A general pathway of mRNA turnover has been described
for yeast in which the 3′ poly(A) tail is first deadenylated
to an oligo(A) length, leading to decapping and subsequent
5′–3′ exonucleolytic decay. The unstable
MFA2 mRNA and the stable PGK1 mRNAs both decay through
this pathway, albeit at different rates of deadenylation
and decapping. To determine the regions of the mRNAs that
are responsible for these differences, we examined the
decay of chimeric mRNAs derived from the 5′ untranslated,
coding, and 3′ untranslated regions of these two
mRNAs. These experiments have led to the identification
of the features of these mRNAs that lead to their different
stabilities. The MFA2 mRNA is unstable solely because its
3′ UTR promotes the rates of deadenylation and decapping;
all other features of this mRNA are neutral with respect
to mRNA decay rates. The PGK1 mRNA is stable because the
sequence context of the PGK1 translation start codon and
the coding region function together to stabilize the transcript,
whereas the PGK1 3′ UTR is neutral with respect to
decay. Importantly, changes in the PGK1 start codon context
that destabilized the transcript also reduced its translational
efficiency. This observation suggests that the nature of
the translation initiation complex modulates the rates
of mRNA decapping and decay.