limapontiid sacoglossan（腹足纲：异鳃亚纲：“Opisthobranchia”）的 3D 重建和描述

• DOI: 10.1093/mollus/eyu071
• 发表时间: 2014
• 期刊: Journal of Molluscan Studies
• 影响因子: 1.2
• 作者: Jensen;Kohnert;Bendell;Schrödl
• 通讯作者: Schrödl