Median mRNA half life
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| Value | 20 min |
|---|---|
| Organism | Budding yeast Saccharomyces cerevisiae |
| Reference | Wang Y, Liu CL, Storey JD, Tibshirani RJ, Herschlag D, Brown PO. Precision and functional specificity in mRNA decay. Proc Natl Acad Sci U S A. 2002 Apr 30 99(9):5860-5 free online article p. 5862 left column 2nd paragraphPubMed ID11972065 |
| Method | By using DNA microarrays, researchers precisely measured the decay of each yeast mRNA, after thermal inactivation of a temperature-sensitive RNA polymerase II: Yeast was grown on YPD at 24 degrees celsius, transferred to a similar medium at 49 degrees and 0, 5, 10, 15, 20, 30, 40, 50, and 60 min after the temperature shift harvested on a nitrocellulose filter followed by liquid nitrogen freezing and total RNA extraction by hot phenol extraction. A nonlinear least squares model was fit to determine the decay rate constant (k) and half-life (t1/2) of each mRNA. The decay rate constant, k, is the value that minimized Si = 1,n[y(ti) - exp(-k×ti)]^2, where y(t) is the mRNA abundance at time t and the summation is taken over all observations for the particular mRNA. The half-life is t1/2 = ln2/k. The goodness of fit of the decay model for each gene was assessed with the F statistic (20), based on the null hypothesis that the data fit a first-order decay model. A bootstrap method was used to calculate confidence intervals for both t1/2 and k (21). (Numbers in parentheses are references in article) |
| Comments | The half-lives of the 4,687 mRNAs analyzed varied widely, ranging from ~3 min to more than 90 min, with a mean of 23 min (BNID 105511) and median of 20 min (Fig. 2A). No simple correlation was found between the decay rates of mRNAs and their abundance, the size of the ORF, codon adaptation index, or the density of ribosomes bound to the mRNA (Y. Arava, D.H., and P.O.B., unpublished data). |
| Entered by | Ron Milo - Admin |
| ID | 100205 |