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Program
Printable version
3rd International Conference and Workshop
Genomic Impact of Eukaryotic Transposable Elements
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Organizer: Jerzy Jurka, Genetic Information Research Institute
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Friday, February 24, 2012 |
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| 15:00-18:00 | REGISTRATION (Phoebe A. Hearst Social Hall) (hotel) and (Fred Farr Forum) (conference). |
| 18:00-19:00 | Dinner (Crocker Dining Hall) |
| 19:30-23:00 |
Warm-up
party/poster previews (Fred Farr Forum) and preparation of audio-visual (Chapel)
The following equipment will be provided in all sessions: an LCD projector, laser pointer and a microphone. Speakers should load their talks at Chapel in the evening preceding the presentations. There will be a limited time for last-minute testing (30 minutes before the morning session and during breaks). Due to time constraints, all 10-minute talks should be limited to communication of your specific results only. Please, leave 2-3 minutes from your allowed time for discussion. The projected discussion time for 15-minute presentations is 3-4 minutes, and for 25-minute presentations it is 4-5 minutes. The opening speaker for each session is the chairman of that session. |
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Saturday, February 25, 2012 |
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| 7:30-8:30 | Breakfast (Crocker Dining Hall) |
| 8:00-8:50 | REGISTRATION (Chapel) |
| 9:00-9:10 | Jerzy Jurka Opening remarks |
| 9:10-9:35 | David Haussler - Aspects of the evolutionary impact of retrotransposons on vertebrate genomes |
| 9:35-10:00 | Norihiro Okada - Mammalian exaptation burst |
| 10:00-10:15 | Peter Arndt - A neutral model to explain fat tails in match length distributions |
| 10:15-10:45 | Coffee-break (Chapel)/Group photo |
| 10:45-11:10 | Nancy Craig - A transposase goes to work |
| 11:10-11:35 | Juergen Brosius - BC1 RNA, the significance of a tRNA-derived retrogene for the rodent nervous system |
| 11:35-12:00 | Gill Bejerano - Cis regulatory co-option in the human genome |
| 12:00-13:00 | Lunch (Crocker Dining Hall) |
| 13:30-13:55 | Mark Batzer - The primate mobilome |
| 13:55-14:05 | Lucia Carbone - Centromeric activation of a novel lineage-specific composite transposable element in the eastern hoolock gibbon (Hoolock leuconedys) |
| 14:05-14:30 | Juergen Schmitz - Traces of the past: what retrotransposons tell us about ancient times |
| 14:30-14:55 | Andrew Shedlock - Testing alternative models of TE molecular evolution with amniote phylogenomics |
| 14:55-15:05 | Cesar Martins - Transposable elements in fish genomes: a chromosome perspective |
| 15:05-15:20 | Ben Koop - Repeat families in the rediploidization and speciation of Salmonids |
| 15:20-15:50 | Coffee-break (Chapel) |
| 15:50-16:15 | King Jordan - Human MIRs as chromatin organizing elements |
| 16:15-16:40 | Matthew Lorincz - Histone H3K9 writers and readers in ERV silencing: a family affair |
| 16:40-16:50 | Lucas Gray - The conserved piggyBac transposase fusion protein CSB-PGBD3 collaborates with AP-1 proteins to regulate nearby genes in primates |
| 16:50-17:00 | Christoffer Nellaker - The impact of transposable element variants on mouse genomes and genes |
| 17:00-17:10 | Nickolai Tchurikov - Genome-wide profiling of fragmentation sites in Drosophila melanogaster chromosomes revealed a strong correlation between fragmentation sites, particular sets of mobile elements and regions of intercalary heterochromatin |
| 17:10-17:20 | Yanzhu Ji - Comparative analyses of transposable elements expressed in the transcriptomes of lake sturgeon (Acipenser fulvescens), tiger salamanders (Ambystoma tigrinum), and banner-tailed kangaroo rats (Dipodomys spectabilis) |
| 17:20-17:30 | Michael Wilson - Latent regulatory potential of human-specific repetitive elements |
| 17:30-17:40 | Heather Murton - Chromatin and the control of LTR retrotransposon silencing and mobilisation in fission yeast |
| 18:00-19:00 | Dinner (Woodlands) |
| 19:20-19:45 | John Moran - Studies of a human retrotransposon |
| 19:45-19:55 | Fabio Macciardi - The genetic signatures of transposable elements (TE) in schizophrenia |
