Aufklärung der Ribosomen-Entstehung durch den Einsatz eines thermophilen Eukaryonten

• Applicant: Professor Dr. Eduard Christian Hurt
• Subject Area: Biochemistry
• Term: from 2011 to 2017
• Project identifier: Deutsche Forschungsgemeinschaft (DFG) - Project number 201179576

• Final Report Year: 2018

Final Report Abstract

After 6 years of experimental investigations within this Koselleck project, we could make substantial progress on every aspect of the Koselleck project initially described in the proposal. As anticipated, Chaetomium thermophilum ribosome biogenesis factors turned out to have in many aspects excellent properties for this type of research. Currently, many follow-up projects are going on in the laboratory, all based on findings derived from the Koselleck project.

Publications

• Structural basis for kinase-activity dependent placeholder role of Rio2 on the evolving pre-40S subunit. Nat. Struct. Mol. Biol. 19, 1316-1323 (2012)
  Sébastien Ferreira-Cerca, Vatsala Sagar, Thorsten Schäfer, Anne-Maria Wesseling, Eileen Chai, Ed Hurt and Nicole LaRonde-LeBlanc
  (See online at https://doi.org/10.1038/nsmb.2403)
• Synchronizing Nuclear Import of Ribosomal Proteins with Ribosome Assembly. Science 338, 666-671 (2012)
  Dieter Kressler, Gert Bange, Yutaka Ogawa, Dagmar Pratte, Bettina Bradatsch, Daniela Roser, Jun Katahira, Irmgard Sinning, and Ed Hurt
  (See online at https://doi.org/10.1126/science.1226960)
• Consistent mutational paths predict eukaryotic thermostability. BMC Evolutionary Biology 13:7 (2013)
  Vera van Noort, Bettina Bradatsch, Manimozhiyan Arumugam, Stefan Amlacher, Gerd Bange, Chris Creevey, Sebastien Falk, Daniel R. Mende,Irmgard Sinning, Ed Hurt and Peer Bork
  (See online at https://doi.org/10.1186/1471-2148-13-7)
• A network of assembly factors involved is involved in remodeling rRNA elements during pre-ribosome maturation. J. Cell Biol. 207, 481-98 (2014)
  Jochen Baßler, Helge Paternoga, Iris Holdermann, Matthias Thoms, Sander Granneman, Clara Barrio Garcia, Afua Nyarko, Gunther Stier, Sarah A. Clark, Daniel Schraivogel, Martina Kallas, Roland Beckmann, David Tollervey, Elisar Barbar, Irmi Sinning and Ed Hurt
  (See online at https://doi.org/10.1083/jcb.201408111)
• An integrated approach for genome annotation of the eukaryotic thermophile Chaetomium thermophilum. Nucl. Acid Res. (2014)
  Thomas Bock, Wei-Hua Chen, Alessandro Ori, Nayab Malik, Noella da Silva, Jaime Huerta Cepas, Sean Powell, Panagiotis Kastritis, Georgy Smyshlyae, Ivana Vonkova, Joanna Kirkpatrick, Tobias Doerks, Leo Nesme, Jochen Bassler, Martin Kos, Ed Hurt, Teresa Carlomagno, Anne-Claude Gavin, Orsolya Barabas, Christoph Müller, Vera van Noort, Martin Beck and Peer Bork
  (See online at https://doi.org/10.1093/nar/gku1147)
• Catalytic Rio1 kinase/ATPase mutant induces trapping of late pre-40S biogenesis factors in 80S-like ribosomes. Nucl. Acid Res. (2014)
  Sébastien Ferreira-Cerca, Irene Kiburu, Emma Thomson, Nicole Laronde-Leblanc and Ed Hurt
  (See online at https://doi.org/10.1093/nar/gku542)
• Construction of the central protuberance requires rotation of 5S RNP during 60S ribosome biogenesis. Nature Com. 5, 3491 (2014)
  Christoph Leidig, Matthias Thoms, Iris Holdermann, Bettina Bradatsch, Otto Berninghausen, Gert Bange, Irmgard Sinning, Ed Hurt and Roland Beckmann
  (See online at https://doi.org/10.1038/ncomms4491)
• Coupled GTPase and remodeling ATPase activities form a checkpoint for ribosome export. Nature 505, 112-116 (2014)
  Yoshihira Matsuo, Sander Granneman, Matthias Thoms, Rizos-Georgios Manikas, David Tollervey and Ed Hurt
  (See online at https://doi.org/10.1038/nature12731)
• Coordinated ribosomal L4 protein assembly into the pre-ribosome is regulated by its eukaryote-specific extension. Mol. Cell 58, 854-862 (2015)
  Philipp Stelter, Ferdinand Huber, Ruth Kunze, Dirk Flemming, André Hoelz and Ed Hurt
  (See online at https://doi.org/10.1016/j.molcel.2015.03.029)
• Cotranslational capturing of nascent ribosomal proteins by their dedicated chaperones. Nat. Comm. 6, 7494 (2015)
