Publications

The center has just started. New publications from the center will be added continuously. See previous relevant publications under the individual group leaders.

 

  • van den Heuvel D, Rodríguez-Martínez M, van der Meer PJ, Nieto Moreno N, Park J, Kim HS, van Schie JJM, Wondergem AP, D'Souza A, Yakoub G, Herlihy AE, Kashyap K, Boissière T, Walker J, Mitter R, Apelt K, de Lint K, Kirdök I, Ljungman M, Wolthuis RMF, Cramer P, Schärer OD, Kokic G, Svejstrup JQ, Luijsterburg MS. STK19 facilitates the clearance of lesion-stalled RNAPII during transcription-coupled DNA repair. Cell. 2024 Nov 11:S0092-8674(24)01200-5.

  • Blears D, Lou J, Fong N, Mitter R, Sheridan RM, He D, Dirac-Svejstrup AB, Bentley D, Svejstrup JQ, Redundant pathways for removal of defective RNA polymerase II complexes at a promoter-proximal pause checkpoint. Mol Cell. 2024 Oct 30:S1097-2765(24)00835-9

  • Han Z, Svejstrup JQ, Protocol to detect spontaneous termination of yeast RNAPII transcription in vitro.
    STAR Protoc. 2024 Oct 10;5(4):103369. 

  • Liu JCY, Ackermann L, Hoffmann S, Gál Z, Hendriks IA, Jain C, Morlot L, Tatham MH, McLelland GL, Hay RT, Nielsen ML, Brummelkamp T, Haahr P, Mailand N; Concerted SUMO-targeted ubiquitin ligase activities of TOPORS and RNF4 are essential for stress management and cell proliferation. Nat Struct Mol Biol. 2024 Sep;31(9):1355-1367.

  • Fábián Z, Kakulidis ES, Hendriks IA, Kühbacher U, Larsen NB, Oliva-Santiago M, Wang J, Leng X, Dirac-Svejstrup AB, Svejstrup JQ, Nielsen ML, Caldecott K, Duxin JP, PARP1-dependent DNA-protein crosslink repair. Nat Commun. 2024 Aug 5;15(1):6641
  • Lopez Martinez D, Svejstrup JQ, Mechanisms of RNA Polymerase II Termination at the 3'-End of Genes. J Mol Biol. 2024 Aug 2:168735
  • Lafuente-Barquero J, Svejstrup JQ, Luna R, Aguilera A, Expression of human RECQL5 in Saccharomyces cerevisiae causes transcription defects and transcription-associated genome instability. Mol Genet Genomics. 2024 May 26;299(1):59

  • Liu JCY, Ackermann L, Hoffmann S, Gál Z, Hendriks IA, Jain C, Morlot L, Tatham MH, McLelland GL, Hay RT, Nielsen ML, Brummelkamp T, Haahr P, Mailand N. Concerted SUMO-targeted ubiquitin ligase activities of TOPORS and RNF4 are essential for stress management and cell proliferation. N.Nat Struct Mol Biol. 2024 Apr 22.

  • Xi J, Snieckute G, Martínez JF, Arendrup FSW, Asthana A, Gaughan C, Lund AH, Bekker-Jensen S, Silverman RH
    Initiation of a ZAKα-dependent ribotoxic stress response by the innate immunity endoribonuclease RNase L. Cell Rep. 2024 Mar 28;43(4):113998.

  • Rozario P, Pinilla M, Gorse L, Vind AC, Robinson KS, Toh GA, Firdaus MJ, Martínez JF, Kerk SK, Lin Z, Chambers JC, Bekker-Jensen S, Meunier E, Zhong F. Mechanistic basis for potassium efflux-driven activation of the human NLRP1 inflammasome. Proc Natl Acad Sci U S A. 2024 Jan 9;121(2):e2309579121.

