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A High Resolution Profile of NMD Substrates in Yeast

ABSTRACT: We report a high resolution catalouge of NMD substrates using RNA-Seq. We discovered several hundred new substrates for NMD. Using published ribosome footprint profiling data, we measured ribosome densities of normal-looking NMD substrates and non-NMD substrates. NMD substrates exhibited a striking difference in normalized ribosome occupancy in wild-type and UPF1 cells. We also found that normal looking NMD substrates have higher ratio of out of frame reads, lower codon optimalites and a higher propensity to have long stretches of non-optimal codons.

ORGANISM(S): Saccharomyces cerevisiae

PROVIDER: GSE86428 | GEO | 2016/12/02

SECONDARY ACCESSION(S): PRJNA341846

REPOSITORIES: GEO

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