设计一种QTL定位研究，并在已实现的协同交叉遗传参考群体中实现

Q1 Agricultural and Biological Sciences

Current protocols in mouse biology Pub Date : 2019-10-16 DOI:10.1002/cpmo.66

Morris Soller, Hanifa J. Abu-Toamih Atamni, Ilona Binenbaum, Aristotelis Chatziioannou, Fuad A. Iraqi

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引用次数: 5

摘要

协作交叉(CC)小鼠资源是下一代小鼠遗传参考群体(GRP)，旨在高分辨率定位影响健康和疾病期间复杂性状的数量性状位点(QTL)。CC资源由72个重组自交系(RILs)组成，这些自交系是由5个经典小鼠和3个野生小鼠始祖品系反向杂交产生的。复杂性状是由多种基因和环境因素的变异及其相互作用控制的。这些特征可在动物系统的多个层面上观察到，包括代谢、体重、免疫特征以及对传染病或慢性病的发生和发展的易感性或抵抗力。在此，我们提出了使用CC资源设计QTL定位实验的一般指导方针，以及在我们的实验室中实施的用于不同CC系表型和基因型表征的完整一步一步的协议和方法，用于绘制宿主对传染病和慢性疾病反应的基因。©2019 by John Wiley &基本方案1:用于整个身体质量指数(BMI)的CC系。基本方案2:根据所使用的系数和每行重复数，对检测效应大小的能力进行详细评估。基本方案3:通过插入Keele等人(2019)的表1，获得具有给定目标效应的QTL的能力。

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Designing a QTL Mapping Study for Implementation in the Realized Collaborative Cross Genetic Reference Population

The Collaborative Cross (CC) mouse resource is a next-generation mouse genetic reference population (GRP) designed for high-resolution mapping of quantitative trait loci (QTL) of large effect affecting complex traits during health and disease. The CC resource consists of a set of 72 recombinant inbred lines (RILs) generated by reciprocal crossing of five classical and three wild-derived mouse founder strains. Complex traits are controlled by variations within multiple genes and environmental factors, and their mutual interactions. These traits are observed at multiple levels of the animals’ systems, including metabolism, body weight, immune profile, and susceptibility or resistance to the development and progress of infectious or chronic diseases. Herein, we present general guidelines for design of QTL mapping experiments using the CC resource—along with full step-by-step protocols and methods that were implemented in our lab for the phenotypic and genotypic characterization of the different CC lines—for mapping the genes underlying host response to infectious and chronic diseases. © 2019 by John Wiley & Sons, Inc.

Basic Protocol 1: CC lines for whole body mass index (BMI)

Basic Protocol 2: A detailed assessment of the power to detect effect sizes based on the number of lines used, and the number of replicates per line

Basic Protocol 3: Obtaining power for QTL with given target effect by interpolating in Table 1 of Keele et al. (2019)

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来源期刊

Current protocols in mouse biology Agricultural and Biological Sciences-Animal Science and Zoology

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期刊介绍： Sound and reproducible laboratory methods are the foundation of scientific discovery. Yet, all too often, nuances that are critical for an experiment''s success are not captured in the primary literature but exist only as part of a lab''s oral tradition. The aim of Current Protocols in Mouse Biology is to provide the clearest, most detailed and reliable step-by-step instructions for protocols involving the use of mice in biomedical research. Written by experts in the field and extensively edited to our exacting standards, the protocols include all of the information necessary to complete an experiment in the laboratory—introduction, materials lists with supplier information, detailed step-by-step procedures with helpful annotations, recipes for reagents and solutions, illustrative figures and information-packed tables. Each article also provides invaluable discussions of background information, applications of the methods, important assumptions, key parameters, time considerations, and tips to help avoid common pitfalls and troubleshoot experiments. Furthermore, Current Protocols in Mouse Biology content is thoughtfully organized by topic for optimal usage and to maximize contextual knowledge. Quarterly issues allow Current Protocols to constantly evolve to keep pace with the newest discoveries and developments. Current Protocols in Mouse Biology brings together resources in mouse biology and genetics and provides a mouse protocol resource that covers all aspects of mouse biology. Current Protocols in Mouse Biology also permits optimization of mouse model usage, which is significantly impacted by both cost and ethical constraints. Optimal and standardized mouse protocols ultimately reduce experimental variability and reduce the number of animals used in mouse experiments.