  • Snieckute G, Ryder L, Vind AC, Wu Z, Arendrup FS, Stoneley M, Chamois S, Martinez-Val A, Leleu M, Dreos R, Russell A, Gay DM, Genzor AV, Choi BS, Basse AL, Sass F, Dall M, Dollet LCM, Blasius M, Willis AE, Lund AH, Treebak JT, Olsen JV, Poulsen SS, Pownall ME, Jensen BAH, Clemmensen C, Gerhart-Hines Z, Gatfield D, Bekker-Jensen S. ROS-induced ribosome impairment underlies ZAKα-mediated metabolic decline in obesity and aging. Science. 2023 Dec 8;382(6675):eadf3208
  • Xi J, Snieckute G, Asthana A, Gaughan C, Bekker-Jensen S, Silverman RH. Initiation of a ZAKα-dependent Ribotoxic Stress Response by the Innate Immunity Endoribonuclease RNase L. bioRxiv. 2023 Oct 12:2023.10.12.562082
  • Han Z, Moore GA, Mitter R, Lopez Martinez D, Wan L, Dirac Svejstrup AB, Rueda DS, Svejstrup JQ. DNA-directed termination of RNA polymerase II transcription. Mol Cell. 2023 Sep 21;83(18):3253-3267.e7.
  • Ryder L, Arendrup FS, Martínez JF, Snieckute G, Pecorari C, Shah RA, Lund AH, Blasius M, Bekker-Jensen S.Nitric oxide-induced ribosome collision activates ribosomal surveillance mechanisms. Cell Death Dis. 2023 Jul 26;14(7):467
  • Nieto Moreno N, Olthof AM, Svejstrup JQ. Transcription-Coupled Nucleotide Excision Repair and the Transcriptional Response to UV-Induced DNA Damage. Annu Rev Biochem. 2023 Jun 20;92:81-113.

 

Previous relevant publications

 

  • Tufegdzic Vidakovic, A., Mitter, R., Kelly, G., Neumann, M., Harreman, M., Rodriguez Martinez, M., Herlihy, A., Weems, J.C., Boeing, S., Encheva, V., Gaul, L., Milligan, L., Tollervey, D., Conaway, R.C., Conaway, J.W., Snijders, A.P., Stewart, A., and Svejstrup, J.Q. (2020). A single RNA polymerase II ubiquitylation site coordinates transcription with the DNA damage response. Cell, 180, 1245-1261.
  • Dirac-Svejstrup, A.B., Walker, J., Faull, P., Encheva, V., Akimov, V., Puglia, M., Perkins, D. Kümper, S. Hunjan, S.S., , Blagoev, B., Snijders, A.P., Powell, D.J., and Svejstrup, J.Q. (2020). DDI2 is a ubiquitin-directed endoprotease, responsible for cleavage of transcription factor NRF1. Molecular Cell 79, 332-341.E7.
  • Gregersen, L.H., Mitter, R., Ugalde, A.P., Nojima, T., Proudfoot, N. J., Agami, R., Stewart, A., and Svejstrup, J.Q. (2019). SCAF4 and SCAF8, mRNA Anti-Terminator Proteins. Cell 177, 1797–1813.
  • Williamson, L., Saponaro, P., Boeing, S., East, P., Mitter, R., Kantidakis, T., Kelly, G. P., Lobley, A., Walker, J., Spencer-Dene, B., Howell, M., Stewart, A., and Svejstrup, J. Q. (2017). UV Irradiation Induces a Non-coding RNA that Functionally Opposes the Protein Encoded by the Same Gene. Cell 168, 843–855.
  • Kantidakis, T., Saponaro, M., Mitter, R., Horswell, S., Kranz, A., Boeing, S. Aygün, O., Kelly, G. P., Matthews, N., Stewart, A., Stewart, A. F., and Svejstrup, J. Q. (2016). Mutation of Cancer Driver MLL2 Results in Transcription Stress and Genome Instability. Genes and Development 30, 408–420.
  • Saponaro, M., Kantidakis, T., Mitter, R., Kelly, G.P., Heron, M., Williams, H., Söding, J., Stewart, A., and Svejstrup, J.Q. (2014). RECQL5 controls transcript elongation and suppresses genome instability associated with transcription stress. Cell 157, 1037-1049.
  • Wilson, M.D., Harreman, M., Taschner, M. Reid, J., Walker, J., Erdjument-Bromage, H., Tempst, P., and Svejstrup, J.Q. (2013). Proteasome-mediated processing of Def1, a critical step in the cellular response to transcription stress. Cell 154, 983–995.
  • Ehrensberger, A. H., Kelly, G. P., and Svejstrup, J. Q. (2013). Mechanistic Interpretation of Promoter-Proximal Peaks and General RNAPII Density Maps. Cell 154, 713-715.

