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Biochemical, Cell Biological, and Genetic Assays to Analyze Amyloid and Prion Aggregation in Yeast

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TLDR
A range of biochemical, cell biological and yeast genetic methods that are currently used in the laboratory to study protein aggregation and the formation of amyloids and prions are provided.
Abstract
Protein aggregates are associated with a variety of debilitating human diseases, but they can have functional roles as well. Both pathological and nonpathological protein aggregates display tremendous diversity, with substantial differences in aggregate size, morphology, and structure. Among the different aggregation types, amyloids are particularly remarkable, because of their high degree of order and their ability to form self-perpetuating conformational states. Amyloids form the structural basis for a group of proteins called prions, which have the ability to generate new phenotypes by a simple switch in protein conformation that does not involve changes in the sequence of the DNA. Although protein aggregates are notoriously difficult to study, recent technological developments and, in particular, the use of yeast prions as model systems, have been very instrumental in understanding fundamental aspects of aggregation. Here, we provide a range of biochemical, cell biological and yeast genetic methods that are currently used in our laboratory to study protein aggregation and the formation of amyloids and prions.

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Prion-like Polymerization Underlies Signal Transduction in Antiviral Immune Defense and Inflammasome Activation

TL;DR: Results indicate that prion-like polymerization is a conserved signal transduction mechanism in innate immunity and inflammation.
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Promiscuous interactions and protein disaggregases determine the material state of stress-inducible RNP granules

TL;DR: It is proposed that the material state of RNP granules is flexible and that the solid state of yeast stressgranules is an adaptation to extreme environments, made possible by the presence of a powerful disaggregation machine.
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TL;DR: This review summarizes what has been learned from yeast prions and continues to lead the way in understanding cellular control of prion propagation, prion structure, mechanisms of de novo prion formation, specificity ofPrion transmission, and the biological roles of prions.
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Amyloid-like Self-Assembly of a Cellular Compartment

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Molecular chaperones and stress-inducible protein-sorting factors coordinate the spatiotemporal distribution of protein aggregates

TL;DR: Protein sequestration during acute stress is a cellular strategy that adjusts the flux of misfolded proteins to the capacities of the protein quality control system.
References
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Journal ArticleDOI

Protein Misfolding, Functional Amyloid, and Human Disease

TL;DR: The relative importance of the common main-chain and side-chain interactions in determining the propensities of proteins to aggregate is discussed and some of the evidence that the oligomeric fibril precursors are the primary origins of pathological behavior is described.
Journal ArticleDOI

Aggresomes: A Cellular Response to Misfolded Proteins

TL;DR: The intracellular fate of cystic fibrosis transmembrane conductance regulator (CFTR) is investigated and it is demonstrated that undegraded CFTR molecules accumulate at a distinct pericentriolar structure which is termed the aggresome.
Journal ArticleDOI

Huntingtin-Encoded Polyglutamine Expansions Form Amyloid-like Protein Aggregates In Vitro and In Vivo

TL;DR: In this study, it is shown that the proteolytic cleavage of a GST-huntingtin fusion protein leads to the formation of insoluble high molecular weight protein aggregates only when the polyglutamine expansion is in the pathogenic range.
Journal ArticleDOI

[URE3] as an altered URE2 protein: evidence for a prion analog in Saccharomyces cerevisiae.

TL;DR: The genetic evidence presented here suggests that protein-based inheritance, involving a protein unrelated to the mammalian prion protein, can occur in a microorganism.
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