Understanding RNA-based Regulation in Cells

SFB 902 Symposium – 29.+30.08.2018

Otto-Stern-Zentrum, Campus Riedberg


more Info soon

Practical Course: From Ensembles to Single-Molecule Analysis – Modern Methods of RNP Analysis, 8-12 October 2018, Regensburg

The biology of ribonucleoprotein particles (RNPs) is an important and quickly expanding area of current life science research. Especially for young and less experienced researchers in this field it is often difficult to keep an overview over and to identify and select the optimal combination of analytical tools required to solve their various questions.

Therefore, the Graduate Research Academy RNA Biology organizes a practical course for PhD students with the aim to introduce the participants to a selection of innovative new approaches and state-of-the-art methodology in RNP biology research. Participants will receive hands-on training by renowned experts in the field and have the possibility to discuss their own research projects with invited speakers and local experts to further their own research projects.

In addition to the scientific excellence of the invited speakers the practical course builds on a strong local methodological expertise since all of the presented techniques are actively used by at least one research team within the Collaborative Research Center SFB960 (www.sfb960.de).

The practical course “From Ensembles to Single-Molecule Analysis – Modern Methods of RNP Analysis” will take place from 8 to 12 October 2018 in Regensburg. Course attendance is free. Registration deadline is 15 July 2018.

For further information and for registration please visit following website: https://www.rnabiology-regensburg.de/index.php?browse=150


4. Mini-Symposium “Molecular mechanisms of posttranscriptional regulation” on methods to study processing, structure, and translation of mRNAs as well as non-coding RNAs in disease-related contexts.

Keynote Speaker:

  • Stefanie Dimmeler (ICR, GU Frankfurt) – non-coding RNAs

Guest speaker:

  • Veronika Herzog (IMBA, Vienna) – metabolic RNA-seq

more information available on the Homepage of the IMB, Mainz

Rolf Sammet Guestprofessorship 2018: Eric Westhof

RNA – Chemistry and Architecture
May 21—25 | 2018


more info: Sammet Homepage of the Goethe University


Guest Speaker – Konrad Förstner

Konrad Förstner, Head of the Core Unit Systems Medicine
Julius-Maximilians-Universität Würzburg will give a talk titled:

Translating high-throughput sequencing data into biological insights

Thursday, 03th May 2018
17.15 pm

Technische Universität Darmstadt

Campus Botanischer Garten, N101/lecture hall 52

PI workshop 3rd funding period

On April 16th 6 17th, all PIs of the SFB 902 are presenting and discussing their ideas and projects for the 3rd SFB 902 funding period.

April, 16th: 11 am, Biozentrum Campus Riedberg, N100/0.15

April 17th: 11 am, Biozentrum Campus Riedberg, N100/B3

Guest Speaker – Kwaku Dayie

Kwaku Dayie
University of Maryland

What is the big deal about ‘invisible’ RNA conformational states in Biology?

Thursday, 29th March 2018
4.00 pm

Goethe-University Frankfurt

Campus Riedberg, N100/lecture hall B2

Guest Speaker – Dr. Sabine Brantl

Dr. Sabine Brantl
AG Bakteriengenetik, Universität Jena

Small RNAs and small peptides

Tuesday, 27th March 2018
3.00 pm

Goethe-University Frankfurt

Campus Riedberg, N100/lecture hall B2

Conference – 5th Meeting of Regulating with RNA in Bacteria & Archaea

The 5th Meeting of Regulating with RNA in Bacteria & Archaea
will take place in
March 19-22, 2018 • Seville/Spain
more information here

IRTG Winter School

This year’s Winter School will take place in Altglashütten, Schwarzwald, from March 4th to 8th.

Exciting talks, fun in the snow and  intensive interactions will hopefully lead to an enjoyable event and, eventually, to successful PhD projects

Please register here

EMBO course – iCLIP: Genomic views of protein-RNA interactions

Dear friends of RNA,

we are happy to announce the third edition of our EMBO course “iCLIP: Genomic views of protein-RNA interactions’, which will take place at the CRG in Barcelona from June 3rd to June 9th, 2018.

The course is targeted to Junior researchers (mainly PhDs and Postdocs) who are interested in Protein/RNA interactions.

We would be grateful  if you could forward this email to interested colleagues.

Registration deadline is March 1st 2018.

You can find more info about the course here

RNA Club

Dear friends of RNA,

The next RNA Club will take place on February, 28th at 5 pm.

Room and program will be announced soon (www.rnaclub.de).

