Development of a SNP genotyping panel for genetic monitoring of the laboratory mouse
Development of a SNP genotyping panel for genetic monitoring of the laboratory mouse
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DOI：
10.1016/j.ygeno.2003.11.007
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发表时间：
2004-05-01
期刊：
影响因子：
4.4
通讯作者：
Wiles, MV
中科院分区：
文献类型：
--
作者：
Petkov, PM;Cassell, MA;Wiles, MV
我们已经开发了一个基因分型系统检测遗传污染的实验室小鼠的基础上测定单核苷酸多态性（SNP）标记定位在所有常染色体和X染色体。该系统为基因监测提供了一种快速、可靠和具有成本效益的方式，同时保持了非常高的置信度。我们描述了48个小鼠品系中235个SNP的等位基因分布，从而建立了一个用于基因分型的多态性数据库。本研究中使用的SNP标记是从公开可用的SNP数据库中选择的。四个基因分型方法进行了评估，和动态双管等位基因特异性PCR检测开发的每个标记和测试的一组48个近交系小鼠品系。估计足以区分由不同数量的小鼠品系组成的组的最小数量的测定，并且选择足以区分几乎所有测试的近交系品系的28个SNP的组。针对这些标记物开发了Amplifluor SNP检测测定，并在96种菌株的扩展列表上进行了测试。该样本组用作遗传质量控制方法，以监测杰克逊实验室保存的近300种近交、野生衍生、同源、同源和重组近交品系的基因型。我们得出结论，该标记物组足以在含有大量遗传多样性小鼠品系的菌落中进行遗传污染监测，并且可以在容纳较少品系的设施中实施该标记物组的简化版本。(C)2003年爱思唯尔公司All rights reserved.
We have developed a genotyping system for detecting genetic contamination in the laboratory mouse based on assaying single-nucleotide polymorphism (SNP) markers positioned on all autosomes and the X chromosome. This system provides a fast, reliable, and cost-effective way for genetic monitoring, while maintaining a very high degree of confidence. We describe the allelic distribution of 235 SNPs in 48 mouse strains, thereby creating a database of polymorphisms useful for genotyping purposes. The SNP markers used in this study were chosen from publicly available SNP databases. Four genotyping methods were evaluated, and dynamic two-tube allele-specific PCR assays were developed for each marker and tested on a set of 48 inbred mouse strains. The minimal number of assays sufficient to distinguish groups consisting of different numbers of mouse strains was estimated, and a panel of 28 SNPs sufficient to distinguish virtually all of the inbred strains tested was selected. Amplifluor SNP detection assays were developed for these markers and tested on an extended list of 96 strains. This panel was used as a genetic quality control approach to monitor the genotypes of nearly 300 inbred, wild-derived, congenic, consomic, and recombinant inbred strains maintained at The Jackson Laboratory. We have concluded that this marker panel is sufficient for genetic contamination monitoring in colonies containing a large number of genetically diverse mouse strains and that reduced versions of the panel could be implemented in facilities housing a lower number of strains. (C) 2003 Elsevier Inc. All rights reserved.