Sonderforschungsbereich 902

Structure of RNA polymerase I transcribing ribosomal DNA genes

Neyer S, Kunz M, Geiss C, Hantsche M, Hodirnau VV, Seybert A, Engel C, Scheffer MP, Cramer P, Frangakis AS.

Nature 540, 670-610. 2016 Nov 14 Abstract Read more …

Prof. Rolf Backofen (Universität Freiburg)

Title:     How to make Sense out of CLIP-seq data

Homepage Uni Freiburg

Wednesday, December 14th, 2016, 5.15 pm

TU Darmstadt, B101/52 (‟kleiner Hörsaal“)

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 a high accuracy. We will discuss several applications, showing that the use of binding models is even superior to using the peaks from a CLIP experiment in analysing RBP-based regulation.

The SFB 902 presents: RNA Structural Biology

Registration

Speaker

Dmitri Svergun
Modesto Orozco
Karl Bertram
Cameron Mackereth
Konstantinos Stellos
Michael Sattler
Martin Hengesbach
David Lilley
Daniel Wilson
Elke Durchard-Ferner
Mark Helm

Venue
Forschungskolleg Humanwissenschaften
Am Wingertsberg 4
61348 Bad Homburg vor der Höhe, Germany

Date
28 & 29 November 2016

Poster RNA Structural Biology

Program here

Abstract Book here: abstract-book-online

An intermolecular G-quadruplex as the basis for GTP recognition in the class V-GTP aptamer.

Nasiri AH, Wurm JP, Immer C, Weickhmann AK, Wöhnert J.

RNA 11, 1750-1759. 2016 Nov 22 Abstract Read more …

Structure of the ribosome post-recycling complex probed by chemical cross-linking and mass spectrometry

Kiosze-Becker K, Ori A, Gerovac M, Heuer A, Nürenberg-Goloub E, Rashid UJ, Becker T, Beckmann R, Beck M, Tampé R.

Nat Commun. 2016 Nov 8;7:13248 Abstract or full publication here. See also press release of the Goethe University Read more …

16^th November 2016

RNA-Club – Special Edition
Goethe Universität Frankfurt
Campus Riedberg
N260/3.13, 5:00 pm

RNA Club

The Malvern Instruments GmbH workshop is hosted by TRAM SFB807 and mpibp.

TIME: 15 November 2016

REGISTRATION: via http://doodle.com/poll/u2gsa7z9gv4uh6yf

LOCATION:
Goethe University Frankfurt, Biocenter N210 / 3.03 (Talks)
Max-Planck-Institut für Biophysik (Test Measurings)

Contact: Katharina Dolata (email hidden; JavaScript is required)

Unconventional secretory processing diversifies neuronal ion channel properties

Hanus C, Geptin H, Tushev G, Garg S, Alvarez-Castelao B, Sambandan S, Kochen L, Hafner AS, Langer JD, Schuman EM

eLife 2016;5:e20609 Abstract Read more …

BBQ welcoming new members of the IRTG

On the 20^th of October the IRTG will organize a BBQ for all PhDs and PostDocs (associated and full members). The BBQ will welcome all new IRTG members which joined during the year. Furthermore, the event will be used as a general information event spreading and discussing recent and upcoming IRTG-related events.

See you there!

The Joint International Meeting: Perspectives in Vascular Biology is organized by the Gesellschaft für Mikrozirkulation und Vaskuläre Biologie and the SFB 834 – Endothelial Signalling and Vascular Repair

Venue
Goethe University Hospital Frankfurt
Lecture theatre 23-3
Theodor-Stern Kai 7
60590 Frankfurt, Germany

Date
26–28 September 2016

Poster

Flyer

Adenosine-to-inosine RNA editing controls cathepsin S expression in atherosclerosis by enabling HuR-mediated post-transcriptional regulation

Stellos K., Gatsiou A, Stamatelopoulos K, Perisic Matic L, John D, Lunella FF, Jaé N, Rossbach O, Amrhein C, Sigala F, Boon RA, Fürtig B, Manavski Y, You X, Uchida S, Keller T, Boeckel JN, Franco-Cereceda A, Maegdefessel L, Chen W, Schwalbe H, Bindereif A, Eriksson P, Hedin U, Zeiher AM, Dimmeler S Nature Medicine 2016 Sep 5. Abstract   Read more …

Congratulations to Björn Corzilius, who was selected for this year´s Felix-Bloch-Lecturer at the FGMR meeting in September by the GDCh.

More Info:

FGMR 2016 Homepage

GDCh News

Read more …

Dr. Frederic Pontvianne from the Saez Vasquez Group, Université de Perpignan, talks about “Identification of nucleolus-associated chromatin domains reveals the role of the nucleolus in the 3D organisation of the A. thaliana genome”.

Thursday, 21/07/16 at 17:00 st
Campus Riedberg, N260/R. 3.13

Prof. Franz Narberhaus, Ruhr-Universität Bochum, gives a talk titled “Unusual phospholipid biosynthesis pathways in bacteria – Natural and synthetic RNA thermometers“.

