‘Events’

10 Jun – Talk by Christoph Kreutz

Christoph Kreutz, Leopold Franzens Universität Innsbruck, gives a talk titled “Advanced stable isotope labeling methods for RNA NMR spectroscopy“.

Wednesday, 10/06/15 at 5 pm
Campus Riedberg, Biozentrum N100 /1.14

 

Our research is focused on the development of advanced stable isotope labelling protocols for nucleic acids. Using chemo-enzymatic transformations site-specifically 13C/15N/2H- modified building blocks are amenable that can be either used for the solid phase chemical synthesis of RNA (i.e. synthesis of phosphoramidite building blocks) or for the enzymatic production of RNA by in vitro transcription (i.e. synthesis of ribonucleotide triphosphate building blocks). The building blocks currently available in our laboratory will be presented along with selected applications including CPMG relaxation dispersion experiments, ZZ- exchange NMR and paramagnetic relaxation enhancements studies.

References

  • Wunderlich C, Santner T, Fauster K, Spitzer R, Tollinger M and Kreutz C* (2012). Synthesis of 6-13C-pyrimidine nucleotides as Spin-Labels for RNA dynamics. J. Am. Chem. Soc. 134:7558-7569.
  • Moschen T, Wunderlich C, Spitzer R, Levic J, Micura R, Tollinger M* and Kreutz C* (2014). Ligand-detected Relaxation Dispersion NMR Spectroscopy : Dynamics of preQ1-RNA binding. Angew. Chem. Int. Ed. published online.
  • Wunderlich C, Huber RG, Spitzer R, Liedl KR, Kloiber K* and Kreutz C* (2013). Novel paramagnetic relaxation enhancement tag for nucleic acids: A tool to study structure and dynamics of RNA. ACS Chemical Biology 8:2697-2706.

28 May – Thomas Schubert

Thomas Schubert, 2bind GmbH, Regensburg, gives a talk titled “Fast and quantitative analysis of aptamer-target interactions using MicroScale Thermoporesis (MST)“.

Thursday, 28/05/15 at 4:15 pm
Campus Riedberg, Biozentrum N100 / B2

28 May – Talk by Ciara O‘Sullivan

Ciara O‘Sullivan, Universitat Rovira i Virgili, Tarragona, gives a talk titled “High affinity beta-conglutin binding aptamers“.

Thursday, 28/05/15 at 4:15 pm
Campus Riedberg, Biozentrum N100 / B2

15 Apr – Talk by Rolf Backofen

Prof. Rolf Backofen, Albert-Ludwigs-Universität Freiburg, gives a talk titled “How to make sense out of CLIP-seq data“.

Wednesday, 15/04/15 at 5:15 pm

Campus Riedberg, Biozentrum N260/3.13

Abstract:

It is becoming increasingly clear that a RNA-binding proteins are key elements in regulating the cell’s transcriptome. Thus, unraveling the interaction network of the RNA-binding proteins by determining their binding sites is becoming an increasingly important topic. There are several high-throughput methods available to detect binding sites such as CLIP-seq. Since not all possible binding sites are covered due to differential expression in tissues and developmental states, the main problem is to come up with good motif descriptions to find missing binding sites and to evaluate the binding strength. Our new approach GraphProt uses an advanced machine learning approach based on our graph-kernel, and is able to use both structural profiles as well as detailed 2D-structures, and predicts missing binding sites with an high accuracy./blockquote>

04 Feb – Talk by Vikram Panse

Prof. Vikram Panse, ETH Zürich, gives a talk titled “Exploring the interface between ribosome assembly and nucleocytoplasmic transport“.

Wednesday, 04/02/15 at 5 pm

Campus Riedberg, Biozentrum N100/0.15

Abstract: Eukaryotic ribosome assembly is a spectacular example of a highly dynamic and regulated process that spans different cellular territories: the nucleus, nucleoplasm and the cytoplasm. This poorly understood process, which begins in the nucleolus, requires >350 conserved transiently associating assembly factors, whose site(s) of action and precise function(s) on pre-ribosomal particles are beginning to be elucidated.

