罗勒花和叶的转录组数据组装及基因功能注释
发布时间：2018-07-20 14:58
【摘要】：目的系统了解罗勒Ocimum basilicum花和叶的转录组特征,丰富罗勒转录组数据信息。方法选取罗勒新鲜花朵和叶片为材料,利用Illumina Hi SeqTM 2500进行高通量测序,构建罗勒花和叶转录组文库,并用测序评估、转录组数据组装和基因功能注释等生物信息学方法进行分析。结果对原始数据进行除杂之后,共获得86 331 137个reads片段,包含了6 455 365 309个核苷酸序列信息;将质控后得到的高质量序列进行de novo拼接,得到了90 341个Unigene片段。将Unigene与COG数据库进行比对表明,罗勒的花和叶转录组中的Unigene根据功能可大致分为25类;根据GO功能分类可大致分为生物过程、细胞组分和分子功能3大类43分支;利用KEGG数据库作为参考,依据代谢通路可以将转录组中的数据分成111类,包括生化代谢通路、植物病原体互作、DNA剪切、植物激素生物合成、苯丙氨酸生物合成、萜类化合物与类固醇类化合物合成、脂类代谢、RNA降解等。MISA软件成功设计15 617对SSR引物,检测到10 254个SNP位点。结论研究结果为后期罗勒功能基因的挖掘、代谢途径及调控机制的研究奠定了理论基础。
[Abstract]:Objective to study the transcriptional characteristics of basil Ocimum basilicum flowers and leaves, and to enrich the information of basil transcriptional data. Methods using Illumina Hi SeqTM 2500 as a high throughput sequencing method, a library of basil flower and leaf transcriptome was constructed and evaluated by sequencing. Bioinformatics methods such as transcriptional data assembly and gene function annotation were analyzed. Results after removing the original data, 86 331 137 reads fragments were obtained, including 6 455,365,309 nucleotide sequences, and 90 341 Unigene fragments were obtained by de novo splicing of high quality sequences obtained by quality control. The comparison of Unigene and COG database showed that Unigene in flower and leaf transcriptome of basil could be divided into 25 classes according to function, 43 branches according to go functional classification, 3 kinds of biological process, cell component and molecular function. Using KEGG database as reference, the data in transcriptome can be classified into 111 categories according to metabolic pathway, including biochemical metabolic pathway, plant pathogen interaction DNA cleavage, plant hormone biosynthesis, phenylalanine biosynthesis. A total of 15 617 pairs of SSR primers were successfully designed by MISA software, such as synthesis of terpenoids and steroids, lipid metabolism and RNA degradation, and 10 254 SNP sites were detected. Conclusion the results provide a theoretical basis for the excavation of basil functional genes and the study of metabolic pathways and regulatory mechanisms.
【作者单位】： 绵阳师范学院生命科学与技术学院;西华师范大学生命科学院;南充职业技术学院农业科学技术系;
【基金】：四川省科技厅科技支撑计划项目(2016NZ0058) 四川省教育厅重点科研项目(16ZA0323) 2016年地方高校国家级大学生创新创业训练计划项目(201610639002,201610639014)
【分类号】：S567.219
，
本文编号：2133902
[Abstract]:Objective to study the transcriptional characteristics of basil Ocimum basilicum flowers and leaves, and to enrich the information of basil transcriptional data. Methods using Illumina Hi SeqTM 2500 as a high throughput sequencing method, a library of basil flower and leaf transcriptome was constructed and evaluated by sequencing. Bioinformatics methods such as transcriptional data assembly and gene function annotation were analyzed. Results after removing the original data, 86 331 137 reads fragments were obtained, including 6 455,365,309 nucleotide sequences, and 90 341 Unigene fragments were obtained by de novo splicing of high quality sequences obtained by quality control. The comparison of Unigene and COG database showed that Unigene in flower and leaf transcriptome of basil could be divided into 25 classes according to function, 43 branches according to go functional classification, 3 kinds of biological process, cell component and molecular function. Using KEGG database as reference, the data in transcriptome can be classified into 111 categories according to metabolic pathway, including biochemical metabolic pathway, plant pathogen interaction DNA cleavage, plant hormone biosynthesis, phenylalanine biosynthesis. A total of 15 617 pairs of SSR primers were successfully designed by MISA software, such as synthesis of terpenoids and steroids, lipid metabolism and RNA degradation, and 10 254 SNP sites were detected. Conclusion the results provide a theoretical basis for the excavation of basil functional genes and the study of metabolic pathways and regulatory mechanisms.
【作者单位】： 绵阳师范学院生命科学与技术学院;西华师范大学生命科学院;南充职业技术学院农业科学技术系;
【基金】：四川省科技厅科技支撑计划项目(2016NZ0058) 四川省教育厅重点科研项目(16ZA0323) 2016年地方高校国家级大学生创新创业训练计划项目(201610639002,201610639014)
【分类号】：S567.219
，
本文编号：2133902
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