Identification and Analysis of Alternative Splicing in Soybean Plants

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

Abstract

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.
大豆植物选择性剪接的鉴定与分析
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。
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CiteScore
1.60
自引率
0.00%
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