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青檀对不同氮素水平响应过程中的长链非编码RNA鉴定
Identification of Long Non-coding RNAs of Pteroceltis tatarinowii in Response to Different Nitrogen Application Levels
【摘要】 青檀(Pteroceltis tatarinowii)是耐干旱瘠薄的石灰岩山地造林先锋树种,其韧皮纤维是制作“宣纸”的原材料。本研究采用PLEK、CNCI、CPC2、Pfam 4个生物信息学软件对青檀氮素响应全长转录组得到的11 801条基因序列进行蛋白编码潜能预测分析,分别获得5 077、3 299、2 202、2 878个长链非编码RNA (Long noncoding RNA),通过制作韦恩图取4组数据的交集,最终获得1 161个lncRNA,最短的为200 nt,最长的为4 122 nt,大部分lncRNA长度在200~1 000 nt区间,占总数的92.33%。本研究结果为深入开展青檀氮素响应分子机制的研究提供了参考。
【Abstract】 Pteroceltis tatarinowii being successfully employed as a pioneer tree species in restoration projects in limestone mountain, has phloem fibers that are used as the main material to manufacture the world famous Xuan paper. Four bioinformatics softwares, PLEK, CNCI, CPC2, Pfam, were employed to predict protein-coding potential for the 11 801 genes generated based on the SMRT-seq data. Finally 5 077, 3 299, 2 202, 2 878 long non-coding RNAs(lncRNAs) were obtained with the four bioinformatics softwares, respectively, while 1 161lncRNAs with minimum length of 200 nt and maximum length of 4 122 nt were gained from the intersection of the four groups of data by making Venn diagram. Most of the lncRNAs, 92.33% of the total, have length between 200and 1 000 nt. The results of the study provide a reference for further research on the molecular mechanism of nitrogen response of P. tatarinowii.
【Key words】 Pteroceltis tatarinowii; Full-length transcriptome; lncRNA;
- 【文献出处】 分子植物育种 ,Molecular Plant Breeding , 编辑部邮箱 ,2024年21期
- 【分类号】S792.99
- 【下载频次】93