RNA quality control articles within Nature Communications

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  • Article
    | Open Access

    Dynamic RNA-protein interactions govern the co-transcriptional packaging of RNA polymerase II derived transcripts. Here the authors use temporal-iCLIP which combines transcriptional synchronisation with UV cross-linking of RNA-protein complexes to reveal dynamic RNA-protein interactions during the early phases of transcription and beyond.

    • Ross A. Cordiner
    • , Yuhui Dou
    •  & Torben Heick Jensen

  • Article
    | Open Access

    The PNUTS-PP1 complex directly binds to RNA, and interacts with polymerase II and RNA processing factors to control transcriptional elongation rates and slow polymerase II after polyadenylation sites to promote termination. Using a genome-wide CRISPR screen, Devlin et al. identify this complex as a critical suppressor of herpesvirus KSHV gene expression. They further provide evidence that PNUTS-PP1 controls elongation both downstream and upstream of polyadenylation sites on specific viral genes.

    • Anne M. Devlin
    • , Ashutosh Shukla
    •  & Nicholas K. Conrad

  • Article
    | Open Access

    The W1282X nonsense mutation in the CFTR gene causes cystic fibrosis by reducing its mRNA and functional protein levels. Here the authors developed antisense-oligonucleotide cocktails that restore CFTR protein function by gene-specific stabilization of CFTR mRNA.

    • Young Jin Kim
    • , Tomoki Nomakuchi
    •  & Adrian R. Krainer

  • Article
    | Open Access

    Here the author developed a single-cell reporter system to identify cell-to-cell variability of nonsense-mediated mRNA decay (NMD). This approach provides a sensitive tool to investigate cellular heterogeneity of NMD in various physiological conditions.

    • Hanae Sato
    •  & Robert H. Singer

  • Article
    | Open Access

    Degradation of nonsense mediated mRNA decay (NMD) substrates is carried out by two seemingly independent pathways, SMG6-mediated endonucleolytic cleavage and/or SMG5-SMG7-induced accelerated deadenylation. Here the authors show that SMG5-SMG7 maintain NMD activity by permitting SMG6 activation.

    • Volker Boehm
    • , Sabrina Kueckelmann
    •  & Niels H. Gehring

  • Article
    | Open Access

    The correct assembly and recycling of the multicomponent spliceosome remains largely elusive. Here, the authors show that a previously uncharacterized protein TSSC4 associates with de novo formed spliceosomal U5 snRNP as well as with a post-splicing U5-PRPF19 particle, and that TSSC4 is important for assembly of the splicing competent tri-snRNP.

    • Klára Klimešová
    • , Jitka Vojáčková
    •  & David Staněk

  • Article
    | Open Access

    In the No-Go decay mRNA surveillance pathway, mRNAs containing stalled ribosomes are cleaved by an endoribonuclease. Here the authors show the endonucleolytic cleavage on the artificial No-Go decay target mRNAs, revealing downstream decay process by Trl1 kinase and the 5′ to 3′ exonuclease Dxo1.

    • Albertas Navickas
    • , Sébastien Chamois
    •  & Lionel Benard

  • Article
    | Open Access

    The mRNA-surveillance pathway of no-go decay (NGD) is a eukaryotic ribosome-based-quality-control process that targets transcripts that stall the ribosome. Here the authors show no-go decay (NGD) and ribosome-quality control (RQC) pathways are activated by mRNAs damaged by alkylation and oxidation stress.

    • Liewei L. Yan
    • , Carrie L. Simms
    •  & Hani S. Zaher

  • Article
    | Open Access

    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.

    • Heike Lange
    • , Simon Y. A. Ndecky
    •  & Dominique Gagliardi

  • Article
    | Open Access

    Nonsense-mediated mRNA decay (NMD) is a quality control pathway that recognizes and degrades transcripts harbouring nonsense mutations. Here the authors show that the ATPase activity of UPF1 mediates functional interactions between the NMD machinery and ribosomes required for efficient ribosome release at premature termination codons.

    • Lucas D. Serdar
    • , DaJuan L. Whiteside
    •  & Kristian E. Baker

  • Article
    | Open Access

    mRNA surveillance is essential to maintain homeostasis in eukaryotes and is activated by mRNAs lacking a stop codon. Here the authors describe a high resolution cryo-EM structure of a nonstop complex that shows how arrested ribosome recognition is achieved during Dom34-mediated mRNA surveillance.

    • Tarek Hilal
    • , Hiroshi Yamamoto
    •  & Christian M.T. Spahn

  • Article
    | Open Access

    Degradation of messenger RNA is a key regulatory step in controlling eukaryotic gene expression. Here the authors present xrFrag, a molecular tool to interrogate the extent and directionality of mRNA turnover by the detection of stabilized decay intermediates produced by several common decay pathways.

    • Volker Boehm
    • , Jennifer V. Gerbracht
    •  & Niels H. Gehring

  • Article
    | Open Access

    Gene expression is regulated by a range of mechanisms, including post-translational modifications such as phosphorylation. Here the authors present evidence for a feedback mechanism whereby hyperphosphorylation of UPF1 in response to delays in nonsense-mediated decay enhances recruitment of mRNA decay machinery.

    • Sébastien Durand
    • , Tobias M. Franks
    •  & Jens Lykke-Andersen

  • Article |

    In eukaryotic cells, export of unprocessed pre-mRNAs is prevented by the nuclear surveillance machinery. Here Hackmann et al.identify the SR proteins Gbp2 and Hrb1 as two novel quality control factors for spliced mRNAs that determine their degradation or nuclear export.

    • Alexandra Hackmann
    • , Haijia Wu
    •  & Heike Krebber

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