 

 

 

 

  • Hansen RK, Mund A, Poulsen SL, Klement K, Räschle M, Romero RS, Offermanns S, Worzfeld T, Grosse R, Brandt DT, Rozell B, Mann M, Goodarzi AG, Daniel J, Mailand N, Bekker‐Jensen S. (2016) SCAI promotes DNA double-strand break repair in distinct chromosomal contexts. Nature cell biology. 2016 Dec;18(12):1357-1366.

  • Tollenaere MAX, Villumsen BH, Blasius M, Nielsen JC, Wagner SA, Bartek J, Beli P, Mailand N, Bekker‐Jensen S. (2015) p38‐ and MK2‐dependent signalling promotes stress‐induced centriolar satellite remodelling via 14‐3‐3‐dependent sequestration of CEP131/AZI1. Nature communications. Nov 30;6:10075.

  • Thorslund T, Ripplinger A, Hoffmann S, Wild T, Uckelmann M, Villumsen B, Narita T, Sixma TK, Choudhary C, Bekker-Jensen S*, Mailand N. (2015) Histone H1 couples initiation and amplification of ubiquitin signalling after DNA damage. Nature. Nov 19;527(7578):389-93.

  • Räschle M, Smeenk G, Hansen RK, Temu T, Oka Y, Hein MY, Nagaraj N, Long DT, Walter JC, Hofmann K, Storchova Z, Cox J, Bekker-Jensen S*, Mailand N*, Mann M*. (2015) Proteomics reveals dynamic assembly of repair complexes during bypass of DNA cross-links. Science. May 1;348(6234):1253671

  • Tollenaere MA, Mailand N, Bekker-Jensen S. (2015) Centriolar satellites: key mediators of centrosome functions. Cellular and molecular life sciences. Jan;72(1):11-23

  • Villumsen BH, Danielsen JR, Povlsen L, Sylvestersen KB, Merdes A, Beli P, Yang YG, Choudhary C, Nielsen ML, Mailand N, Bekker-Jensen S. (2013) A new cellular stress response that triggers centriolar satellite reorganization and ciliogenesis. EMBO journal. Nov 27;32(23):3029-40.

  • Mailand N, Gibbs-Seymour I, Bekker-Jensen S. (2013) Regulation of PCNA-protein interactions for genome stability. Nature reviews molecular and cellular biology. May;14(5):269-82.

  • Bekker-Jensen S., Danielsen JR., Fugger K., Gromova I., Nerstedt A., Bartek J., Lukas J. and Mailand N. (2010). HERC2 coordinates assembly of genome caretakers on damaged chromosomes. Nature cell biology. Jan;12(1):80-6.

  • Doil C., Mailand N., Bekker-Jensen S., Menard P., Larsen D., Pepperkok R., Ellenberg J., Panier S., Durocher D., Bartek J., Lukas J. and Lukas C. (2009). RNF168 binds ubiquitin and couples RNF8 recruitment with assembly of repair proteins on damaged chromosomes. Cell. Feb 6;136(3):435-46.

  • Mailand N.*, Bekker-Jensen S.*, Melander F., Faustrup H., Bartek J., Lukas C. and Lukas J. (2007). RNF8 ubiquitylates histones at DNA double-strand breaks and promotes assembly of repair proteins. Cell. Nov 30;131(5):887-900.

  • Bekker-Jensen, S., Lukas, C., Kitagawa, R., Melander, F., Kastan, M.B., Bartek, J., and Lukas, J. (2006). Spatial organization of the mammalian genome surveillance machinery in response to DNA strand breaks. Journal of cell biology. Apr 24;173(2):195-206.

  • Bekker-Jensen, S., Lukas, C., Melander, F., Bartek, J., and Lukas, J. (2005). Dynamic assembly and sustained retention of 53BP1 at the sites of DNA damage are controlled by Mdc1/NFBD1. Journal of cell biology. Jul 18;170(2):201-11.