文章摘要
董青原,曹隽喆,张国范,李莉,刘圣,顾宏.基于全基因组选择的长牡蛎肥满度分布参数预测方法[J].,2020,60(1):94-99
基于全基因组选择的长牡蛎肥满度分布参数预测方法
Method for predicting distribution parameters of condition index ofCrassostrea gigas based on genomic selection
  
DOI:10.7511/dllgxb202001013
中文关键词: 全基因组选择  单核苷酸多态性  二次特征选择  高斯通用加性模型  长牡蛎
英文关键词: genomic selection  single nucleotide polymorphism (SNP)  two-stepwise feature selection  Gaussian generalized additive models  Crassostrea gigas
基金项目:国家自然科学基金资助项目(61502074).
作者单位
董青原,曹隽喆,张国范,李莉,刘圣,顾宏  
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中文摘要:
      全基因组选择是一种用于改良动植物育种群体中数量性状的方法,通过使用覆盖整个基因组的分子标记信息对复杂性状进行预测,从而帮助筛选出更适合培育的亲本.基于长牡蛎的单核苷酸多态性(SNP)位点信息,提出了一种预测长牡蛎肥满度分布参数的全基因组选择的新方法.首先,采用一种基于不同评价准则的二次特征选择方法,挑选与肥满度相关性较高的SNP位点;其次,利用所挑选的SNP位点信息构建具有正则化项的高斯通用加性模型对每个长牡蛎样本肥满度分布参数进行预测;最后,在长牡蛎数据上将所提方法和一些现有方法进行了验证比较.实验结果表明,所提方法具有更好的拟合精度和更低的均方误差,并能对样本性状稳定性进行有效的评估.
英文摘要:
      Genomic selection (GS) is a method for improving quantitative traits in animal and plant breeding. By using genetic markers covering the whole genome of the species to predict complex traits, it can help screen out parents that are more suitable for breeding. Based on the single nucleotide polymorphism (SNP) locus information of Crassostrea gigas, a novel GS method for predicting distribution parameters of condition index of Crassostrea gigasis proposed. Firstly, a two-stepwise feature selection method based on different evaluation criteria is used to select SNP loci tightly bound to condition index. Secondly, the selected SNP loci are used to construct a generalized additive model under Gauss distribution with regularization terms for each sample to predict distribution parameters of condition index ofCrassostrea gigas. Finally, the method is compared with other methods by employing the Crassostrea gigas data. The results show that the proposed method has better fitting accuracy and more accurate estimation variance. Meanwhile it can effectively evaluate the stability of sample traits.
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