title: Chapter 6. Qualitative and quantitative assessment of the activity of the yeast nonsense-mediated mRNA decay pathway.
abstract: The yeast Saccharomyces cerevisiae provides an ideal model system for elucidation of the molecular mechanisms that regulate the nonsense-mediated mRNA decay (NMD) pathway. This chapter describes an array of molecular biological, genetic, and biochemical tools that facilitate the characterization of transcripts that comprise NMD substrates and provide insights into the roles of the upf/nmd proteins in mRNA decay and translation termination. Examples illustrate the use of these methods in wild-type and NMD-deficient cells to monitor the abundance, structure, and half-lives of nonsense-containing mRNAs, the read through of premature termination codons by the ribosome, and the positioning of ribosomes at or near normal and premature termination codons.
authors.affiliation: Department of Molecular Genetics and Microbiology, University of Massachusetts Medical School, Worcester, Massachusetts, USA.
authors.forename: Feng
authors.initials: F
authors.lastname: He
authors.forename: Nadia
authors.initials: N
authors.lastname: Amrani
authors.forename: Marcus J O
authors.initials: MJ
authors.lastname: Johansson
authors.forename: Allan
authors.initials: A
authors.lastname: Jacobson
mesh_terms: D018389:Codon, Nonsense / Q000235:genetics; D020871:RNA Stability / Q000235:genetics*; D012441:Saccharomyces cerevisiae / Q000235:genetics*; D015398:Signal Transduction / Q000235:genetics / Q000502:physiology
chemical_list: D018389:Codon, Nonsense