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The yeast Rat1 exonuclease promotes transcription termination by RNA polymerase II

Author

Listed:
  • Minkyu Kim

    (Harvard Medical School)

  • Nevan J. Krogan

    (University of Toronto)

  • Lidia Vasiljeva

    (Harvard Medical School)

  • Oliver J. Rando

    (Harvard University)

  • Eduard Nedea

    (University of Toronto)

  • Jack F. Greenblatt

    (University of Toronto)

  • Stephen Buratowski

    (Harvard Medical School)

Abstract

The carboxy-terminal domain (CTD) of the RNA polymerase II (RNApII) largest subunit consists of multiple heptapeptide repeats with the consensus sequence YSPTSPS. Different CTD phosphorylation patterns act as recognition sites for the binding of various messenger RNA processing factors, thereby coupling transcription and mRNA processing1. Polyadenylation factors are co-transcriptionally recruited by phosphorylation of CTD serine 2 (ref. 2) and these factors are also required for transcription termination3,4. RNApII transcribes past the poly(A) site, the RNA is cleaved by the polyadenylation machinery, and the RNA downstream of the cleavage site is degraded. Here we show that Rtt103 and the Rat1/Rai1 5′ → 3′ exonuclease are localized at 3′ ends of protein coding genes. In rat1-1 or rai1Δ cells, RNA 3′ to polyadenylation sites is greatly stabilized and termination defects are seen at many genes. These findings support a model in which poly(A) site cleavage and subsequent degradation of the 3′-downstream RNA by Rat1 trigger transcription termination5,6.

Suggested Citation

  • Minkyu Kim & Nevan J. Krogan & Lidia Vasiljeva & Oliver J. Rando & Eduard Nedea & Jack F. Greenblatt & Stephen Buratowski, 2004. "The yeast Rat1 exonuclease promotes transcription termination by RNA polymerase II," Nature, Nature, vol. 432(7016), pages 517-522, November.
    • Handle: RePEc:nat:nature:v:432:y:2004:i:7016:d:10.1038_nature03041
    DOI: 10.1038/nature03041
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    Cited by:

    1. Ebru Aydin & Silke Schreiner & Jacqueline Böhme & Birte Keil & Jan Weber & Bojan Žunar & Timo Glatter & Cornelia Kilchert, 2024. "DEAD-box ATPase Dbp2 is the key enzyme in an mRNP assembly checkpoint at the 3’-end of genes and involved in the recycling of cleavage factors," Nature Communications, Nature, vol. 15(1), pages 1-20, December.
    2. Krishanpal Anamika & Àkos Gyenis & Laetitia Poidevin & Olivier Poch & Làszlò Tora, 2012. "RNA Polymerase II Pausing Downstream of Core Histone Genes Is Different from Genes Producing Polyadenylated Transcripts," PLOS ONE, Public Library of Science, vol. 7(6), pages 1-14, June.
    3. Konstantin Axt & Sarah L French & Ann L Beyer & David Tollervey, 2014. "Kinetic Analysis Demonstrates a Requirement for the Rat1 Exonuclease in Cotranscriptional Pre-rRNA Cleavage," PLOS ONE, Public Library of Science, vol. 9(2), pages 1-11, February.
    4. Tatsuo Yanagisawa & Yuko Murayama & Haruhiko Ehara & Mie Goto & Mari Aoki & Shun-ichi Sekine, 2024. "Structural basis of eukaryotic transcription termination by the Rat1 exonuclease complex," Nature Communications, Nature, vol. 15(1), pages 1-12, December.
    5. Ying Xiong & Weijing Han & Chunhua Xu & Jing Shi & Lisha Wang & Taoli Jin & Qi Jia & Ying Lu & Shuxin Hu & Shuo-Xing Dou & Wei Lin & Terence R. Strick & Shuang Wang & Ming Li, 2024. "Single-molecule reconstruction of eukaryotic factor-dependent transcription termination," Nature Communications, Nature, vol. 15(1), pages 1-12, December.

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