论文部分内容阅读
采用生物信息学方法分析洋葱(Allium cepa L.)转录组中的SSR位点信息,并设计简单重复序列(SSR)引物,以期为洋葱分子标记辅助育种提供有力工具。利用MISA工具筛选了洋葱转录组测序获得的106 932条unigenes(84.04 Mb),并对其SSR位点信息进行了分析,共筛选得到5 959个SSR位点(占总unigenes的5.10%),其发生频率为1/14.1 kb。SSRs位点中主导类型是以AAG/CTT(占总SSRs的10.20%)为主的三核苷酸重复,占总SSRs的37.27%;其次是单、二核苷酸重复,其出现频率分别为30.91%和24.75%。利用Primer5共设计出5 258对SSR引物。随机选择20对引物进行PCR扩增,其中12对扩增出清晰可重复的条带,9对在24个不同类型洋葱材料中表现出多态性。利用UPGMA作图,将24个洋葱材料分为4类。
The information of SSR loci in Allium cepa L. transcriptome was analyzed by bioinformatics methods, and Simple Repeat (SSR) primers were designed to provide a powerful tool for onion molecular marker-assisted breeding. 106 932 unigenes (84.04 Mb) were screened from the onion transcriptome using the MISA tool. The SSR loci were analyzed and 5 959 SSR loci (5.10% of the total unigenes) were screened. The frequency of occurrence is 1 / 14.1 kb. The predominant types of SSRs were trinucleotide repeats based on AAG / CTT (10.20% of the total SSRs), accounting for 37.27% of the total SSRs; followed by single and dinucleotide repeats with frequencies of 30.91% and 24.75%. A total of 5 258 pairs of SSR primers were designed using Primer5. Twenty pairs of primers were randomly selected for PCR amplification, of which 12 pairs amplified clear repeatable bands and 9 pairs showed polymorphism in 24 different types of onion material. Using UPGMA mapping, 24 onion materials were divided into 4 categories.