We hope to see you there and discuss over beer and Pizza.

Michaela & Beatrix

contact for more info:
Michaela Müller-McNicoll (Ph.D.)

Guest Speaker – Dr. Zasha Weinberg

Dr. Zasha Weinberg
Department of Computer Science, Leipzig University

Computational discovery of novel classes of bacterial non-coding RNAs

Thursday, 8th February 2018
12.30 pm
TU Darmstadt, lecture hall: B261/102

Abstract: The discovery of new classes of non-coding RNAs (ncRNAs) can reveal information about the biological processes that involve these ncRNAs as well as yielding general insights into RNA biochemistry and gene regulation. Riboswitch RNAs directly sense a metabolite and regulate genes accordingly. We devised a strategy to find riboswitches that have evolved specificity to a new metabolite ligand. Such specificity changes are well known in proteins, but only a few examples are known in RNA. I will also describe a more general search strategy for novel structured ncRNAs on a multi-genome/metagenome scale. This search revealed 224 novel ncRNAs of various types. I will also show computational predictions that have been experimentally confirmed.


Gender Equality – Postdoc-Fokus-Programm für unabhängige Forschungsanträge

The office for Gender Consulting of the Goethe University announces a program for Early-Career-Researchers. It covers third-party funding applications up to 6 years after earning the doctorate, child-care off-times are considered.

Deadline is January 19th, 2018.

Find more info here:



Annual IRTG Symposium on RNA Biology



From Wednesday, Nov 15 to Thursday, Nov 16, the annual IRTG Symposium will take place in Friedrichsdorf/Taunus. Topics will cover all fields of RNA biology that are research areas within our CRC 902. The following Guest Speakers are presenting their research alongside members of our IRTG:

Nadine Schwierz-Neumann – MPI for Biophysics, Frankfurt
Niels Gehring – Universität zu Köln
Markus Wahl – Freie Universität Berlin
Renee Schröder – Max F. Perutz-Laboratories, Wien
Mario Mörl – Universität Leipzig
Jörg Hartig – Universität Konstanz
Christoph Dieterich – Uniklinikum Heidelberg
David Stanek – The Czech Academy for Sciences
Alfredo Castello – University of Oxford

Registration is now open via the following link.


16-21 July – Summer School in Wernigerode

Summer School 2017 Read more …

2nd RMU-RNA Salon

On Wednesday, June 28, the Goethe-Universität Frankfurt, in association with the SFB 902 and the RNA Society, will host the 2nd RNA Salon of the Rhein-Main Universitäten Associacion. Keynote Speaker will be Erin Schuman of the MPI for Brain Research, who recently received her second ERC advanced grant.

Presenting Groups:

AG Legewie (IMB Mainz) – Modelling of Biological Networks

AG Preußer (BCI, JLU Gießen) – CircRNAs & Exosomes

AG Randau (MPI Marburg) – Small RNomics & RIP-seq

AG Roignant (IMB Mainz) – RNA Modifications

AG Schmidt (IBC1, GU Frankfurt) – Ribo-seq

AG Zarnack (BMLS, GU Frankfurt) – Computational RNA Biology

Read more …

Lecture: Yun-Xing Wang

New ways to study RNA structural biology

Yun-Xing Wang

National Cancer Institute, National Institutes of Health, Maryland, USA

Friday, 2nd June 2017 – 14:00 h s.t.
Uni Campus Riedberg, Lecture Hall B2
Max-von-Laue-Str. 7 – 60438 Frankfurt

Abstract Read more …

Erin Schuman receives her second ERC Advanced Grant for NeuroRibo project

With this prestigious grant of 2.5 million Euro, Erin Schuman, Director at the Frankfurt-based Max Planck Institute for Brain Research (MPI-BR) since 2009, will study extended functions of the ribosome, the protein-making machine, in neurons. Ribosomes are complex, yet conserved, multiprotein machines and Schuman’s team will study how they are specialized to synthesize proteins in the distal aspects of neuronal dendrites.

