植物SNP在线工具的开发及其在烟草中的应用

发布时间：2018-03-31 03:02

本文选题：烟草　切入点：种质资源　出处：《山东农业大学》2016年硕士论文

【摘要】：烟草(Nicotiana tabacum L)是茄科(Solanaceae)烟草属植物,是在世界范围内都非常重要的经济作物,同时烟草作为一种模式植物在现代分子生物学和生命科学的多个相关领域都应用广泛。SNP是新兴的一种分子标记方法,具有密度高,准确性好,实验操作简单等优点,成为当前研究的热点。本实验针对已有SNP预测软件的不足,开发了一个植物SNP预测平台,并通过此平台研究了已知的烟草EST序列,开发了大量的SNP位点,并选择位点设计引物进行了实验验证和物种亲缘关系的鉴定。主要结果如下：1、使用60个植物作为对比, 开发了植物SNIP预测平台CsSNP(http://biodb.sdau.edu.cn/cssnp/index,html.)。2、基于10种烟草EST序列,开发了20,607,973个潜在的SNP位点,其丰度是在67 SNPs/KB (N. tabacum)和 256 SNPs/KB (N. suaveolens x tabacum)之间,平均丰度为87.57 SNPs／KB。共统计了12个类型的SNP,并且表明SNP在基因组中是广泛存在的。统计结果表明碱基之间置换(59.22%)的比例要大于颠换(40.78%)3、根据SNP位点设计引物,并在15个烟草品种中进行扩增后进行测序；对所测序列进行联配并聚类分析,可以区别出不同烟草品种的亲缘。4、基于得到的烟草SNP信息, 构建了第一个烟草SNP数据库NSNP(http://biodb.sdau.edu.cn/nsnp/)。
[Abstract]:Nicotiana tabacum L) is a plant of Solanaceae, which is a very important cash crop in the world. Tobacco, as a model plant, has been widely used in many related fields of modern molecular biology and life sciences. SNP is a new molecular marker method, which has the advantages of high density, good accuracy, simple experiment and so on. In this study, a plant SNP prediction platform was developed, and the known EST sequences of tobacco were studied, and a large number of SNP loci were developed. The main results are as follows: 1. Using 60 plants as a comparison, a plant SNIP prediction platform, CsSNPN, was developed to predict plant SNIP, namely, http: r. R. Biodb.sdau.edu.cnrcssnpindexhtml.tml.2. based on 10 tobacco EST sequences, 20607973 potential SNP loci were developed with abundance between 67 SNPs/KB n. tabacum and 256 SNPs/KB n. suaveolens x tabacum. The average abundance was 87.57 SNPs / KB.A total of 12 types of SNPs were counted, and the results showed that SNP existed widely in the genome. The statistical results showed that the proportion of SNP was higher than that of transposition 40.78%. The primers were designed according to the SNP locus. The genetic relationship of different tobacco varieties can be distinguished by combining and clustering analysis. Based on the obtained tobacco SNP information, the first tobacco SNP database was constructed, namely http: / / / biodb.sdau.edu.cnrnsnpr.
【学位授予单位】：山东农业大学
【学位级别】：硕士
【学位授予年份】：2016
【分类号】：S572;Q943.2

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