RST1 and RIPR connect the cytosolic RNA exosome to the Ski complex in Arabidopsis

• Published in: Nature communications 2019-08, Vol.10 (1), p.3871-12, Article 3871
• Main Authors: Lange, Heike, Ndecky, Simon Y. A., Gomez-Diaz, Carlos, Pflieger, David, Butel, Nicolas, Zumsteg, Julie, Kuhn, Lauriane, Piermaria, Christina, Chicher, Johana, Christie, Michael, Karaaslan, Ezgi S., Lang, Patricia L. M., Weigel, Detlef, Vaucheret, Hervé, Hammann, Philippe, Gagliardi, Dominique
• Format: Article
• Language: English
• Subjects: 38; 38/39; 631/337/1645/1769; 631/337/1645/2020; 631/337/384/2053; 631/449/1659; 82/58; Arabidopsis; Arabidopsis - physiology; Arabidopsis Proteins - genetics; Arabidopsis Proteins - metabolism; Biosynthesis; Carbon-Carbon Lyases - genetics; Cytosol - metabolism; Exosome Multienzyme Ribonuclease Complex - metabolism; Exosomes - metabolism; Gene silencing; Genotype & phenotype; Homology; Humanities and Social Sciences; Intracellular Signaling Peptides and Proteins - genetics; Intracellular Signaling Peptides and Proteins - metabolism; Mass Spectrometry; Membrane Proteins - genetics; Membrane Proteins - metabolism; multidisciplinary; Mutants; Plants, Genetically Modified; Post-transcription; Protein Binding - physiology; Protein purification; Proteins; Quality control; Ribonucleic acid; RNA; RNA Interference - physiology; RNA Stability - physiology; RNA, Messenger - metabolism; RNA, Small Interfering - metabolism; Science; Science (multidisciplinary); Scientific imaging; siRNA; Ski protein; Structure-function relationships; Yeast
• ISSN: 2041-1723; 2041-1723
• DOI: 10.1038/s41467-019-11807-4

The RNA exosome is a key 3’−5’ exoribonuclease with an evolutionarily conserved structure and function. Its cytosolic functions require the co-factors SKI7 and the Ski complex. Here we demonstrate by co-purification experiments that the ARM-repeat protein RESURRECTION1 (RST1) and RST1 INTERACTING PROTEIN (RIPR) connect the cytosolic Arabidopsis RNA exosome to the Ski complex. rst1 and ripr mutants accumulate RNA quality control siRNAs (rqc-siRNAs) produced by the post-transcriptional gene silencing (PTGS) machinery when mRNA degradation is compromised. The small RNA populations observed in rst1 and ripr mutants are also detected in mutants lacking the RRP45B/CER7 core exosome subunit. Thus, molecular and genetic evidence supports a physical and functional link between RST1, RIPR and the RNA exosome. Our data reveal the existence of additional cytosolic exosome co-factors besides the known Ski subunits. RST1 is not restricted to plants, as homologues with a similar domain architecture but unknown function exist in animals, including humans. Cytosolic RNA degradation by the RNA exosome requires the Ski complex. Here the authors show that the proteins RST1 and RIPR assist the RNA exosome and the Ski complex in RNA degradation, thereby preventing the production of secondary siRNAs from endogenous mRNAs.