Read more …


April 4th – Workshop on Chimera and Pymol

The workshop will be given by Milan Gerovac on Tuesday (4th of April at 4 p.m. in Room N140-210 Biocenter Riedberg).

chimera workshop grako




Lecture: Benedikt Beckmann

Novel methods to study RNA-protein interactions

Monday, March 20th 2017; 2 pm TU Darmstadt, B261/102

For further information see: Beckmann Lab

Lecture: Volker Busskamp

Paul Ehrlich and Ludwig Darmstaedter Nachwuchspreis 2017
Joint Seminar – MPI-BP, MPI-BR, CEF, SFB 902, SFB 807
Dr. Volker Busskamp
Technical University Dresden
Center for Regenerative Therapies Dresden
“Regenerating neuronal function, cellular compartments and cell types”
Wednesday, 15th March 2017  – 17:00 s.t. Uhr
Max Planck Institute of Biophysics, Lecture Hall 0.10
Max-von-Laue-Str. 3 – 60438 Frankfurt
Campus Riedberg 
Guests are welcome!
For the organzation of a visiting schedule, I kindly ask you to send an email to email hidden; JavaScript is required as soon as possible if you are interested in meeting with Volker Busskamp on March 15th.


Lecture: Kai Papenfort

Prof. Dr. Kai Papenfort (Ludwig-Maximilians-Universität München)


Title:     From Strings of Nucleotides to Collective Behavior: “Lessons from Vibrio cholerae”

Homepage LMU


Tuesday, January 17th, 2017, 5.15 pm

Campus Riedberg, Biozentrum, Raum NU 260/3.13


Quorum-sensing (QS), is a process of bacterial cell-to-cell communication that relies on
the production, release, and population-wide detection of extracellular signal molecules.
Processes controlled by QS are unproductive when undertaken by an individual bacterium but
become effective when undertaken by the group. QS controls many important microbial
processes including bioluminescence, secretion of virulence factors, competence and biofilm
formation. In this study, we identified and characterized of a novel bacterial communication
system present in Vibrio cholerae. This system consists of a transcriptional regulator, VqmA
and a small regulatory RNA (sRNA), VqmR. VqmR is activated by VqmA and functions as a
trans-acting regulator through base-pairing with multiple target mRNAs. Among these targets
are key factors for biofilm formation and virulence factor expression in V. cholerae indicating
that VqmA/R could participate in the regulation of complex behaviors. Indeed, our results
show that VqmA binds to and is activated by an extracellular signal, which we determined as
the novel autoinducer molecule, DPO. DPO is a new molecule to biology and is produced by
diverse pro- and eukaryotes. Further, we obtained evidence that the signaling molecule is
produced by commensal species of the host microbiota and that VqmA/R plays an important
role during V. cholerae pathogenesis and the communication with other bacteria.

Lecture: Rolf Backofen

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“)


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.

SFB Conference: RNA Structural Biology

The SFB 902 presents: RNA Structural Biology



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


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

28 & 29 November 2016

Poster RNA Structural Biology

Program here

Abstract Book here: abstract-book-online

RNA Club

16th November 2016

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

RNA Club

TRAM SFB 807 & mpibp: Invitation to the Malvern Workshop on 15/11/16

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

TIME: 15 November 2016

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

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

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

SFB 902 -IRTG Welcome BBQ

BBQ welcoming new members of the IRTG

On the 20th 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!


Joint International Meeting: Perspectives in Vascular Biology

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

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

26–28 September 2016



Felix Bloch Lectureship for Björn Corzilius!

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

More Info:

FGMR 2016 Homepage

GDCh News


4-9 Sept – Summer School Kleinwalsertal

Summer School 2016 Read more …

21 Jul – Talk by Frederic Pontvianne

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

28 Apr – Talk by Franz Narberhaus

Franz NarberhausProf. 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

18-19 April – GMP-Workshop

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.

28 Jan – Talk by Andreas Wachter

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

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.

Kick-off Meeting for the 2nd Funding Period

Lecture Room Forschungskolleg.pngDate: Tuesday, 10/11/ till Saturday, 11/11/2013.
Location: Forschungskolleg Humanwissenschaften in Bad Homburg.

Progam of the Kick-off Meeting.


The event will start at 11 am on Tuesday, followed by a get-to-gether dinner. On Wednesday, the meeting will be closed around 2:00 pm.

14 Jul – Talk by Jan Medenbach

Dr. Jan Medenbach, University of Regensburg, gives a talk titled “Sex and Drugs and Regulation – Translational Control in Drosophila melanogaster“.

Tuesday, 14/07/15 at 5:15 pm
TUD, Schnittspahnstraße 3, B1|01, room 52

17 Jun – Talk by Roland Hartmann

Roland Hartmann, Universität Marburg, gives a talk titled “Control of Ebola virus (EBOV) transcription – function of the viral protein VP30“.

Wednesday, 17/06/15 at 5 pm
Campus Riedberg, Biozentrum N100 / 0.15


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.


  • 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


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


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