摘要
可变剪接是引起蛋白多样性的主要机制之一,而转录组reads的重新定位是获取可变剪接位点的有效方法,适合在基因组较小的真菌中应用。ZOOM软件是一款可在window系统下运行的reads可视化定位软件,被广泛用于下一代基因组测序(NGS)的reads定位及单碱基多态性位点(SNP)的发掘。本文发现该软件分析可变剪接的新用途,并以禾谷镰刀菌Fusarium graminearum的4个基因为例详细描述该方法在真菌可变剪接位点识别中的应用,这些结果均获得RT-PCR的验证。
Alternative splicing is the primary mechanism leading to protein diversity. Recently, transcriptome data have been demonstrated to be useful for identifying alternative splicing events, especially for the fungi with small genome size. ZOOM software is one of the primary next-generation sequencing （NGS） read mapping software tools available for both Microsoft Windows and Unix/Linux operating systems. It focuses on aligning short DNA reads to a reference genome and searching for single nucleotide polymorphisms （SNPs）. Our study has discovered an expanded function of ZOOM software that comprises an effective and accurate method to analyze the fungal alternative splicing sites using transcriptome data. Four genes of Fusarium graminearum were analyzed to proof this method and the results were verified by RT-PCR.
出处
《菌物学报》
CAS
CSCD
北大核心
2017年第5期618-624,共7页
Mycosystema
基金
Supported by the National Natural Science Foundation of China(31470107)
the National Key Basic Research Program of China(2014CB138302)
the China Agriculture Research System(CARS24)
