Quantifying the phenome-wide response to sex-specific selection in Drosophila melanogaster

In species with separate sexes, selection on males causes evolutionary change in female traits values (and vice versa) via genetic correlations, which has far-reaching consequences for adaptation. Here, we utilise a sex-specific form of Robertson’s Secondary Theorem of Natural Selection to estimate the expected response to selection for 474 organismal-level traits and ~28,000 gene expression traits measured in the Drosophila Genetic Reference Panel (DGRP). Across organismal-level traits, selection acting on males produced a larger predicted evolutionary response than did selection acting on females, even for female traits; while for transcriptome traits selection on each sex produced a roughly equal average evolutionary response. For most traits, selection on males and females was predicted to move average trait values in the same direction, though for some traits, selection on one sex increased trait values while selection on the other sex decreased them, implying intralocus sexual con..., We performed a forward citation search of Google Scholar for articles that had cited the original DGRP paper (Mackay et al., 2012; this study introduced the resource and is the common citation among those that use it) as of January 2022, to obtain line mean estimates and associated meta-data for quantitative traits that have been measured in the DGRP (Figure 1). We supplemented our search by including all articles cited in an influential review of the DGRP (Mackay & Huang, 2018) and all datasets included on the DGRP2 web application (http://dgrp2.gnets.ncsu.edu/; Mackay et al., 2012; Huang et al., 2014). In total, we identified 126 studies that reported line means or raw data for 38,411 phenotypic traits. 19,259 of these were female traits and 19,081 male traits (the remaining 71 were estimated from mixed sex groups). 36,280 of these were reported by a single study, which measured whole-body expression level for many of the known genes in D. melanogaster (Huang et al., 2015). We res..., , # Data from: Quantifying the phenome-wide response to sex-specific selection in Drosophila melanogaster

[https://doi.org/10.5061/dryad.2v6wwpzzp](https://doi.org/10.5061/dryad.2v6wwpzzp)

## Description of the data and file structure

Data concern a vast range of quantitative traits measured across the Drosophila genetic reference panel. With these data you can run all analyses presented in the associated manuscript.

If you would like to use the dataset for your own analysis, download `meta_data_for_all_traits.csv` and either `all.dgrp.phenos_unscaled.csv` or `all.dgrp.phenos_scaled.csv` depending on whether you want to use traits expressed on their original scale or on a standardised scale (mean = 0, SD = 1). Read [this](https://tomkeaney.github.io/Secondary_theorem_separate_sexes/Data_collation.html) to see how we collated the dataset and conducted quality control. Read [this](https://tomkeaney.github.io/Secondary_theorem_separate_sexes/Main_analysis.html) to see how we further clea...

在具有雌雄异体的物种中，雄性所受的选择会通过遗传相关引起雌性性状值的演化改变（反之亦然），这对适应过程具有深远影响。本研究利用针对雌雄异体的罗伯逊自然选择第二定理（Robertson’s Secondary Theorem of Natural Selection）的性别特异性形式，对果蝇遗传参考面板（Drosophila Genetic Reference Panel, DGRP）中测定的474个个体水平性状和约28000个基因表达性状的预期选择响应进行了估算。就个体水平性状而言，即使是针对雌性性状，雄性所施加的选择所预测的演化响应也大于雌性选择所产生的响应；而对于转录组性状而言，两性施加的选择所产生的平均演化响应大致相当。对于大多数性状而言，雌雄两性的选择均会使性状平均值向同一方向移动，但部分性状中，单一性别的选择会提升性状值，而另一性别的选择则会降低性状值，这提示了座内性冲突（intralocus sexual conflict）……我们于2022年1月对谷歌学术进行了正向引用检索，检索对象为引用了原始DGRP论文（Mackay等，2012年；该论文介绍了该资源，是所有使用该资源的研究的通用引用文献）的文章，以获取已在DGRP中测定的数量性状的品系均值估计值及相关元数据（图1）。我们通过补充检索纳入了一篇关于DGRP的权威综述（Mackay & Huang，2018年）所引用的全部文献，以及DGRP2网络应用程序（http://dgrp2.gnets.ncsu.edu/；Mackay等，2012年；Huang等，2014年）中收录的全部数据集。最终我们共识别出126项研究，这些研究报道了38411个表型性状的品系均值或原始数据。其中19259个为雌性性状，19081个为雄性性状（剩余71个性状由混合性别群体估算得到）。有36280个性状由单项研究报道，该研究对黑腹果蝇（D. melanogaster）多数已知基因的全身体表达水平进行了测定（Huang等，2015年）。我们……

# 数据来自：量化黑腹果蝇性别特异性选择的全表型组响应
[https://doi.org/10.5061/dryad.2v6wwpzzp](https://doi.org/10.5061/dryad.2v6wwpzzp)

## 数据与文件结构说明
本数据集涵盖了果蝇遗传参考面板中测定的各类数量性状。利用这些数据，你可以复现关联论文中呈现的全部分析内容。

若你希望将本数据集用于自主分析，请下载`meta_data_for_all_traits.csv`，并根据需要选择`all.dgrp.phenos_unscaled.csv`或`all.dgrp.phenos_scaled.csv`：前者保留性状的原始量纲，后者则为标准化后的数据（均值=0，标准差=1）。请参阅[此链接](https://tomkeaney.github.io/Secondary_theorem_separate_sexes/Data_collation.html)了解本数据集的整理流程与质量控制方法。请参阅[此链接](https://tomkeaney.github.io/Secondary_theorem_separate_sexes/Main_analysis.html)了解后续的清理流程……