文献类型：期刊文献

中文题名：桉树EST-PCR产物测序方案的优化

英文题名：An Optimized Protocol for Sequencing EST-PCR Products in Eucalyptus

作者：张晓红[1,2] 李发根[1] 王宇[1,2] 徐立安[2] 李梅[1] 甘四明[1]

第一作者：张晓红

机构：[1]中国林业科学研究院热带林业研究所;[2]南京林业大学森林资源与环境学院

年份：2009

卷号：28

期号：3

起止页码：535-543

中文期刊名：基因组学与应用生物学

外文期刊名：Genomics and Applied Biology

收录：CSTPCD;;北大核心:【北大核心2008】；CSCD:【CSCD_E2011_2012】；

基金：国家863计划(2006AA100109);国家自然科学基金(30671703);中央级公益性科研院所基本科研业务费专项(RITF2007-6)共同资助

语种：中文

中文关键词：桉树;表达序列标签;PCR产物纯化;重测序

外文关键词：Eucalyptus, EST （expressed sequence tag）, PCR product purification, Re-sequencing

分类号：Q78;S792.39

摘要：EST-PCR产物测序是EST标记开发的重要步骤。本研究利用乙醇-醋酸钠法、清洁试剂盒、虾碱磷酸酶(SAP)-核酸外切酶Ⅰ(ExoⅠ)法和凝胶回收试剂盒4种方法,对6个桉树EST-PCR产物的纯化效果和测序结果进行了比较,推荐乙醇-醋酸钠法为首选的纯化方法;利用测序试剂盒Bigdye TerminatorV3.1,对1/2、1/4、1/8、1/16和1/32标准用量(8.0μL)的测序结果的分析表明,1/16和1/32用量仍可有效测序,均可作为优先的测序试剂用量。同时,也发现EST-PCR扩增谱带单一、明亮的序列与设计的目标EST具有较好的同源性,开发SNP和Indel标记的潜力极大,但较弱的谱带则可能是非特异性扩增的产物。乙醇-醋酸钠法纯化和Bigdye Terminator1/16或1/32用量的测序方案,具有成本低和操作简便的优点,适合96孔板或384孔板大规模EST-PCR产物的测序。
Sequencing of EST-PCR products is important for EST-based marker development. In this study, four procedures for purifying EST-PCR products, namely, ethanol-NaAc, cleanup kit, SAP （shrimp alkaline phosphatase）- Exo Ⅰ （exonuclease Ⅰ）, and gel extraction kit, were compared for their yield and effects on subsequent sequencing, from which ethanol-NaAc was selected as the sound choice. Further, five dosages of Bigdye Terminator V3.1, including 1/2, 1/4, 1/8, 1/16, and 1/32 of the manufacture＇s standard （0.8 μL）, were compared for their sequencing results, from which the last two were recommended in terms of reliability and cost control. In addition, the EST-PCR products, if bright and single in electrophoresis, were highly identical to the original target ESTs and had a great potential in developing SNP and Indel markers, whereas weak EST-PCR products might represent non-specific genomic region to the target EST sequences. The protocol optimized here is advantageous in low cost and technical simplicity and suitable for large-scale sequencing based on 96- or 384- well plates.