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Conference Program
 
Nucleic Acids
June 5-10, 2011
University of New England
Biddeford, ME

The Gordon Research Conference on Nucleic Acids was first established more than 50 years ago. Since that time the field of nucleic acids has exploded with tremendous discoveries regarding the chemistry, functional potential and biologic significance of nucleic acids. Through these advances the Nucleic Acids GRC has provided a critical forum for discussion of new ideas by promoting interaction between investigators specializing in all the diverse areas of nucleic acids research. In particular, the past decade has brought renewed recognition and excitement regarding the breadth of nucleic acid functions in cells (i.e. all classes of non-coding RNAs) and the extent to which various steps in nucleic acids biosynthesis and processing are mechanistically intertwined. The involvement of RNAi in chromatin silencing and remodeling is a prime example for the usefulness of bringing seemingly diverse areas of nucleic acid researchers together. The 2011 meeting of the Nucleic Acids GRC will highlight recent advances in these areas of DNA and RNA biology, biochemistry and biophysics with a view toward identifying emerging concepts and technologies in these fields. Specific topics of discussion will include: Nucleic acid structure and catalysis, Transcription and chromatin dynamics, Ribosome function and biogenesis, DNA replication, RNA stability and export, Genomic integrity, Non-coding RNA function and biogenesis, and Co- and Post-transcriptional RNA processing. Young scientists, or those newly engaged in nucleic acids research, will be particularly encouraged to attend and present; with time built into the schedule for short talks selected from submitted abstracts.


