A complete chromosome substitution mapping panel reveals genome-wide epistasis in Arabidopsis

IF 3.1 2区 生物学 Q2 ECOLOGY Heredity Pub Date : 2024-07-09 DOI:10.1038/s41437-024-00705-1
Cris L. Wijnen, Ramon Botet, José van de Belt, Laurens Deurhof, Hans de Jong, C. Bastiaan de Snoo, Rob Dirks, Martin P. Boer, Fred A. van Eeuwijk, Erik Wijnker, Joost J. B. Keurentjes
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Abstract

Chromosome substitution lines (CSLs) are tentatively supreme resources to investigate non-allelic genetic interactions. However, the difficulty of generating such lines in most species largely yielded imperfect CSL panels, prohibiting a systematic dissection of epistasis. Here, we present the development and use of a unique and complete panel of CSLs in Arabidopsis thaliana, allowing the full factorial analysis of epistatic interactions. A first comparison of reciprocal single chromosome substitutions revealed a dependency of QTL detection on different genetic backgrounds. The subsequent analysis of the complete panel of CSLs enabled the mapping of the genetic interactors and identified multiple two- and three-way interactions for different traits. Some of the detected epistatic effects were as large as any observed main effect, illustrating the impact of epistasis on quantitative trait variation. We, therefore, have demonstrated the high power of detection and mapping of genome-wide epistasis, confirming the assumed supremacy of comprehensive CSL sets. Development of a complete panel of chromosome substitution lines enables high power mapping of epistatic interactions in Arabidopsis thaliana.

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一个完整的染色体替换图谱面板揭示了拟南芥全基因组的表观性。
染色体置换系(CSL)是研究非等位基因相互作用的暂定最高资源。然而,在大多数物种中生成此类品系的困难很大程度上导致了不完善的 CSL 面板,从而阻碍了对表观遗传的系统分析。在这里,我们介绍了拟南芥中一个独特而完整的 CSL 小组的开发和使用情况,该小组允许对表观相互作用进行全因子分析。首先对单条染色体的互变进行了比较,发现QTL的检测依赖于不同的遗传背景。随后对完整的 CSL 小组进行分析,绘制出了遗传互作因子图谱,并确定了不同性状的多个双向和三向互作因子。一些检测到的外显效应与观察到的主效应一样大,说明了外显效应对数量性状变异的影响。因此,我们证明了检测和绘制全基因组表观因子图谱的强大能力,证实了综合 CSL 集的优越性。
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来源期刊
Heredity
Heredity 生物-进化生物学
CiteScore
7.50
自引率
2.60%
发文量
84
审稿时长
4-8 weeks
期刊介绍: Heredity is the official journal of the Genetics Society. It covers a broad range of topics within the field of genetics and therefore papers must address conceptual or applied issues of interest to the journal''s wide readership
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