title: Boundary-independent polar nonsense-mediated decay.
abstract: Nonsense-mediated decay (NMD) is an RNA surveillance mechanism that degrades mRNAs containing premature termination (nonsense) codons. The second signal for this pathway in mammalian cells is an intron that must be at least approximately 55 nucleotides downstream of the nonsense codon. Although the functional significance of this '-55 boundary rule' is not known, it is widely thought to reflect the important role of an exon junction protein complex deposited just upstream of exon-exon junctions after RNA splicing. Here we report that a T-cell receptor (TCR)-beta gene did not conform to this rule. Rather than a definitive boundary position, nonsense codons had a polar effect, such that nonsense codons distant from the terminal downstream intron triggered robust NMD and proximal nonsense codons caused modest NMD. We identified a region of the TCR-beta gene that conferred this boundary-independent polar expression pattern on a heterologous gene. Collectively, our results suggest that TCR-beta transcripts contain one or more sequence elements that elicit an unusual NMD response triggered by a novel second signal that ultimately causes boundary-independent polar regulation. TCR genes may have evolved this unique NMD response because they frequently acquire nonsense codons during normal development.
authors.affiliation: Department of Immunology, The University of Texas M.D. Anderson Cancer Center, Houston, TX 77030, USA.
authors.forename: Jun
authors.initials: J
authors.lastname: Wang
authors.forename: Jayanthi P
authors.initials: JP
authors.lastname: Gudikote
authors.forename: O Renee
authors.initials: OR
authors.lastname: Olivas
authors.forename: Miles F
authors.initials: MF
authors.lastname: Wilkinson
mesh_terms: D000818:Animals; D001483:Base Sequence; D018389:Codon, Nonsense / Q000378:metabolism*; D019674:Genes, T-Cell Receptor beta; D007438:Introns / Q000235:genetics; D051379:Mice; D012333:RNA, Messenger / Q000378:metabolism*; D012260:Ribonucleases / Q000378:metabolism; D017384:Sequence Deletion
chemical_list: D018389:Codon, Nonsense; D012333:RNA, Messenger; D012260:Ribonucleases