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该研究应用新一代测序技术Illumina HiSeq~(TM)4000在转录水平上对药用植物玄参根部进行测序,结合生物信息学方法开展基因功能注释和SSR位点搜索。通过测序,共获得65 602 036条原始序列。利用生物信息学软件拼接和组装序列,获得73 983条unigene,平均长度823 bp。序列同源性比较表明,56 389条unigene与其他物种具有不同程度的同源性。通过Swiss-Prot,GO,KEGG,COG比对注释,发现520条编码玄参次生代谢途径关键酶基因和191个相关转录因子。利用MISA软件在所有unigenes中共搜索到11 659个SSR位点,重复类型以二核苷酸为主。该研究所获得的参与次生代谢的关键基因可为研究玄参药用成分的生物合成和调控机制奠定基础,获得的大量SSR位点为后续研究玄参种质鉴定及遗传多样性研究提供参考。
In this study, Illumina HiSeq ~ (TM) 4000, a next-generation sequencing technology, was used to sequence the root of Scrophularia ningpoensis at the transcriptional level. Bioinformatics methods were used to annotate gene function and search for SSR loci. By sequencing, a total of 65 602 036 original sequences were obtained. Using the bioinformatics software, the sequences were assembled and assembled into 73 983 unigene with the average length of 823 bp. Sequence homology comparison showed that 56 389 unigene shared some degree of homology with other species. According to the annotation of Swiss-Prot, GO, KEGG and COG, 520 key transcriptional genes encoding secondary metabolic pathways and 191 related transcription factors were found. A total of 11 659 SSR loci were found in all unigenes using MISA software. The types of repeats were dominated by dinucleotides. The key genes involved in secondary metabolism obtained in this study may lay the foundation for the research on the biosynthesis and regulation mechanisms of the components of Radix Hyssopus. A large number of SSRs obtained provide references for the follow-up study on the identification and genetic diversity of Radix Hyssopus .