Polycistronic pre-mRNA processing in vitro: snRNP and pre-mRNA role reversal in trans-splicing.

Genes & Development
Erika L LasdaThomas Blumenthal

Abstract

Spliced leader (SL) trans-splicing in Caenorhabditis elegans attaches a 22-nucleotide (nt) exon onto the 5' end of many mRNAs. A particular class of SL, SL2, splices mRNAs of downstream operon genes. Here we use an embryonic extract-based in vitro splicing system to show that SL2 specificity information is encoded within the polycistronic pre-mRNA, and that trans-splicing specificity is recapitulated in vitro. We define an RNA sequence required for SL2 trans-splicing, the U-rich (Ur) element, through mutational analysis and bioinformatics as a short stem-loop followed by a sequence motif, UAYYUU, located approximately 50 nt upstream of the trans-splice site. Furthermore, this element is predicted in intercistronic regions of numerous operons of C. elegans and other species that use SL2 trans-splicing. We propose that the UAYYUU motif hybridizes with the 5' splice site on the SL2 RNA to recruit the SL to the pre-mRNA. In this way, the UAYYUU motif in the pre-mRNA would serve an analogous function to the similar sequence in the U1 snRNA, which binds to the 5' splice site of introns, effectively reversing the roles of snRNP and pre-mRNA in trans-splicing.

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Citations

Sep 23, 1998·The Plant Journal : for Cell and Molecular Biology·C G SimpsonJ W Brown
Dec 24, 2010·Genome Research·Mary Ann AllenThomas Blumenthal
Feb 3, 2011·Cold Spring Harbor Protocols·Erika L LasdaThomas Blumenthal
Mar 27, 2012·Wiley Interdisciplinary Reviews. RNA·Xavier Roca, Fedor V Karginov
Oct 1, 2011·Wiley Interdisciplinary Reviews. RNA·Erika L Lasda, Thomas Blumenthal
Apr 1, 2014·Cell·Thomas R Cech, Joan A Steitz
Jul 8, 2020·Genetics·Joshua A ArribereHeather A Hundley

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