Further, production of ribosomes relies on an active functional nucleocytoplasmic transport machinery: the nuclear import machinery ensures delivery of newly synthesized ribosomal proteins to assembling pre-ribosomal particles in the nucleolus, the site of biogenesis, and the nuclear export machinery catalyses the transport of correctly assembled pre-ribosomal particles through nuclear pore complexes into the cytoplasm, the site of function. I will elaborate on two recent works from my laboratory that are beginning to illuminate the unchartered interface between the nucleocytoplasmic transport machinery and the ribosome assembly pathway.

21 Jan – Talk by Juliane Soukup

Dr. Juliane Soukup, University of Nebraska, gives a talk titled “Phosphatase-Inert Glucosamine 6‑Phosphate Mimics serve as Actuators of the glmS Riboswitch“.

Wednesday, 21/01/15 at 5 pm

Campus Riedberg, Biozentrum N100/0.15

04 Nov – Talk by Mario Mörl

As a joint seminar with the Institute for Molecular Biology, Prof. Mario Mörl, Universität Leipzig, gives a talk titled “Synthetic Riboswitches – Playing Lego with RNA Domains“.

Tuesday, 04/11/14 at 5:15 pm
Campus Riedberg, Biozentrum N260/3.13

Abstract:

Riboswitches are RNA-based regulators of gene expression composed of a ligand-sensing aptamer domain followed by an overlapping expression platform. This regulation occurs at either the level of transcription (by formation of terminator or antiterminator structures) or translation (by presentation or sequestering of the ribosomal binding site). Due to a modular composition, these elements can be manipulated and therefore represent useful tools to regulate gene expression in synthetic biology. While riboswitches for translational control have been designed successfully, attempts to construct synthetic elements regulating transcription have failed so far. Using the theophylline-aptamer as sensor, we designed the expression platform as RNA sequences that can fold into functional intrinsic terminator structures. Optimization of these terminator elements enhance the response ratio of the transcriptional riboswitches to the presence of a specific ligand. Furthermore, combination of several copies of individual riboswitches leads to a much improved activation ratio and to a linear dose-dependent response in reporter gene expression. Such synthetic riboswitches (as single elements or in serial arrangements) represent new regulatory elements for synthetic biology and can be used as efficient and fast-responding read-out systems.

25 June – Talk by Bettina Keller

Bettina KellerProf. Bettina Keller, FU Berlin, gives a talk titled “Complex RNA Folding Kinetics Revealed by Single-Molecule FRET and Hidden Markov Models”.

Wednesday, 25/06/14 at 5 pm

Seminar room N260/3.13, Biocenter, Campus Riedberg

11 Jun – Talk by Ruth Schmitz-Streit

Schmitz-StreitProf. Ruth Schmitz-Streit, Univ. of Kiel, gives a talk titled “Non-coding RNAs in Methanosarcina mazei are involved in regulation and defense”.

Wednesday, 11/06/14 at 5 pm

Seminar room N100/0.15, Biocenter, Campus Riedberg

2 June – Talk by Hervé Isambert

isambertHervé Isambert, Institut Curie, Paris, gives a talk titled “RNA switches and nanostructures under transcriptional control”.

Monday, 2/06/14 at 5:15 pm

Lecture hall N100/B3, Biocenter, Campus Riedberg

28 May – Talk by Cynthia Sharma

Cynthia SharmaCynthia Sharma, University of Würzburg, Research Center for Infectious Diseases (ZINF), gives a talk titled “Regulatory RNAs in the pathogenic Epsilonproteobacteria, Helicobacter pylori and Campylobacter jejuni“.

Wednesday, 28/05/14 at 5 pm
Seminar room N100/0.15, Biocenter, Campus Riedberg

Helicobacter pylori, the causative agent of gastritis, ulcers, and gastric cancer, and Campylobacter jejuni, the most common cause of bacterial gastroenteritis to date, are two major human pathogens. Genome sequencing revealed their potential proteins and genetic diversity, but less is known about the transcriptional organization and post-transcriptional regulation of these Gram-negative Epsilonproteobacteria. Previously, Helicobacter pylori was even regarded as an organism without riboregulation since it lacks, like 50% of all bacteria, the RNA chaperone Hfq. However, based on a novel differential RNA-sequencing approach (dRNA-seq), we had recently defined a genome-wide map of transcriptional start sites (TSS) and identified more than 60 sRNAs in H. pylori strain 26695. We have now applied a comparative dRNA-seq approach to multiple strains of the emerging food-borne pathogen, Campylobacter jejuni, to understand how transcriptome differences could contribute to phenotypic differences among closely related strains. Our study revealed that the majority of TSS is conserved among strains, but we also observed strain-specific promoter usage and small RNA (sRNA) repertoires, which could contribute to strain-specific gene regulation.

