Distal nucleotides affect the rate of stop codon read-through  

作　　者：Luciana I.Escobar Andres M.Alonso Jorge R.Ronderos Luis Diambra 

机构地区：[1]CREG,Universidad Nacional de La Plata-CONICET,La Plata CP 1900,Argentina INTech,Universidad Nacional de San Martin,Chascomus CP 7130,Argentina FCNyM,Universidad Nacional de La Plata,La Plata CP 1900,Argentina

出　　处：《Quantitative Biology》2023年第1期44-58,共15页定量生物学（英文版）

基　　金：LIE is funded by CONICET Ph.D.Fellowship.AMA and LD are researchers of CONICET(Argentina).JRR is Full Professor at the UNLP(Argentina).This work was supported by CONICET,Argentina(PIP2017-00059).

摘　　要：Background:A key step in gene expression is the recognition of the stop codon to terminate translation at the correct position.However,it has been observed that ribosomes can misinterpret the stop codon and continue the translation in the 3′UTR region.This phenomenon is called stop codon read-through(SCR).It has been suggested that these events would occur on a programmed basis,but the underlying mechanisms are still not well understood.Methods:Here,we present a strategy for the comprehensive identification of SCR events in the Drosophila melanogaster transcriptome by evaluating the ribosomal density profiles.The associated ribosomal leak rate was estimated for every event identified.A statistical characterization of the frequency of nucleotide use in the proximal region to the stop codon in the sequences associated to SCR events was performed.Results:The results show that the nucleotide usage pattern in transcripts with the UGA codon is different from the pattern for those transcripts ending in the UAA codon,suggesting the existence of at least two mechanisms that could alter the translational termination process.Furthermore,a linear regression models for each of the three stop codons was developed,and we show that the models using the nucleotides at informative positions outperforms those models that consider the entire sequence context to the stop codon.Conclusions:We report that distal nucleotides can affect the SCR rate in a stop-codon dependent manner.

关 键 词：translational readthrough stop codons translational termination ribosomal density profiles nucleotide usage frequency 

分 类 号：Q524[生物学—生物化学]