Contributors

SUNDAY
2:00 pm - 9:00 pmArrival and Check-in (Office Closed 6:00 pm - 7:00 pm)
6:00 pmDinner
7:30 pm - 7:40 pmWelcome / Introductory Comments by GRC Site Staff
7:40 pm - 9:30 pmKeynote Lectures
Discussion Leaders: Chris Lima (Sloan-Kettering Institute) and Roland Kanaar (Erasmus University)
7:40 pm - 8:25 pm Carlos Bustamante (University of California, Berkeley)
"Recent advances in single molecule biophysics"
8:25 pm - 8:35 pm Discussion
8:35 pm - 9:20 pm Venki Ramakrishnan (MRC Laboratory of Molecular Biology)
"Structural basis of decoding by the ribosome"
9:20 pm - 9:30 pm Discussion
MONDAY
7:30 am - 8:30 amBreakfast
9:00 am - 12:30 pmTranscription and Chromatin Dynamics
Discussion Leader: Danesh Moazed (Harvard)
9:00 am - 9:25 am Danesh Moazed (Harvard Medical School)
"RNA scaffolds as sensors of the epigenome"
9:25 am - 9:35 am Discussion
9:35 am - 9:45 am Short Presentation: David Weinberg (MIT)
"The inside-out mechanism of Dicers from budding yeast"
9:45 am - 9:50 am Discussion
9:50 am - 10:10 am Karolin Luger (Colorado State University)
"Modulators of nucleosome and chromatin structure"
10:10 am - 10:20 am Discussion
10:20 am - 10:45 am Coffee Break
10:45 am - 11:05 am Douglas Koshland (University of California, Berkeley)
"When RNA goes rogue"
11:05 am - 11:15 am Discussion
11:15 am - 11:25 am Short Presentation: Andrew Bosson (MIT)
"miRNA-dependent and -independent binding of Argonaute2 to mRNAs"
11:25 am - 11:30 am Discussion
11:30 am - 11:50 am Michelle Wang (Cornell University)
"Single molecule studies of the DNA unwinding mechanism of a ring-shaped helicase"
11:50 am - 12:00 pm Discussion
12:00 pm - 12:20 pm Stephen Buratowski (Harvard Medical School)
"Coordinating different stages of RNA polymerase II transcription"
12:20 pm - 12:30 pm Discussion
12:30 pmLunch
1:30 pm - 4:00 pmFree Time
4:00 pm - 6:00 pmPoster Session I
6:00 pmDinner
7:30 pm - 9:30 pmRibosome Biogenesis, Function, and Regulation
Discussion Leader: Venki Ramakrishnan (MRC Laboratory of Molecular Biology)
7:30 pm - 7:50 pm Rachel Green (Johns Hopkins University)
"Quality control on the ribosome during translation"
7:50 pm - 8:00 pm Discussion
8:00 pm - 8:20 pm Jamie Williamson (Scripps Research Institute)
"Dynamics of the ribosome assembly in vitro and in cells"
8:20 pm - 8:30 pm Discussion
8:30 pm - 8:50 pm Nenad Ban (ETH Zurich)
"Crystallography of Eukaryotic Ribosomes: Insights into the Initiation of Translation"
8:50 pm - 9:00 pm Discussion
9:00 pm - 9:20 pm Joseph Puglisi (Stanford University School of Medicine)
"Dynamics of translation"
9:20 pm - 9:30 pm Discussion
TUESDAY
7:30 am - 8:30 amBreakfast
9:00 am - 12:30 pmNon-coding RNA
Discussion Leader: Joan Steitz (Yale University)
9:00 am - 9:25 am Joan Steitz (Yale University)
"Non-coding RNAs: with a viral twist"
9:25 am - 9:35 am Discussion
9:35 am - 9:45 am Short Presentation: Katrin Karbstein (Scripps Florida)
"Structural and Functional Dissection of Cytoplasmic 40S Ribosome Assembly"
9:45 am - 9:50 am Discussion
9:50 am - 10:10 am Christian Spahn (Charité - Universitätsmedizin Berlin)
"Visualizing conformational modes of ribosomal complexes by multiparticle cyro-electron microscopy"
10:10 am - 10:20 am Discussion
10:20 am - 10:45 am Coffee Break
10:45 am - 11:05 am Sandra Wolin (Yale University)
"Non-coding RNA degradation"
11:05 am - 11:15 am Discussion
11:15 am - 11:25 am Short Presentation: Saibal Chatterjee (Friedrich Miescher Institute)
"From miRNA turnover to maintenance of active miRISC"
11:25 am - 11:30 am Discussion
11:30 am - 11:50 am Blake Wiedenheft (University of California, Berkeley)
"RNA-guided adaptive immunity in bacteria"
11:50 am - 12:00 pm Discussion
12:00 pm - 12:20 pm Dinshaw Patel (Sloan-Kettering Institute)
"Structural biology of RNA-mediated gene regulation"
12:20 pm - 12:30 pm Discussion
12:30 pmLunch
1:30 pm - 4:00 pmFree Time
4:00 pm - 6:00 pmPoster Session II
6:00 pmDinner
7:30 pm - 9:30 pmReplication
Discussion Leader: James Berger (University of California, Berkeley)
7:30 pm - 7:50 pm James Berger (University of California, Berkeley)
"Molecular mechanisms for initiating DNA replication"
7:50 pm - 8:00 pm Discussion
8:00 pm - 8:20 pm Catherine Fox (University of Wisconsin)
"Combining yeast genetics and genomics to reveal how DNA replication origins are chosen within the context of chromatin"
8:20 pm - 8:30 pm Discussion
8:30 pm - 8:50 pm Michael Botchan (University of California, Berkeley)
"Regulating the activity of the MCM helicase"
8:50 pm - 9:00 pm Discussion
9:00 pm - 9:20 pm Peter Burgers (Washington University in St. Louis)