Based on our transcriptome datasets, we are now using Helicobacter and Campylobacter as new model organisms for riboregulation in virulent bacteria and bacteria that lack Hfq. We have started with the functional characterization of abundant sRNAs as well as identification of associated RNA-binding proteins and new regulatory mechanisms. For example, we could show that a trans-acting sRNA, RepG, from Helicobacter directly base-pairs with a homopolymeric G-repeat in the mRNA leader of the TlpB chemotaxis receptor and that length variation of the G-repeat determines the outcome (activation or repression) of RepG-mediated post-transcriptional regulation. Overall, the identification and characterization of diverse sRNA candidates in Helicobacter and Campylobacter indicates that riboregulation constitutes an important layer of gene-expression control in these major human pathogens and will provide new insights into regulatory mechanisms and virulence control.

30 April – Talk by Sander Granneman

Bettina KellerSander Granneman, University of Edinburgh, Scotland, gives a talk titled “CRAC’n the dynamics of Ribosome assembly”.

Wednesday, 30/04/14 at 5 pm

Seminar room N100/0.15, Biocenter, Campus Riedberg

CANCELLED – Talk by Karola Rück-Braun

Prof. Karola Rück-Braun, TU Berlin, gives a talk titled “Photoswitches for the Life Sciences And Material Sciences”.

Unfortunately, the talk on Wednesday, 16/04/14 at 5 pm had to be CANCELLED.

Seminar room N100/0.15, Biocenter, Campus Riedberg

RNA-Methods Workshop at the Forschungskolleg Humanwissenschaften, Bad Homburg

Lecture Room Forschungskolleg.pngDate: Friday, 13/12/ till Saturday, 14/12/2013.

All participants are expected to register: Please, use THIS LINK.

 

The event will start at 12 am on Friday, followed by a get-to-gether dinner. On Saturday, the meeting will be closed around 4:30 pm. We aim at lively discussions with a collegial atmosphere, thus, we team up keynote speakers with PhD students/postdocs from Frankfurt.

The following Speakers confirmed their participation:

Fred Allain ETH Zürich
Hiroyuki Asanuma Nagoya University, Japan
Gerhard Hummer MPI Frankfurt
Günter Mayer University of Bonn
Gunter Meister University of Regensburg
Nina Morgner Goethe University
Michaela Müller-McNicoll Goethe University
Peter Qin University of California, USA
Marina Rodnina MPI Göttingen
Jirí Šponer Masaryk University, Brno
Jörg Vogel University of Würzburg
   

Information on accommodation: Hotel rooms for the speakers are organized, they are located at walking distance in Bad Homburg.

12 Dec – Talk by Albrecht Bindereif

albrechtProf. Albrecht Bindereif, Justus-Liebig Universität Gießen, gives a talk titled “Alternative splicing and circular RNAs: from protein-coding to non-coding RNAs”.

Thursday, 12/12/13 at 5:15 pm
TU Darmstadt, B1/01 Room 52
Host: Julia Weigand

05 Dec – Talk by Hiroyuki Asanuma

m_asanumaProf. Hiroyuki Asanuma, Nagoya University (Japan), gives a talk titled “De Novo Design of Functional Oligonucleotide with Acyclic Threoninol and Serinol”.

Thursday, 05/12/13 at 5:00 pm
Biocenter, N100/B2 – Campus Riedberg
Host: Alexander Heckel
Read more …

28 Nov – Talk by Daniel Lafontaine

Daniel LafontaineProf. Daniel Lafontaine, Université de Sherbrooke (Canada), gives a talk titled “Dual-acting riboswitch control of translation initiation and mRNA decay”.

Thursday, 28/11/13 at 4:15 pm

Lecture B3, Biocenter, Campus Riedberg

Oct 10-12: Joint CRC 960/902 Symposium

on behalf of Prof. Tschochner, University of Regensburg, we would like to announce the second symposium of our series:

Symposium on “RNP Biogenesis and Function” 2013 

Thon-Dittmer Palais | Regensburg
10 – 12 October 2013 Read more …

19 June – Talk by Jernej Ule

Prof. Jernej Ule, University College London, gives a talk titled “Structure and function of RNA-protein interactions, and their role in disease and evolution”“.

