Publications

2022

Kufel J., Diachenko N., Golisz A. (2022) Alternative splicing as a key player in the fine-tuning of the immunity response in Arabidopsis. Molecular Plant Pathology 23:1226-1238 doi:10.1111/mpp.13228

Krzyszton M, Kufel J (2022) Analysis of mRNA-derived siRNAs in mutants of mRNA maturation and surveillance pathways in Arabidopsis thaliana Sci Rep. 2022 Jan 27;12(1):1474. doi: 10.1038/s41598-022-05574-4.

2021

Golisz A, Krzyszton M, Stepien M, Dolata J, Piotrowska J, Szweykowska-Kulinska Z, Jarmolowski A, Kufel JM (2021)  Arabidopsis spliceosome factor SmD3 modulates immunity to Pseudomonas syringae infection Front Plant Sci. 3;12:765003.

2020

Doamekpor S , Gozdek A , Kwasnik A, Kufel J , Tong L (2020) A novel 5′-hydroxyl dinucleotide hydrolase activity for the DXO/Rai1 family of enzymes Nucleic Acids Res. 10;48(1):349-358.

Clerget G, Bourguignon-Igel V, Marmier-Gourrier N, Rolland N, Wacheul L, Manival X, Charron C, Kufel J, Méreau A, Senty-Ségault V, Tollervey D, L J Lafontaine D, Branlant C, Rederstorff M (2020) Synergistic defects in pre-rRNA processing from mutations in the U3-specific protein Rrp9 and U3 snoRNA Nucleic Acids Res. Apr 17;48(7):3848-3868

2019

Sulkowska A, Auber A, Sikorski PJ, Silhavy D, Auth M, Sitkiewicz E, Jean V, Merret R, Bousquet-Antonelli C, Kufel J (2019) RNA Helicases From the DEA(D/H)-box Family Contribute to Plant NMD Efficiency. Plant Cell Physiol 61, 144-157.

Monteuuis G, Miścicka A, Świrski M, Zenad L, Niemitalo O, Wrobel L, Alam J, Chacinska A, Kastaniotis AJ, Kufel J (2019) Non-canonical translation initiation in yeast generates a cryptic pool of mitochondrial proteins. Nucleic Acids Res 47, 5777-5791.

Kwasnik A, Wang VY, Krzyszton M, Gozdek A, Zakrzewska-Placzek M, Stepniak K, Poznanski J, Tong L, Kufel J (2019) Arabidopsis DXO1 links RNA turnover and chloroplast function independently of its enzymatic activity. Nucleic Acids Res 47, 4751-4764.

Kufel J, Grzechnik P (2019) Small Nucleolar RNAs Tell a Different Tale. Trends Genet 35, 104-117.

2018

Grzechnik P, Szczepaniak SA, Dhir S, Pastucha A, Parslow H, Matuszek Z, Mischo HE, Kufel J, Proudfoot NJ (2018) Nuclear fate of yeast snoRNA is determined by co-transcriptional Rnt1 cleavage. Nat Commun 9, 1783.

Wawer I, Golisz A, Sulkowska A, Kawa D, Kulik A, Kufel J (2018) mRNA Decapping and 5′-3′ Decay Contribute to the Regulation of ABA Signaling in Arabidopsis thaliana. Front Plant Sci 9, 312.

Krzyszton M, Zakrzewska-Placzek M, Kwasnik A, Dojer N, Karlowski W, Kufel J (2018) Defective XRN3-mediated transcription termination in Arabidopsis affects the expression of protein-coding genes. Plant J 93, 1017-1031.

2017

Tomecki R, Sikorski PJ, Zakrzewska-Placzek M (2017) Comparison of preribosomal RNA processing pathways in yeast, plant and human cells – focus of coordinated action of endo- and exoribonucleases. FEBS Lett. 591, 1801-1850.

2016

Wawiórka L, Molestak E, Szajwaj M, Michalec-Wawiórka B, Boguszewska B, Borkiewicz L, Liudkovska V, Kufel J, Tchórzewski M (2016) Functional analysis of the uL11 protein impact on translational machinery. Cell Cycle 15, 1060-1072.

Stirpe M, Palermo V, Ferrari M, Mroczek S, Kufel J, Falcone C, Mazzoni C (2016) Increased levels of RNA oxidation enhance the reversion frequency in aging pro-apoptotic yeast mutants. Apoptosis 22, 200-206.

2010 – 2015

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 20, 115-30.

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, 836-48.

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 41, 6715-28.

Golisz A, Sikorski PJ, Kruszka K, Kufel J (2013) Arabidopsis thaliana LSM proteins function in mRNA splicing and degradation. Nucleic Acids Res 41, 6232-49.

Krzyszton M, Zakrzewska-Placzek M, Koper M, Kufel J (2012) Rat1 and Xrn2: The diverse functions of  the nuclear Rat1/Xrn2 exonuclease. Enzymes 31, 131-63.

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, 1421-32.

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, 4487-502.

2002 – 2010

Mroczek S, Kufel J (2008) Apoptotic signals induce specific degradation of ribosomal RNA in yeast. Nucleic Acids Res 36, 2874-2888.

Grzechnik P, Kufel J (2008) Polyadenylation linked to transcription termination directs the processing of snoRNA precursors in yeast. Mol Cell 32, 247-58.

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, 1069-81.

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, 439-54.

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. Nucleic 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.