title: Long open reading frame transcripts escape nonsense-mediated mRNA decay in yeast.
abstract: Nonsense-mediated mRNA decay (NMD) destabilizes eukaryotic transcripts with long 3' UTRs. To investigate whether other transcript features affect NMD, we generated yeast strains expressing chromosomal-derived mRNAs with 979 different promoter and open reading frame (ORF) regions and with the same long, destabilizing 3' UTR. We developed a barcode-based DNA microarray strategy to compare the levels of each reporter mRNA in strains with or without active NMD. The size of the coding region had a significant negative effect on NMD efficiency. This effect was not specific to the tested 3' UTR because two other different NMD reporters became less sensitive to NMD when ORF length was increased. Inefficient NMD was not due to a lack of association of Upf1 to long ORF transcripts. In conclusion, in addition to a long 3' UTR, short translation length is an important feature of NMD substrates in yeast.
authors: Génétique des Interactions Macromoléculaires, Institut Pasteur, CNRS UMR3525, 25-28 rue du docteur Roux, 75015 Paris, France.
authors: Laurence
authors: L
authors: Decourty
authors: Génétique des Interactions Macromoléculaires, Institut Pasteur, CNRS UMR3525, 25-28 rue du docteur Roux, 75015 Paris, France.
authors: Antonia
authors: A
authors: Doyen
authors: Génétique des Interactions Macromoléculaires, Institut Pasteur, CNRS UMR3525, 25-28 rue du docteur Roux, 75015 Paris, France.
authors: Christophe
authors: C
authors: Malabat
authors: Production de Protéines Recombinantes et d'Anticorps (PF5), Institut Pasteur, 25-28 rue du docteur Roux, 75015 Paris, France.
authors: Emmanuel
authors: E
authors: Frachon
authors: Equipe Labellisée La Ligue, Institut de Génétique et de Biologie Moléculaire et Cellulaire (IGBMC), INSERM U964/CNRS UMR 7104/Université de Strasbourg, 67404 Illkirch, France.
authors: Delphine
authors: D
authors: Rispal
authors: Equipe Labellisée La Ligue, Institut de Génétique et de Biologie Moléculaire et Cellulaire (IGBMC), INSERM U964/CNRS UMR 7104/Université de Strasbourg, 67404 Illkirch, France.
authors: Bertrand
authors: B
authors: Séraphin
authors: Génétique des Interactions Macromoléculaires, Institut Pasteur, CNRS UMR3525, 25-28 rue du docteur Roux, 75015 Paris, France.
authors: Frank
authors: F
authors: Feuerbach
authors: Génétique des Interactions Macromoléculaires, Institut Pasteur, CNRS UMR3525, 25-28 rue du docteur Roux, 75015 Paris, France. Electronic address: alain.jacquier@pasteur.fr.
authors: Alain
authors: A
authors: Jacquier
authors: Génétique des Interactions Macromoléculaires, Institut Pasteur, CNRS UMR3525, 25-28 rue du docteur Roux, 75015 Paris, France. Electronic address: cosmin.saveanu@pasteur.fr.
authors: Cosmin
authors: C
authors: Saveanu
mesh_terms: D020413:3' Untranslated Regions; D015966:Gene Expression Regulation, Fungal; D059365:Nonsense Mediated mRNA Decay; D016366:Open Reading Frames; D020365:RNA Helicases / Q000235:genetics / Q000378:metabolism; D012333:RNA, Messenger / Q000235:genetics / Q000378:metabolism; D012441:Saccharomyces cerevisiae / Q000235:genetics / Q000378:metabolism*; D029701:Saccharomyces cerevisiae Proteins / Q000235:genetics / Q000378:metabolism
chemical_list: D020413:3' Untranslated Regions; D012333:RNA, Messenger; D029701:Saccharomyces cerevisiae Proteins; C074151:NAM7 protein, S cerevisiae; D020365:RNA Helicases