Wednesday, 19/06/13 at 11:00 am

Lecture Hall, MPI Brain Research

Mar 8 – RNA club with special focus on RNA labelling

This RNA-Club features RNA labelling techniques.

Wednesday, 08/05/13 at 5:00 pm

Campus Riedberg, Biozentrum N260/3.13

15 Apr – Talk by Snorri Sigurðsson

Prof. Snorri Sigurðsson, University of Iceland, gives a talk titled “Reporter groups for biophysical studies of nucleic acids: Spin labels and fluorophores“.

Monday, 15/04/13 at 5:15 pm

Biocenter N100, Lecture hall B3

22 Mar – Talk by Juli Feigon

Prof. Juli Feigon, University of California, Los Angeles, gives a talk titled ““The Architecture of Tetrahymena telomerase holoenzyme”“.

Friday, 22/03/13 at 5:00 pm

Chemical Inst., Lecture hall H2

20 Feb – Talk by Florian Heyd

Prof. Florian Heyd, Philipps-Universität Marburg, gives a talk titled “Alternative splicing during T cell activation regulates cytokine expression and shapes the secretory pathway“.

Wednesday, 20/02/13 at 5:00 pm

Campus Riedberg, Biozentrum N100/0.15

06 Feb – Talk by Paul Rösch


Prof. Paul Rösch, Universität Bayreuth, gives a talk titled “How Nus-factors and transformer proteins regulate transcription and translation“.

New date: Wednesday, 06/02/13 at 5:00 pm

Campus Riedberg, Biozentrum N100/B3

Jan 17-18: Workshop on Research Funding and Career Development“

The target group of the workshop is Postdoctoral Women Researchers and Advanced Doctoral Candidates. Further information is given here.

The workshop will take place on January 17th / 18th 2013 in Jügelhaus 32 B, Campus Bockenheim, 10 am.

Read more …

14 Jan – Talk by Ronald Micura

Prof. Ronald Micura, Leopold Franzens University, Innsbruck, gives a talk titled ““Riboswitch folding at single-molecule level”“.

Monday, 14/01/13 at 5:00 pm

Winterschool Obergurgl

19 Dec – Talk by Mark Helm

Prof. Mark Helm, Johannes Gutenberg-Universität Mainz, gives a talk titled “Methylated RNA – Provenance and Purpose“.

Wednesday, 19/12/12 at 5:00 pm

Campus Riedberg, Biozentrum N100/0.15

07 Nov – Talk by Jens Kurreck

Prof. Jens Kurreck, Technische Universität Berlin, gives a talk titled “Chemically modified siRNAs and vector-expressed shRNAs as antiviral agents“.

Wednesday, 07/11/12 at 5:00 pm

Campus Riedberg, Biozentrum N100/1.14

Apr 24-28: International RNA Symposium

This International RNA symposium is the first symposium together with the SFB 960, University of Regensburg, Prof. Tschochner. The next symposium will be held in Regensburg.

Location: Campus Riedberg, Otto-Stern-Zentrum, Lecture Hall H2
Date: 24/04/ till Saturday, 28/04/2012

Abstract-Book incl. the final program here Read more …

May 23: Ronald Breaker (Rolf-Sammet Guest Professor)

Within the International Research Training Group, Prof. Ronald Breaker gives a lecture titled “Riboswitches and the RNA World”. The event is part of a lecture series of the Rolf-Sammet Guest Professorship 2012 by the Aventis Foundation.

It takes place at the Campus Riedberg, Lecture hall H1 – Chemical Institutes, May 23, 2012 | 15:00 h.
Read more …

Accommodation at the 1st International RNA Symposium

Some suggestions may be given here: Read more …

Oct 28-29: ‘Kick-off’ Meeting

The  ‘Kick-off’ Meeting took place in Königstein on 28-29/10/12. In order to stimulate interactions or to lower barriers for collaboration, respectively, a less formal frame was chosen:
Participants could explore SFB 902 relevant issues by discussions in small table groups. Discussion were held in multiple rounds of about 60 minutes.
Read more …