Distinct Amino Acid Compositional Requirements for Formation and Maintenance of the [PSI⁺] Prion in Yeast

Abstract

Multiple yeast prions have been identified that result from the structural conversion of proteins into a self-propagating amyloid form. Amyloid-based prion activity in yeast requires a series of discrete steps. First, the prion protein must form an amyloid nucleus that can recruit and structurally convert additional soluble proteins. Subsequently, maintenance of the prion during cell division requires fragmentation of these aggregates to create new heritable propagons. For the Saccharomyces cerevisiae prion protein Sup35, these different activities are encoded by different regions of the Sup35 prion domain. An N-terminal glutamine/asparagine-rich nucleation domain is required for nucleation and fiber growth, while an adjacent oligopeptide repeat domain is largely dispensable for prion nucleation and fiber growth but is required for chaperone-dependent prion maintenance. Although prion activity of glutamine/asparagine-rich proteins is predominantly determined by amino acid composition, the nucleation and oligopeptide repeat domains of Sup35 have distinct compositional requirements. Here, we quantitatively define these compositional requirements in vivo. We show that aromatic residues strongly promote both prion formation and chaperone-dependent prion maintenance. In contrast, nonaromatic hydrophobic residues strongly promote prion formation but inhibit prion propagation. These results provide insight into why some aggregation-prone proteins are unable to propagate as prions.

Supplemental material for this article may be found at http://dx.doi.org/10.1128/MCB.01020-14.

ACKNOWLEDGMENTS

This work was supported by the National Science Foundation (MCB-1023771) and National Institutes of Health (GM105991).

We thank the laboratories of P. Shing Ho and Olve Peersen for helpful comments. We thank the undergraduate researchers who assisted in library screening, including Robert Newell, Jr., Lauren Gonzales, Taylor Beairsto, Stephen Gross, and Alexander Queen. We also thank Connor Hendrich and the rest of the Ross lab, as well as Emily Davis and James Knox in the MacLea lab, for comments and technical support.