Analysis of Gene Expression Profiles in Leaf Tissues of Cultivated Peanuts and Development of EST-SSR Markers and Gene Discovery.
Analysis of Gene Expression Profiles in Leaf Tissues of Cultivated Peanuts and Development of EST-SSR Markers and Gene Discovery.
复制标题
DOI：
10.1155/2009/715605
复制
发表时间：
2009
期刊：
影响因子：
--
通讯作者：
Culbreath A
中科院分区：
文献类型：
--
作者：
Guo B;Chen X;Hong Y;Liang X;Dang P;Brenneman T;Holbrook C;Culbreath A
花生易受一系列叶部疾病的影响，例如由番茄斑萎病毒（TSWV）引起的斑萎病、早期（花生尾孢菌）和晚期（尾孢菌）叶斑病、南方茎腐病（白绢病）和核盘菌枯萎病（小核盘菌）。在这项研究中，我们报告了17,376花生表达序列标签（EST）的产生从花生品种（Tifrunner，抗TSWV和叶斑病）和育种系（GT-C20，感TSWV和叶斑病）的叶组织。经过对载体的修整和低质量序列的剔除，共筛选出14,432条高质量的EST序列，并存入GenBank进行分析。序列聚类得到6，888个独特的EST，包括1，703个临时共有序列（TC）和5185个单例序列。大量的EST（5717）代表未知功能的基因也被确定。在这些独特序列中，共鉴定出856个EST-SSR。共开发了290个新的基于EST的SSR标记，并在栽培花生和野生种中进行了扩增和多态性检测。选择扩增等位基因的重测序信息显示，等位基因多样性主要归因于重复类型和长度的SSR区域的差异。此外，在微卫星区域侧翼的区域中观察到一些额外的INDEL突变和取代。此外，还鉴定了一些防御相关的转录物，如推定的草酸氧化酶（EU 024476）和NBS-LRR结构域。本研究为花生栽培品种的基因发现和SSR标记的开发提供了新的信息来源。共获得16931条EST序列，登录号为ES 751523 ~ ES 768453。
Peanut is vulnerable to a range of foliar diseases such as spotted wilt caused by Tomato spotted wilt virus (TSWV), early (Cercospora arachidicola) and late (Cercosporidium personatum) leaf spots, southern stem rot (Sclerotium rolfsii), and sclerotinia blight (Sclerotinia minor). In this study, we report the generation of 17,376 peanut expressed sequence tags (ESTs) from leaf tissues of a peanut cultivar (Tifrunner, resistant to TSWV and leaf spots) and a breeding line (GT-C20, susceptible to TSWV and leaf spots). After trimming vector and discarding low quality sequences, a total of 14,432 high-quality ESTs were selected for further analysis and deposition to GenBank. Sequence clustering resulted in 6,888 unique ESTs composed of 1,703 tentative consensus (TCs) sequences and 5185 singletons. A large number of ESTs (5717) representing genes of unknown functions were also identified. Among the unique sequences, there were 856 EST-SSRs identified. A total of 290 new EST-based SSR markers were developed and examined for amplification and polymorphism in cultivated peanut and wild species. Resequencing information of selected amplified alleles revealed that allelic diversity could be attributed mainly to differences in repeat type and length in the SSR regions. In addition, a few additional INDEL mutations and substitutions were observed in the regions flanking the microsatellite regions. In addition, some defense-related transcripts were also identified, such as putative oxalate oxidase (EU024476) and NBS-LRR domains. EST data in this study have provided a new source of information for gene discovery and development of SSR markers in cultivated peanut. A total of 16931 ESTs have been deposited to the NCBI GenBank database with accession numbers ES751523 to ES768453.