TY  - JOUR
A1  - Sun, Mai
A1  - Schwalb, Björn
A1  - Schulz, Daniel
A1  - Pirkl, Nicole
A1  - Etzold, Stefanie
A1  - Larivière, Laurent
A1  - Maier, Kerstin C.
A1  - Seizl, Martin
A1  - Tresch, Achim
A1  - Cramer, Patrick
T1  - Comparative dynamic transcriptome analysis (cDTA) reveals mutual feedback between mRNA synthesis and degradation
Y1  - 2012/07/01 
JF  - Genome Research 
JO  - Genome Research 
SP  - 1350 
EP  - 1359 
DO  - 10.1101/gr.130161.111 
VL  - 22 
IS  - 7 
UR  - http://genome.cshlp.org/content/22/7/1350.abstract 
N2  - To monitor eukaryotic mRNA metabolism, we developed comparative dynamic transcriptome analysis (cDTA). cDTA provides absolute rates of mRNA synthesis and decay in Saccharomyces cerevisiae (Sc) cells with the use of Schizosaccharomyces pombe (Sp) as an internal standard. cDTA uses nonperturbing metabolic labeling that supersedes conventional methods for mRNA turnover analysis. cDTA reveals that Sc and Sp transcripts that encode orthologous proteins have similar synthesis rates, whereas decay rates are fivefold lower in Sp, resulting in similar mRNA concentrations despite the larger Sp cell volume. cDTA of Sc mutants reveals that a eukaryote can buffer mRNA levels. Impairing transcription with a point mutation in RNA polymerase (Pol) II causes decreased mRNA synthesis rates as expected, but also decreased decay rates. Impairing mRNA degradation by deleting deadenylase subunits of the Ccr4–Not complex causes decreased decay rates as expected, but also decreased synthesis rates. Extended kinetic modeling reveals mutual feedback between mRNA synthesis and degradation that may be achieved by a factor that inhibits synthesis and enhances degradation. 
ER  -