Ecological divergence despite common mating sites: Genotypes and symbiotypes shed light on cryptic diversity in the black bean aphid species complex

Different host plants represent ecologically dissimilar environments for phytophagous insects. The resulting divergent selection can promote the evolution of specialized host races, provided that gene flow is reduced between populations feeding on different plants. In black bean aphids belonging to the Aphis fabae complex, several morphologically cryptic taxa have been described based on their distinct host plant preferences. However, host choice and mate choice are largely decoupled in these insects: they are host-alternating and migrate between specific summer host plants and shared winter hosts, with mating occurring on the shared hosts. This provides a yearly opportunity for gene flow among aphids using different summer hosts, and raises the question if and to what extent the ecologically defined taxa are reproductively isolated. Here, we analyzed a geographically and temporally structured dataset of microsatellite genotypes from A. fabae that were mostly collected from their main w..., This data files belong to the data and analyses published in the manuscript \"Ecological divergence despite common mating sites: Genotypes and symbiotypes shed light on cryptic diversity in the black bean aphid species complex\" in the journal Heredity by Elena Gimmi, Jesper Wallisch and Christoph Vorburger.
The study design is explained in the publication. The files contained in this publication are described below. For questions, please contact [e-mail]., , # Ecological divergence despite common mating sites: Genotypes and symbiotypes shed light on cryptic diversity in the black bean aphid species complex

[https://doi.org/10.5061/dryad.tx95x6b5t](https://doi.org/10.5061/dryad.tx95x6b5t)

## Submission Overview

This data submission consists of an R project folder (RProject_Afabe_popgen_publication_final) containing the following files and subfolders:

* 7 R scripts (filename.R, detailed description below) that can be used to replicate all analyses, figures and tables presented in the manuscript or the manuscript supplement. Set the working directory to the file location to run the scripts.
* folder ‘data’: contains 5 data files and 4 subfolders whose content is described in detail below as well as in the README file also present in the folder.
* folder 'data_produced' with subfolders ‘dapc’ and ‘hybrid_analysis’: empty, intermediate data files that can be obtained by running the provided scripts are saved in this folder.
* folder ...

对于植食性昆虫（phytophagous insects）而言，不同的寄主植物构成了生态位迥异的生存环境。由此产生的歧化选择可推动特化寄主宗的演化，前提是取食不同寄主植物的种群间基因流受到限制。在隶属于蚜属（Aphis）的黑豆蚜（Aphis fabae）复合群中，已有研究基于其独特的寄主偏好描述了多个形态隐存类群。然而，这类昆虫的寄主选择与配偶选择在很大程度上相互解耦：它们具有寄主交替习性，会在特定的夏季寄主与共享的冬季寄主之间迁移，交配行为均发生于共享的冬季寄主之上。这为取食不同夏季寄主的蚜虫提供了年度性的基因交流契机，也引出了一个核心科学问题：基于生态特征界定的类群是否存在生殖隔离，以及其隔离程度究竟如何？

本研究分析了一套兼具地理与时间结构特征的微卫星基因型数据集，样本主要采自其主要……

本数据集包含的相关数据与分析均源自发表于期刊《遗传（Heredity）》的论文《尽管共享交配位点仍存在生态分化：基因型与共生型揭示黑豆蚜复合群的隐存多样性》，作者为Elena Gimmi、Jesper Wallisch与Christoph Vorburger。

研究设计细节可查阅该已发表论文。本数据集包含的文件说明如下。如有疑问，请致信[e-mail]。

# 尽管共享交配位点仍存在生态分化：基因型与共生型揭示黑豆蚜复合群的隐存多样性

[https://doi.org/10.5061/dryad.tx95x6b5t](https://doi.org/10.5061/dryad.tx95x6b5t)

## 提交概览

本次数据提交包含一个R项目文件夹（RProject_Afabe_popgen_publication_final），其中包含以下文件与子文件夹：
* 7个R脚本（文件格式为filename.R，详细说明见下文），可用于复现论文正文及补充材料中呈现的全部分析、图表与表格。运行脚本前需将工作目录设置为该文件夹所在路径。
* 文件夹“data”：内含5个数据文件与4个子文件夹，其具体内容将在下文及该文件夹内的README文件中详细说明。
* 文件夹“data_produced”及其子文件夹“dapc”与“hybrid_analysis”：初始为空，运行提供的脚本后生成的中间数据文件将保存于此。
* 文件夹……