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Covers the nonsense-mediated mRNA decay (NMD) or mRNA surveillance pathway

Table of Contents

Three-hybrid analysis to study RNA decay
S. cerevisiae (i.e, G18 insertions, mutations in nucleases…)
Defining degradative activities in Drosophila melanogaster
Defining degradative activities in plants
RT-PCR product sequencing of mRNA decay intermediates in mammalian cells after decapping and circularization in vitro
Tethering Assays
Assays of poly(A) tail length (PAT assay, specific oligo-dT anchors…) and polarity of mRNA decay (Invader Assay)
In vivo crosslinking-coupled affinity purification of mRNAs for decay analysis (Streptavidin, biotin…)
Classification of ribonucleases by computational analyses
Analysis of P bodies in Saccharomyces cerevisiae
Analysis of stress granules and P bodies in mammalian cells, including neurons PMR1-mediated mRNA decay
No-go mRNA in Saccharomyces cerevisiae
mRNA decay mediated by decay factor adaptors (SLBP, PUF, Staufen1…)
Non-stop decay in Saccharomyces cerevisiae
Measuring ARE-mediated mRNA decay in cells
Measuring ARE-mediated mRNA decay in animals
Methods to study viral-mediated influences on mRNA decay
Measuring Saccharomyces cerevisiae mitochondrial mRNA half-life
Measuring mRNA decay in Arabidopsis mitochondria
Measuring mRNA decay in human mitochondria
Measuring mRNA decay in chloroplasts
• Nonsense-Mediated mRNA Decay (how do you study NMD, what defines an
In Saccharomyces cerevisiae
In Drosophila melanogaster
In Caenorhabditis elegans
In plants
In mammals
• Analysis of Nuclear RNA Decay
Measuring nuclear RNA decay in Saccharomyces cerevisiae (includes pre-mRNA, mRNA, rRNA, TRAMP complex…)
Measuring nuclear RNA decay in mammals
• tRNA Decay
Decay of improperly modified tRNA decay in Sacharomyces cerevisiae
• rRNA Decay
Decay of nonfunctional rRNA in Sacharomyces cerevisiae
• RNAi-Mediated mRNA Decay
Defining RNAi targets (e.g., Ago knockdowns, identifying complementary siRNA/miRNA…)
Studying miRNAs in unicellular organisms (Chlamydamones reinhardtii) Studying miRNAs in unicellular organisms: RNAi-dependent mRNA turnover in fission yeast:
Assays for microRNA-mediated mRNA decay in Caenhorabditis elegans
Analyses of microRNA function in zebra fish
Targeted deletion of cell-type specific microRNAs in mice for developmental studies

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