Eukaryotic RNA metabolism

P.I.

Prof. Dr. hab. Joanna Kufel

 Team

Ph.D. students

  • mgr Agnieszka Czarnocka-Cieciura
  • mgr Sebastian Jeleń
  • mgr Aleksandra Kwaśnik
  • mgr Anna Miścicka
  • mgr Monika Stępien
  • mgr Aleksandra Sulkowska
  • mgr Sylwia Szczepaniak
  • mgr Lounis Zenadi

M.Sc. students

  • Aleksandra Głowacka
  • Katarzyna Grabowska
  • Alicja Smoleń

Technicians

  • Aleksandra Śliwa

Research

The group was established in 2003 thanks to the Wellcome Trust Senior Fellowship in Biomedical Sciences for Central Europe. Our major activities are focused on different aspects of the synthesis and turnover of various classes of RNAs in two model organisms: Saccharomyces cerevisiae and Arabidopsis thaliana.

External website of the group

Sponsors

international

  • 2003-2008 Wellcome Trust Grant 067504/Z/02/Z (140-501/62/F-205) - principal inverstigator
  • 2006-2009 RIBOSYS FP6, EU, konsorcium
  • 2011-2016 Polish-Swiss Research Programme - principal investigator


national

  • 2009-2013 Foundation for Polish Science, TEAM programme
  • Ministry of Science and Higher Education, National Science Centre, principal investigator, projects founded in: 2008-2011, 2009-2012, 2011-2013, 2011-2014, 2013-2016, 2015-2018

Cooperation

  • Dr. Anita Marchfelder, University of Ulm, Germany
  • Prof. Artur Jarmołowski, Adam Mickiewicz University in Poznań, Poland
  • Prof. David Tollervey, University of Edinburgh, UK
  • Prof. Pamela Green, Delaware Institute of Biotechnology, USA
  • Prof. Jean Beggs, University of Edinburgh, UK
  • Dr. Eduard Bertrand, CNRS, Universite Montpellier, France
  • Dr. Dominique Gagliardi, CNRS, Strasbourg, France
  • Dr. Heike Lange, CNRS, Strasbourg, France
  • Prof.  Brendan Davies, University of Leeds, UK
  • Dr. Sander Granemman, University of Edinburgh, UK
  • Dr. Daniel Silhavy, Agricultural Biotechnology Institute, Hungary
  • Prof. Andrzej Dziembowski, Institute of Biochemistry and Biophysics Polish Academy of Sciences, Poland
  • Dr. Jacek Jemielity, University of Warsaw, CENT, Poland
  • Prof. Edward Darżynkiewicz, University of Warsaw, CENT, Poland

Selected publications

  • Sikorski PJ, Zuber H, Philippe L, Sement FM, Canaday J, Kufel J, Gagliardi D, Lange H. 2015. Distinct 18S rRNA precursors are targets of the exosome complex, the exoribonuclease RRP6L2 and the terminal nucleotidyl-transferase TRL in Arabidopsis thaliana. Plant J. 83: 991-1004
  • Skowronek E, Grzechnik P, Späth B, Marchfelder A, Kufel J. 2014. tRNA 3' processing in yeast involves tRNase Z, Rex1, and Rrp6. RNA. 2014 20(1): 115-130.
  • Kerényi F, Wawer I, Sikorski PJ, Kufel J, Silhavy D. 2013. Phosphorylation of the N- and C-terminal UPF1 domains plays a critical role in plant nonsense-mediated mRNA decay. Plant J. 76(5): 836-848.
  • Nyikó T, Kerényi F, Szabadkai L, Benkovics AH, Major P, Sonkoly B, Mérai Z, Barta E, Niemiec E, Kufel J, Silhavy D. 2013. Plant nonsense-mediated mRNA decay is controlled by different autoregulatory circuits and can be induced by an EJC-like complex. Nucleic Acids Res. 10.
  • Golisz A, Sikorski PJ, Kruszka K, Kufel J. 2013. Arabidopsis thaliana LSM proteins function in mRNA splicing and degradation. Nucleic Acids Res. 24.
  • Szczepaniak SA, Zuberek J, Darzynkiewicz E, Kufel J, Jemielity J. 2012. Affinity resins containing enzymatically resistant mRNA cap analogs -a new tool for the analysis of cap-binding proteins. RNA. 18(7): 1421-132.
  • Alexander RA, Barrass JD, Dichtl B, Kos M, Obtulowicz T, Robert M-C, Koper M, Karkusiewicz I, Mariconti L, Tollervey D, Dicht B, Kufel J, Bertrand E, Beggs JD. 2010. RiboSys, a quantitative approach to study gene expression in Saccharomyces cerevisiae. RNA. 16: 2570-2578.
  • Zakrzewska-Placzek M, Souret FF, Sobczyk GJ, Green PJ, Kufel J. 2010. Arabidopsis thaliana XRN2 is required for primary cleavage in the pre-ribosomal RNA. Nucleic Acids Res. 38(13): 4487-4502.
  • Mroczek S, Kufel J. 2008. Apoptotic signals induce specific degradation of ribosomal RNA in yeast. Nucleic Acids Res. 36(9): 2874-2888.
  • Grzechnik P, Kufel J. 2008. Polyadenylation linked to transcription termination directs the processing of snoRNA precursors in yeast. Mol Cell. 32(2): 247-258.
  • El Hage A, Koper M, Kufel J, Tollervey D. 2008. Efficient termination of transcription by RNA polymerase I requires the 5' exonuclease Rat1 in yeast. Genes Dev. 22(8): 1069-1081.
  • Houalla, R., Devaux, F., Fatica, A., Kufel J, Barrass, D., Torchet C, Tollervey D. 2006. Microarray detection of novel nuclear RNA substrates for the exosome.Yeast 23: 439-454.
  • Kufel J, Bousquet-Antonelli, C, Beggs JD, Tollervey D. 2004. Nuclear pre-mRNA decapping and 5' degradation in yeast require the Lsm2-8p complex. Mol. Cell. Biol. 24: 9646-9657.
  • Kufel J, Allmang C, Verdone L, Beggs J, Tollervey D. 2003. A complex pathway for 3' processing of the yeast U3 snoRNA. Nucl. Acids Res. 31: 6788-6797.
  • Kufel J, Allmang C, Petfalski E, Beggs J, Tollervey D. 2003. Lsm Proteins are required for normal processing and stability of ribosomal RNAs. J. Biol. Chem. 278: 2147-2156.
  • Bousquet-Antonelli C, Milligan L, Thompson E, Kufel J, Tollervey D. 2002. Processing of 3'-extended read-through transcripts by the exosome can generate functional mRNAs. Mol. Cell 9: 1285-1296.