[1]周玲,梁帅强,林峰,等.玉米二态性 InDel 位点的鉴定和分子标记开发[J].江苏农业学报,2016,(06):1223-1231.[doi:doi:10.3969/j.issn.1000-4440.2016.06.005]
　ZHOU Ling,LIANG Shuai-qiang,LIN Feng,et al.Biallelic InDel loci detection and molecular marker development in maize[J].,2016,(06):1223-1231.[doi:doi:10.3969/j.issn.1000-4440.2016.06.005]
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玉米二态性 InDel 位点的鉴定和分子标记开发()
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江苏农业学报[ISSN:1006-6977/CN:61-1281/TN]

卷:
期数:
2016年06期
页码:
1223-1231
栏目:
遗传育种·生理生化
出版日期:
2017-02-07

文章信息/Info

Title:
Biallelic InDel loci detection and molecular marker development in maize
作者:
周玲; 梁帅强; 林峰; 吕远大
(江苏省农业科学院农业生物技术研究所/江苏省农业生物学重点实验室, 江苏南京210014)
Author(s):
ZHOU Ling; LIANG Shuai-qiang; LIN Feng; Lu Yuan-da
(Institute of Agro-biotechnology/Provincial Key Lab of Agro-biology, Jiangsu Academy of Agricultural Sciences, Nanjing 210014, China)
关键词:
玉米; 二态性 InDel 位点; 系统发育树; 群体结构
Keywords:
maize; biallelic InDel loci; dendrogram; population structure
分类号:
S513.3
DOI:
doi:10.3969/j.issn.1000-4440.2016.06.005
文献标志码:
A
摘要:
随着下一代测序技术（Next generation sequencing, NGS）的发展，可以利用高通量测序数据挖掘基因组特异的插入/缺失（InDel）位点，这使InDel分子标记的开发成为可能。本研究利用327份玉米自交系的测序数据，通过全基因组结构变异评估发现分布于10条染色体上的 25 847个InDel位点。利用PIC值≥0.30的 3 304个位点进行系统发育树构建和群体结构分析，其结果与利用SNP位点分析获得的结果高度一致，说明这些多态性较高的InDel位点可以作为代表性标记用于玉米遗传组成的差异分析。采用53对PCR引物进行扩增试验，发现这些InDel引物具有位点专化特征并且其杂交种鉴定的平均杂合率为 0.569 2，表明这些标记能准确鉴定出玉米杂交种的杂合度。
Abstract:
Next generation sequencing (NGS) technology revolutionized the throughput of sequence data generation and enabled genome-wide identification of insertion and deletion variation (InDel), which could provide potential information for molecular marker development. However, large scale characterization of InDel in maize genome was poorly understood. Here, we evaluated 327 maize inbreed lines genomes and detected more than 25 847 biallelic InDel loci across ten chromosomes. 3 304 InDel loci with relative high PIC values were used to construct the genetic dendrogram, which was consistent with the results concluding from all called SNP loci, suggesting that these biallelic InDel loci could indiscriminately describe maize genome variations. To explore the application of the InDel loci, we developed 53 InDel markers for PCR validation. The results exhibited that the newly developed molecular markers were not only locus specific, but had the capabilities for identifying the hybrid seed heterozygosity. Taken together, our results will particularly facilitate the development of biallelic molecular marker for studies in genetics and have potential for marker-assisted breeding.

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备注/Memo

备注/Memo:
收稿日期：2016-03-12 基金项目：江苏省农业科技自主创新基金项目[CX（14）2006]；江苏省自然科学基金项目（BK20141385） 作者简介：周玲(1987-),女,安徽合肥人, 博士, 助理研究员, 研究方向为作物遗传育种。(E-mail) zlingxiaoyao@163. com 通讯作者：吕远大, (E-mail)lyd0527@jaas.ac.cn
更新日期/Last Update: 2017-02-07