Thursday, 28/04/16 at 12:30 pm
TUD, Schnittspahnstraße 3, B1|01, room 52

In order to strengthen the graduates career, a GMP Workshop is organised within the IRTG. 

Good manufacturing practices (GMP) are the practices required in order to conform to the guidelines recommended by agencies that control authorization and licensing for manufacture and sale of food, drug products, and active pharmaceutical products. These guidelines provide minimum requirements that a pharmaceutical or a food product manufacturer must meet to assure that the products are of high quality and do not pose any risk to the consumer or public.

The workshop venue is at the Campus Riedberg from 8:45 am – 5:00 pm:

1. General Introduction on Monday, April, 18 – Biologicum – Hörsaal 2 (Raumnummer -1.203)
2. Consolidation on Tuesday, April 19 – Biocenter N100 – Seminarraum 1.14

Additional Information:
The participation at the general introduction (please refer to the program as download below) leads to a basic certificate. But for interested persons only, enhanced insights are offered at the second day with an ‘up-graded’ certificate of attendance. It is your choice, but for the matter of organisation, we posted two separate registrations:

Registration at the web site is mandatory: http://www.sfb902.de/registration/

The program can be downloaded as pdf-document here.

SR proteins are NXF1 adaptors that link alternative RNA processing to mRNA export.

Müller-McNicoll M, Botti V, De Jesus Domingues AM, Brandl H, Schwich OD, Steiner MC, Curk T, Poser I, Zarnack K, Neugebauer KM. Genes & Developement 2016 Mar 1. Abstract   Read more …

Photoresponsive Formation of an Intermolecular Minimal G-Quadruplex Motif.

Thevarpadam J, Bessi I, Binas O, Gonçalves DP, Slavov C, Jonker HR, Richter C, Wachtveitl J, Schwalbe H, Heckel A. Angew Chem Int Ed Engl. 2016 Feb 18. Abstract  Read more …

Direct 13C-detected NMR Experiments for Mapping and Characterization of Hydrogen Bonds in RNA.

Fürtig B, Schnieders R, Richter C, Zetzsche H, Keyhani S, Helmling C, Kovacs H, Schwalbe H.
J. Biomol. NMR, 2016 Feb 6.

Full publication here: Direct 13C-detected NMR Experiments for Mapping and Characterization of Hydrogen Bonds in RNA.

Abstract:  Read more …

Dr. Andreas Wachter, University of Tübingen, gives a talk titled “Regulation and functions of mRNA processing in plant development and stress responses“.

Thursday, 28/01/15 at 5:00 pm
TUD, Schnittspahnstraße 3, B1|01, room 52
 

Abstract
Precursor messenger RNAs (pre-mRNAs) undergo extensive co- and posttranscriptional modification, massively expanding transcriptome diversity and playing an important role in gene control. Among those mechanisms, alternative pre-mRNA splicing (AS) is particularly widespread. AS can give rise to transcripts encoding different proteins or generate mRNAs containing certain cis-elements such as premature termination codons, which trigger mRNA degradation via the RNA surveillance pathway nonsense-mediated decay (NMD). Despite their widespread occurrence and enormous regulatory potential, plant AS and NMD are poorly understood and their physiological functions have been addressed in only few studies. We have identified Polypyrimidine tract binding proteins (PTBs) as central regulators of AS in the model plant Arabidopsis thaliana, with critical functions in development and drought resistance. Our ongoing work aims at the characterization of cis-regulatory motifs and splicing factor networks, constituting the plant splicing code. Furthermore, using a transcriptome-wide survey, frequent coupling of AS and NMD was revealed. Plant NMD activity is not constitutive but can be regulated, such as upon pathogen infection, and, as recently demonstrated by us, upon abiotic stress. Our data provide evidence that regulation of both AS and NMD play important functions in plant development and stress responses. Future work will address critical aspects of regulated mRNA processing, such as its temporal and spatial resolution, down to the level of single tissues and cells. Based on the intriguing links between our findings and agriculturally relevant traits, our work will also be extended to translational research in crop species. Moreover, the mechanistic insights into regulation of mRNA processing revealed by our studies is used to develop novel approaches in synthetic biology, such as TALE-mediated splicing factor targeting.

What a differrence an OH Makes: Conformational Dynamics as the Basis for the Ligand Specificity of the Neomycin-Sensing Riboswitch.

Duchardt-Ferner E, Gottstein-Schmidtke SR, Weigand JE, Ohlenschläger O, Wurm JP, Hammann C, Suess B, Wöhnert J. Angew Chem Int Ed Engl. 2016 Jan 22. Abstract  Read more …

The RNA chaperone activity of the Trypanosoma brucei editosome raises the dynamic of bound pre-mRNAs.

Leeder WM, Voigt C, Brecht M, Göringer HU. Sci Rep. 2016 Jan 19. Abstract Read more …