"Metal binding clusters in eukaryotic B-family DNA polymerases mediate subunit interactions and replication processivity"
9:20 pm - 9:30 pm Discussion
WEDNESDAY
7:30 am - 8:30 amBreakfast
9:00 am - 12:30 pmGenome Integrity
Discussion Leader: Wolf Heyer (University of California, Davis)
9:00 am - 9:25 am Wolf Heyer (University of California, Davis)
"Mechanisms of regulating homologous recombination"
9:25 am - 9:35 am Discussion
9:35 am - 9:45 am Short Presentation: Derek Lyons (University of Michigan)
"Human DNA glycosylases initiate deletion of unpaired lesions"
9:45 am - 9:50 am Discussion
9:50 am - 10:10 am Dana Branzei (IFOM)
"BLM/Sgs1-mediated dissolution is uncoupled from Mus81-dependent resolution of template switch intermediates"
10:10 am - 10:20 am Discussion
10:20 am - 10:45 am Group Photo / Coffee Break
10:45 am - 11:05 am Joyce Lebbink (Erasmus MC, Dept. Genetics)
"Molecular mechanism of daughter strand incision during DNA mismatch repair"
11:05 am - 11:15 am Discussion
11:15 am - 11:25 am Short Presentation: Michael Trakselis (University of Pittsburgh)
"A multifaceted oligomeric DNA replication polymerase with unique terminal transfer properties"
11:25 am - 11:30 am Discussion
11:30 am - 11:50 am Scott Keeney (Sloan-Kettering Institute)
"Mechanism and regulation of meiotic recombination initiation"
11:50 am - 12:00 pm Discussion
12:00 pm - 12:20 pm Alan D'Andrea (Dana-Farber Cancer Institute; Harvard Medical School)
"Assembly of the Fanconi Anemia proteins at the replication fork"
12:20 pm - 12:30 pm Discussion
12:30 pmLunch
1:30 pm - 4:00 pmFree Time
4:00 pm - 6:00 pmPoster Session III
6:00 pmDinner
7:30 pm - 9:30 pmRNA Stability and Export
Discussion Leader: Elena Conti (Max Planck Institute, Martinsried)
7:30 pm - 7:50 pm Elena Conti (Max Planck Institute, Martinsried)
"Molecular mechanisms of RNA degradation"
7:50 pm - 8:00 pm Discussion
8:00 pm - 8:20 pm Lynne E. Maquat (University of Rochester School of Medicine and Dentistry)
"IncRNAs transactivate mRNA decay via Alu element-mediated base-pairing"
8:20 pm - 8:30 pm Discussion
8:30 pm - 8:50 pm Jeff Coller (Case Western Reserve University)
"Decapping of coding and non-coding RNAs"
8:50 pm - 9:00 pm Discussion
9:00 pm - 9:20 pm Allan Jacobson (University of Massachusetts Medical School)
"Interrelationships of mRNA decay and translation in yeast"
9:20 pm - 9:30 pm Discussion
THURSDAY
7:30 am - 8:30 amBreakfast
9:00 am - 11:45 amCo- and Post-Transcriptional Regulation
Discussion Leader: Brenton R. Graveley (University of Connecticut Health Center)
9:00 am - 9:25 am Brenton R. Graveley (University of Connecticut Health Center)
"Genome wide analysis of mRNA processing in Drosophila"
9:25 am - 9:35 am Discussion
9:35 am - 9:45 am Short Presentation: Wendy Gilbert (MIT)
"Reconsidering movement of eukaryotic mRNAs between polysomes and P-bodies"
9:45 am - 9:50 am Discussion
9:50 am - 10:10 am Tracy Johnson (University of California, San Diego)
"RNA processing and histone modification"
10:10 am - 10:20 am Discussion
10:20 am - 10:45 am Coffee Break
10:45 am - 11:05 am Christine Mayr (Sloan-Kettering Institute)
"Transcriptome diversity due to alternative cleavage and polyadenylation during cancer pathogenesis"
11:05 am - 11:15 am Discussion
11:15 am - 11:35 am Alain Jacquier (Institut Pasteur)
"Pervasive transcription at stationary phase in yeast"
11:35 am - 11:45 am Discussion
11:45 am - 12:30 pmBusiness Meeting
(Nominations for the next Vice Chair; Fill out Conference Evaluation Forms; Discuss future Site & Scheduling preferences; Election of the next Vice Chair)
12:30 pmLunch
1:30 pm - 4:00 pmFree Time
4:00 pm - 6:00 pmPoster Session IV
6:00 pmDinner
7:30 pm - 9:30 pmNucleic Acid Structure and Catalysis
Discussion Leader: Jamie Cate (University of California, Berkeley)
7:30 pm - 7:50 pm Jamie Cate (University of California, Berkeley)
"Structures of the ribosome in classical and hybrid states of tRNA binding"
7:50 pm - 8:00 pm Discussion
8:00 pm - 8:20 pm Hashim Al-Hashimi (University of Michigan)
"Transient Hoogsteen base-pairs in canonical duplex DNA"
8:20 pm - 8:30 pm Discussion
8:30 pm - 8:50 pm Sarah Woodson (Johns Hopkins University)
"RNA folding and 30S ribosome assembly"
8:50 pm - 9:00 pm Discussion
9:00 pm - 9:20 pm Anna Marie-Pyle (Yale University)
"Structural features and assembly pathways for large, multidomain RNA molecules"
9:20 pm - 9:30 pm Discussion
FRIDAY
7:30 am - 8:30 amBreakfast
9:00 amDeparture

Supported in part by March of Dimes Foundation Grant No. 4-FY11-532.

 
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