Large-Scale SNP Discovery and Genotyping for Constructing a High-Density Genetic Map of Tea Plant Using Specific-Locus Amplified Fragment Sequencing (SLAF-seq).
Large-Scale SNP Discovery and Genotyping for Constructing a High-Density Genetic Map of Tea Plant Using Specific-Locus Amplified Fragment Sequencing (SLAF-seq).
复制标题
使用特定位点扩增片段测序 (SLAF-seq) 进行大规模 SNP 发现和基因分型，构建茶树高密度遗传图谱
DOI：
10.1371/journal.pone.0128798
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发表时间：
2015
期刊：
影响因子：
3.7
通讯作者：
Chen L
中科院分区：
文献类型：
--
作者：
Ma JQ;Huang L;Ma CL;Jin JQ;Li CF;Wang RK;Zheng HK;Yao MZ;Chen L
遗传图谱是植物基因组学和育种研究的重要工具。本研究报道了在茶树中大规模发现单核苷酸多态性（snp），用于构建遗传图谱。我们使用特定位点扩增片段测序（SLAF-seq）开发了总共6042个有效的SNP标记，并随后将它们映射到先前的框架图中。最终的图谱包含6448个分子标记，分布在与茶树染色体数量相对应的15个连锁群上。图谱总长度为3965 cM，位点间平均距离为1.0 cM。该图是第一张基于snp的茶树参考图，也是迄今为止开发的最饱和的茶树参考图。本研究获得的SNP标记和图谱资源为下游的遗传分析提供了丰富的遗传信息，如定量性状位点（QTL）的精细定位、图谱克隆、标记辅助选择、支架的锚定等，为茶树全基因组测序项目的开展提供了基础。
Genetic maps are important tools in plant genomics and breeding. The present study reports the large-scale discovery of single nucleotide polymorphisms (SNPs) for genetic map construction in tea plant. We developed a total of 6,042 valid SNP markers using specific-locus amplified fragment sequencing (SLAF-seq), and subsequently mapped them into the previous framework map. The final map contained 6,448 molecular markers, distributing on fifteen linkage groups corresponding to the number of tea plant chromosomes. The total map length was 3,965 cM, with an average inter-locus distance of 1.0 cM. This map is the first SNP-based reference map of tea plant, as well as the most saturated one developed to date. The SNP markers and map resources generated in this study provide a wealth of genetic information that can serve as a foundation for downstream genetic analyses, such as the fine mapping of quantitative trait loci (QTL), map-based cloning, marker-assisted selection, and anchoring of scaffolds to facilitate the process of whole genome sequencing projects for tea plant.
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