[1]尹佟明.BoxCox变换对数量性状基因座位检测效率的影响[J].南京林业大学学报(自然科学版),2010,34(03):035-38.[doi:10.3969/j.jssn.1000-2006.2010.03.008]
 YIN Tong ming.Effect of BoxCox transformation on quantitative trait loci detection YIN Tongming[J].Journal of Nanjing Forestry University(Natural Science Edition),2010,34(03):035-38.[doi:10.3969/j.jssn.1000-2006.2010.03.008]
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BoxCox变换对数量性状基因座位检测效率的影响
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《南京林业大学学报(自然科学版)》[ISSN:1000-2006/CN:32-1161/S]

卷:
34
期数:
2010年03期
页码:
035-38
栏目:
研究论文
出版日期:
2010-06-29

文章信息/Info

Title:
Effect of BoxCox transformation on quantitative trait loci detection YIN Tongming
作者:
尹佟明
江苏省杨树种质创新与品种改良重点实验室,南京林业大学林木遗传与生物技术省部共建重点实验室,江苏南京210037
Author(s):
YIN Tongming
Jiangsu Key Laboratory for Poplar Germplasm Enhancement and Variety Improvement, Key Laboratory of Forest Genetics and Biotechnology Ministry of Education, Nanjing Forestry University, Nanjing 210037, China
关键词:
BoxCox变换数量性状基因座位图位克隆
Keywords:
BoxCox transformation quantitative trait loci positional cloning
分类号:
S722
DOI:
10.3969/j.jssn.1000-2006.2010.03.008
文献标志码:
A
摘要:
数量基因位点(quantitative trait loci, QTL)分析是利用图位法克隆控制数量性状主效基因的前提和基础 。采用BoxCox公式进行数据正态转换对提高QTL分析效率有显著作用。笔者以杨树为实例显示了BoxCox公式在数据正 态转变中的应用及数量性状表型分布对QTL分析的影响。结果发现,数据是否符合正态分布对发现控制数量性状的基 因位点有显著影响。如果不对性状的表型值进行分布检测并进行正态转变,可能无法发现某些有显著效应的遗传位 点。通过比对转化前后QTL分析的LOD值变化曲线得知,曲线变化的趋势在转化前后是一致的,曲线上各个小峰的位 置也是稳定的,但转化后LOD峰值显著提高。如第4染色体上,转化前后LOD值变化曲线上在40~60、80~100及130~150 cm区间均有3个独立峰值出现,数据转化后对应峰值升高,其中第1个峰的峰值约增加3倍,数据转化后该峰值LOD支 持度达到了极显著水平,显示该位置存在一个控制该性状的较强的遗传位点。第8染色体上也出现相似的情况。
Abstract:
Quantitative trait loci (QTL) analysis is the precondition and basis for positional cloning of major genes underlying quantitative traits. Normality transformation of quantitative trait data using BoxCox formula has significant effect on QTL detection. In this paper, a case study on poplar is carried out to demonstrate the application of BoxCox formula for normality transformation and the effect of data distribution on QTL analysis. The results are as followings: QTL detection is significantly affected by the data distribution. Without normality transformation, some significant QTLs may be missed. Similar variation trends are observed on the heat plots of LOD scores and LOD peaks are found to appear in the same positions in the charts established by LOD scores derived before and after the normality transformation. On chromosome 4, 3 LOD peaks appear at 40—60 cm, 80— 100 cm and 130—150 cm intervals respectively both before and after transformation. However, the corresponding LOD peaks are found to increase to the significant level after transformation. Especially, the increment of the first peak is about 3 folds higher than that before BoxCox transformation, which means a relatively strong QTL in the corresponding position. The same scenario is also observed on chromosome 8 in this study.

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备注/Memo

备注/Memo:
收稿日期:2009-12-22修回日期:2010-04-10基金项目:国家自然科学基金项目(30971609); 国家林业局林业公益性行业科研专项(200904002)作者简介:尹佟明(1970—),教授,长江学者。Email: tmyin@njfu.com.cn。引文格式:尹佟明. BoxCox变换对数量性状基因座位检测效率的影响[J]. 南京林业大学学报: 自然科学版,2010,34(3):35-38.
更新日期/Last Update: 2010-06-29