Yang Mo-Hua, Fu Yong-Bi
Plant Gene Resources of Canada, Saskatoon Research and Development Centre, Agriculture and Agri-Food Canada, 107 Science Place, Saskatoon S7N 0X2, Canada.
College of Forestry, Central South University of Forestry and Technology, 498 South Shaoshan Avenue, Changsha, Hunan 410004, People's Republic of China.
Appl Plant Sci. 2017 Jul 24;5(7). doi: 10.3732/apps.1700018. eCollection 2017 Jul.
Assessing genetic distinctness or redundancy is an important part of plant germplasm characterization. We previously introduced a new marker-based approach using the average dissimilarity of an accession to assess genetic distinctness or redundancy. However, this approach has not been widely applied, largely due to the lack of software to integrate separate analyses involving dissimilarity calculation, analysis of molecular variance, and principal coordinates analysis.
An R function, AveDissR, was developed to integrate three separate analyses into one package for assessing genetic distinctness or redundancy. It can analyze large data sets of dominant or codominant markers such as amplified fragment length polymorphisms (AFLPs), simple sequence repeats (SSRs), or single-nucleotide polymorphisms (SNPs), generate a useful set of output files for germplasm assessment, and run in an R environment on any computer platform.
AveDissR can make the assessment of genetic distinctness or redundancy in plant germplasm more feasible and useful.
评估遗传独特性或冗余性是植物种质特征描述的重要组成部分。我们之前引入了一种基于标记的新方法，利用一份种质的平均差异来评估遗传独特性或冗余性。然而，这种方法尚未得到广泛应用，主要原因是缺乏将涉及差异计算、分子方差分析和主坐标分析的单独分析整合起来的软件。
开发了一个R函数AveDissR，将三个单独的分析整合到一个软件包中，用于评估遗传独特性或冗余性。它可以分析显性或共显性标记的大型数据集，如扩增片段长度多态性（AFLP）、简单序列重复（SSR）或单核苷酸多态性（SNP），生成一组用于种质评估的有用输出文件，并能在任何计算机平台的R环境中运行。
AveDissR可以使植物种质遗传独特性或冗余性的评估更加可行和有用。
