大豆植物选择性剪接的鉴定与分析

X. Min, Theoni Kasamias, Mykaela Wagner, Atinuke Ogunbayi, Feng Yu
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引用次数: 2

摘要

选择性剪接增加了植物转录组和蛋白质组的多样性。通过整合来自90个RNA-seq数据集的150多万个mrna和表达序列标签(est)的定位信息,以及从多个实验中收集的60多亿个定位reads,本工作报道了大豆植物AS基因及其转录本的鉴定和分析。共检测到AS事件294164件,分为基本事件151710件(51.57%)和复杂事件142454件(48.43%)。基本的AS事件包括内含子保留(18.52%)、替代受体位点(16.33%)、替代供体位点(8.99%)和外显子跳跃(7.73%)。根据目前的分析,大豆含内含子基因的AS率估计为~56.3%。此外,通过将转录本定位到基因组,共检测到41,453个新的基因组位点,这些位点以前没有在基因组中注释过。标注后的数据可以通过公共数据库进行检索和下载。本研究为进一步详细分析大豆植物基因产物的功能提供了资源。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
Identification and Analysis of Alternative Splicing in Soybean Plants
Alternative splicing (AS) increases the diversities of transcriptomes and proteomes in plants. The work reports identification and analysis of genes and their transcripts with a focus on AS in soybean plants by integrating mapping information of over 1.5 million of mRNAs and expressed sequence tags (ESTs) with more than 6 billons of mapped reads collected from 90 RNA-seq datasets obtained from multiple experiments. A total of 294,164 AS events were detected and categorized into basic events (151,710, 51.57%) and complex events (142,454, 48.43%). The basic AS events include intron retention (18.52%), alternative acceptor sites (16.33%), alternative donor site (8.99%), and exon skipping (7.73%). The AS rate in intron containing genes was estimated to be ~56.3% in soybean based on the current analysis. In addition, a total of 41,453 new genomic loci, which were not previously annotated in the genome, were detected by mapping transcripts to the genome. The annotated data can be accessed through a public database for searching and downloading. This work provides a resource for further detailed functional analysis of gene products in soybean plants.
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CiteScore
1.60
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