  Patrick Pausch Ujjwala Singh, Yasar Luqman Ahmed, Florian Altegoer, Gunter Stier, Matthias Thoms, Ed Hurt, Irmgard Sinning, Gert Bange and Dieter Kressler
  (See online at https://doi.org/10.1038/ncomms8494)
• Symportin 1 chaperones 5S RNP assembly during ribosome biogenesis by occupying an essential rRNA-binding site. Nature Com. 6:6510 (2015)
  Fabiola R. Calviño, Satyavati Kharde, A. Ori, Astrid Hendricks, Klemens Wild, Dieter Kressler, Gert Bange, Ed Hurt, Martin Beck and Irmgard Sinning
  (See online at https://doi.org/10.1038/ncomms7510)
• The exosome is recruited to RNA substrates through specific adapter proteins. Cell 162, 1029-1038 (2015)
  Matthias Thoms, Emma Thomson Jochen Baßler, Marén Gnädig, Sabine Griesel and Ed Hurt
  (See online at https://doi.org/10.1016/j.cell.2015.07.060)
• Architecture of the 90S pre-ribosome: a structural view on the birth of the eukaryotic ribosome. Cell 166, 380–393 (2016)
  Markus Kornprobst, Martin Turk, Nikola Kellner, Jing-Dong Cheng, Dirk Flemming, Martin Koš, Isabelle Koš, Matthias Thoms, Otto Berninghausen, Roland Beckmann and Ed Hurt
  (See online at https://doi.org/10.1016/j.cell.2016.06.014)
• Concerted removal of the Erb1-Ytm1 complex in ribosome biogenesis relies on an elaborate interface. Nucl. Acid Res. 44, 926-39 (2016)
  Matthias Thoms, Yasar Luqman Ahmed, Karthik Maddi, Ed Hurt and Irmgard Sinning
  (See online at https://doi.org/10.1093/nar/gkv1365)
• Developing genetic tools to exploit Chaetomium thermophilum for biochemical analyses of eukaryotic macromolecular assemblies Sci Rep. 6, 20937 (2016)
  Nikola Kellner, Johannes Schwarz, Miriam Sturm, Javier Fernandez-Martinez, Sabine Griesel, Wenzhu Zhang, Brian Chait, Michael P. Rout, Ulrich Kück and Ed Hurt
  (See online at https://doi.org/10.1038/srep20937)
• The K+-dependent GTPase Nug1 is implicated in the association of the helicase Dbp10 to the immature peptidyl transferase centre during ribosome maturation. Nucl Acid Res. 44, 1800-1812 (2016)
  George Manikas, Emma Thomson and Ed Hurt
  (See online at https://doi.org/10.1093/nar/gkw045)
• 3.2 Angström resolution structure of the 90S pre-ribosome before A1 pre-rRNA cleavage. Nat. Struct. Mol. Biol. (2017)
  Jingdong Cheng, Nikola Kellner, Otto Berninghausen, Ed Hurt and Roland Beckmann
  (See online at https://doi.org/10.1038/nsmb.3476)
• Interaction network of the ribosome assembly machinery from a eukaryotic thermophile. Protein Sci. 26, 327-342 (2017)
  Jochen Baßler, Yasar Luqman Ahmed, Martina Kallas, Markus Kornprobst, Fabiola Rodriguez-Calvino, Marén Gnädig, Matthias Thoms, Gunter Stier, Sherif Ismail, Satyavati Kharde, Nestor Castillo, Sabine Griesel, Sonja Bastuck, Bettina Bradatsch, Emma Thomson, Dirk Flemming, Irmi Sinning, Ed Hurt
  (See online at https://doi.org/10.1002/pro.3085)
• Interdependent action of KH domain proteins Krr1 and Dim2 drive the 40S platform assembly. Nat Commun. 20;8(1):2213 (2017)
  Miriam Sturm, Jingdong Cheng, Jochen Bassler, Roland Beckmann and Ed Hurt
  (See online at https://doi.org/10.1038/s41467-017-02199-4)
• Mpp10 represents a platform for the interaction of multiple factors from the 90S pre-ribosome. PLOS One 12 (2017)
  Bebiana Sá-Moura, Markus Kornprobst, Satyavati Kharde, Yasar Luqman Ahmed, Gunter Stier, Ruth Kunze, Irmgard Sinning and Ed Hurt
  (See online at https://doi.org/10.1371/journal.pone.0183272)
• Structural basis for 5’-ETS recognition by Utp4 at the early stages of ribosome biogenesis. PLOS One (2017)
  Fabiola R. Calviño, Markus Kornprobst, Géza Schermann, Fabienne Birkle, Gunter Stier, Klemens Wild, Ed Hurt, Yasar L. Ahmed and Irmgard Sinning
  (See online at https://doi.org/10.1371/journal.pone.0178752)
• Visualizing the Assembly Pathway of Nucleolar Pre-60S Ribosomes. Cell, 171(7):1599-1610.e14 (2017)
  Kater L, Thoms M, Barrio-Garcia C, Cheng J, Ismail S, Ahmed YL, Bange G, Kressler D, Berninghausen O, Sinning I, Hurt E, Beckmann R
  (See online at https://doi.org/10.1016/j.cell.2017.11.039)