Diverse cell stresses induce unique patterns of tRNA up- and down-regulation: tRNA-seq for quantifying changes in tRNA copy number
Name
Pang-2014-Diverse cell stresse.pdf
Size
1.35 MB
Format
Adobe PDF
Checksum (MD5)
c3f61700ef6b112a7afa43a247ab2f0f
Author(s)
Pang, Yan Ling Joy
Abo, Ryan
Levine, Stuart S.
Dedon, Peter C
Date Issued
October 2014
Journal
Nucleic Acids Research
Publisher
Oxford University Press
Citation
Pang, Yan Ling Joy, Ryan Abo, Stuart S. Levine, and Peter C. Dedon. “Diverse Cell Stresses Induce Unique Patterns of tRNA up- and down-Regulation: tRNA-Seq for Quantifying Changes in tRNA Copy Number.” Nucleic Acids Research 42, no. 22 (October 27, 2014): e170–e170.
Version
Final published version
Abstract
Emerging evidence points to roles for tRNA modifications and tRNA abundance in cellular stress responses. While isolated instances of stress-induced tRNA degradation have been reported, we sought to assess the effects of stress on tRNA levels at a systems level. To this end, we developed a next-generation sequencing method that exploits the paucity of ribonucleoside modifications at the 3′-end of tRNAs to quantify changes in all cellular tRNA molecules. Application of this tRNA-seq method to Saccharomyces cerevisiae identified all 76 expressed unique tRNA species out of 295 coded in the yeast genome, including all isoacceptor variants, with highly precise relative (fold-change) quantification of tRNAs. In studies of stress-induced changes in tRNA levels, we found that oxidation (H[subscript 2]O[subscript 2]) and alkylation (methylmethane sulfonate, MMS) stresses induced nearly identical patterns of up- and down-regulation for 58 tRNAs. However, 18 tRNAs showed opposing changes for the stresses, which parallels our observation of signature reprogramming of tRNA modifications caused by H[subscript 2]O[subscript 2] and MMS. Further, stress-induced degradation was limited to only a small proportion of a few tRNA species. With tRNA-seq applicable to any organism, these results suggest that translational control of stress response involves a contribution from tRNA abundance.
MIT Department
Massachusetts Institute of Technology. Department of Biological Engineering
Massachusetts Institute of Technology. Department of Biology
Terms of Use
Creative Commons Attribution
Persistent DSpace Link
DOI of Published Version
https://doi.org/10.1093/nar/gku945
