Effects of missing marker and segregation distortion on QTL mapping in F-2 populations

doi:10.1007/s00122-010-1372-z

	Effects of missing marker and segregation distortion on QTL mapping in F-2 populations
	Zhang, Luyan 1,2; Wang, Shiquan 3; Li, Huihui 1; Deng, Qiming 3; Zheng, Aiping 3; Li, Shuangcheng 3; Li, Ping 3; Li, Zhonglai 2; Wang, Jiankang 1
刊名	THEORETICAL AND APPLIED GENETICS
	2010
卷号	121 期号:6 页码:1071-1082
ISSN号	0040-5752
DOI	10.1007/s00122-010-1372-z
通讯作者	Zhang, Luyan
英文摘要	Missing marker and segregation distortion are commonly encountered in actual quantitative trait locus (QTL) mapping populations. Our objective in this study was to investigate the impact of the two factors on QTL mapping through computer simulations. Results indicate that detection power decreases with increasing levels of missing markers, and the false discovery rate increases. Missing markers have greater effects on smaller effect QTL and smaller size populations. The effect of missing markers can be quantified by a population with a reduced size similar to the marker missing rate. As for segregation distortion, if the distorted marker is not closely linked with any QTL, it will not have significant impact on QTL mapping; otherwise, the impact of the distortion will depend on the degree of dominance of QTL, frequencies of the three marker types, the linkage distance between the distorted marker and QTL, and the mapping population size. Sometimes, the distortion can result in a higher genetic variance than that of non-distortion, and therefore benefits the detection of linked QTL. A formula of the ratio of genetic variance explained by QTL under distortion and non-distortion was given in this study, so as to easily determine whether the segregation distortion marker (SDM) increases or decreases the QTL detection power. The effect of SDM decreases rapidly as its linkage relationship with QTL becomes looser. In general, distorted markers will not have a great effect on the position and effect estimations of QTL, and their effects can be ignored in large-size mapping populations.
学科主题	Agronomy ; Plant Sciences ; Genetics & Heredity ; Horticulture ; AGRONOMY ; GENETICS & HEREDITY ; HORTICULTURE ; PLANT SCIENCES
语种	英语
出版者	SPRINGER
WOS记录号	WOS:000281794100006
内容类型	期刊论文
源URL	[http://111.203.20.206/handle/2HMLN22E/5391]
专题	作物科学研究所_分子生物学系
作者单位	1.Chinese Acad Agr Sci, Inst Crop Sci, Natl Key Facil Crop Gene Resources & Genet Improv, CIMMYT China, Beijing 100081, Peoples R China 2.Beijing Normal Univ, Sch Math Sci, Beijing 100875, Peoples R China 3.Sichuan Agr Univ, Rice Res Inst, Chengdu 611130, Peoples R China
推荐引用方式 GB/T 7714	Zhang, Luyan,Wang, Shiquan,Li, Huihui,et al. Effects of missing marker and segregation distortion on QTL mapping in F-2 populations[J]. THEORETICAL AND APPLIED GENETICS,2010,121(6):1071-1082.
APA	Zhang, Luyan.,Wang, Shiquan.,Li, Huihui.,Deng, Qiming.,Zheng, Aiping.,...&Wang, Jiankang.(2010).Effects of missing marker and segregation distortion on QTL mapping in F-2 populations.THEORETICAL AND APPLIED GENETICS,121(6),1071-1082.
MLA	Zhang, Luyan,et al."Effects of missing marker and segregation distortion on QTL mapping in F-2 populations".THEORETICAL AND APPLIED GENETICS 121.6(2010):1071-1082.