A global analysis of C. elegans trans-splicing
A global analysis of C. elegans trans-splicing
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DOI：
10.1101/gr.113811.110
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发表时间：
2011-02-01
期刊：
影响因子：
7
通讯作者：
Blumenthal, Thomas
中科院分区：
文献类型：
--
作者：
Allen, Mary Ann;Hillier, LaDeana W.;Blumenthal, Thomas
在许多秀丽隐杆线虫基因的前MRNA的59末端发生了两个短领导者RNA之一SL1或SL2之一的易位。我们已经从Modencode项目中利用了RNA测序数据，以分析秀丽隐杆线虫的转录组，以获取变速器模式。基于对较少基因的分析，类似于70％的基因的转录本是跨sp缩的，类似于较早的估计。大多数移植基因的mRNA剪接到SL1或SL2，但大多数基因并未对两者进行移植，这表明SL1和SL2变速器使用了不同的基本机制。 SL2跨切割是为了将基因基因组中的基因范围分开。较短的跨距离距离与SL2的更多使用有关。最后，增加对下游操纵子基因的SL1移序的使用可以表明在界面区域中存在额外的启动子，从而产生了称为“混合”操纵子的启动子。在混合操纵子中，两个启动子的存在导致使用两个SL类：转录源自另一个基因上游的启动子，创建了接收SL2的多伴发行前MRNA，而转录源于内部启动子创建的转录本，是转录物的转录本，其转录本是转录的转录，该转录是该转录的转录，该转录是该转录的转录。接收SL1。总体而言，我们的数据表明，所有秀丽隐杆线虫基因中的17％都在操纵子中。
Trans-splicing of one of two short leader RNAs, SL1 or SL2, occurs at the 59 ends of pre-mRNAs of many C. elegans genes. We have exploited RNA-sequencing data from the modENCODE project to analyze the transcriptome of C. elegans for patterns of trans-splicing. Transcripts of similar to 70% of genes are trans-spliced, similar to earlier estimates based on analysis of far fewer genes. The mRNAs of most trans-spliced genes are spliced to either SL1 or SL2, but most genes are not trans-spliced to both, indicating that SL1 and SL2 trans-splicing use different underlying mechanisms. SL2 trans-splicing occurs in order to separate the products of genes in operons genome wide. Shorter intercistronic distance is associated with greater use of SL2. Finally, increased use of SL1 trans-splicing to downstream operon genes can indicate the presence of an extra promoter in the intercistronic region, creating what has been termed a "hybrid" operon. Within hybrid operons the presence of the two promoters results in the use of the two SL classes: Transcription that originates at the promoter upstream of another gene creates a polycistronic pre-mRNA that receives SL2, whereas transcription that originates at the internal promoter creates transcripts that receive SL1. Overall, our data demonstrate that >17% of all C. elegans genes are in operons.