| 19:55-20:05 | Natasa Lindic - Trying to pin down the mechanism of APOBEC3s inhibition of retrotransposition |
| 20:05-20:15 | Koichi Ishiguro - The genomewide profiling of L1 antisense promoter activity in the human cells |
| 20:15-20:25 | Kyle Upton - Technical development of Retrotransposon Capture sequencing (RC-seq) |
| 20:25-23:00 | Happy Hours / poster session (Fred Farr Forum) |
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Sunday, February 26, 2012 |
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| 7:30-8:30 | Breakfast (Crocker Dining Hall) |
| 9:00-9:25 | Haig Kazazian - Transcriptome-wide binding of human L1 ORF1 protein reveals its role in Alu retrotransposition and processed pseudogene formation |
| 9:25-9:50 | Gerald Schumann - LINE-1 mediated trans-mobilization of human-specific SVA retrotransposons is SVA structure-dependent |
| 9:50-10:00 | Annette Damert - Competition for SVAs in gibbons: LAVA and other VNTR containing non-LTR retrotransposons |
| 10:00-10:25 | Anthony Furano - Polymer formation and nucleic acid binding properties of the human L1 non-LTR retrotransposon ORF1p protein |
| 10:25-10:45 | Coffee-break (Chapel) |
| 10:45-11:10 | Holly Wichman - An overview of LINE-1 activity in mammals |
| 11:10-11:35 | Cedric Feschotte - Genomes without borders - the misfit origins of genetic novelty |
| 11:35-11:45 | Petra Schwalie - Waves of repeat driven CTCF binding expansions have shaped mammalian genomes |
| 11:45-11:55 | Ray Malfavon-Borja - Ancient and recurrent evolution of the antiviral gene fusion TRIMCyp in primates |
| 12:00-13:00 | Lunch (Crocker Dining Hall) |
| 13:30-13:55 | Prescott Deininger - Alu/Alu non-allelic homologous recombination |
| 13:55-14:20 | Scott Devine - Studying Alu and L1 mutagenesis in human genomes with DNA sequencing technologies |
| 14:20-14:30 | Adam Ewing - Large-scale retroelement detection from the Cancer Genome Atlas |
| 14:30-14:40 | Robyn Leary - A novel p53 regulated murine endogenous retrovirus |
| 14:40-14:50 | Krassimira Botcheva - Distinct genome-wide p53 binding profile in normal and cancer-derived human cells |
| 14:50-15:00 | Elena Helman - RetroSeq: a tool to discover somatic insertion of retrotransposons |
| 15:00-15:25 | David Symer - Mouse endogenous retroviruses can trigger premature transcriptional termination at a distance |
| 15:25-15:55 | Coffee-break (Chapel) |
| 15:55-16:20 | Dixie Mager - Complex interactions between endogenous retroviruses and host genes |
| 16:20-16:30 | Andrea Schorn - Transposon small RNA expression in the embryonic and trophectoderm lineage |
| 16:30-16:40 | Justin Blumenstiel - Dynamics of TE control by the piRNA machinery: The Key Role of Dose |
| 16:40-16:50 | Erin Kelleher - Drosophila interspecific hybrids phenocopy piRNA pathway mutants in aberrant piRNA production and TE derepression |
| 16:50-17:00 | Fernando Rodriguez - An increase in relative abundance of pi-like RNAs in response to ionizing radiation in the bdelloid rotifer Adineta vaga |
| 17:00-17:10 | Mireia Jorda - Epigenetics speaks up for the silent DNA |
| 17:10-17:35 | Zsuzsanna Izsvak - Modeling stress signaling and response resulting in transposon activation in human cells |
| 17:35-17:45 | Hidetaka Ito - Transgenerational effects and genomic impacts in environmental stress |
| 19:00-22:30 | Dinner at Monterey Bay Aquarium: buses depart at 18:45 from (Phoebe A. Hearst Social Hall) |
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Monday, February 27, 2012 |
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| 7:30-8:30 | Breakfast (Crocker Dining Hall) |
| 9:00-9:25 | Damon Lisch - We have met the enemy and he is us: co-regulation of transposons and genes during plant development |
| 9:25-9:40 | Marie-Angele Grandbastien - Retroviral-type LTRs as intermediate of the stress response in tobacco |
| 9:40-9:50 | Darrell Lizamore - The effect of environmental stress events on the mobility of four LTR retrotransposon families in grapevine (Vitis vinifera) somatic embryo cultures |
| 9:50-10:05 | Marie-Anne Van Sluys - Plant LTR-RT study reveals fine-scale individual molecular patterns |
| 10:05-10:30 | Susan Wessler - Genome-wide impact of a MITE burst in rice after just 20 generations |
| 10:30-10:50 | Coffee-break (Chapel) |
| 10:50-11:15 | Irina Arkhipova - Rotifer genomes as a source for discovery of novel types of TEs and TE-related genes |
| 11:15-11:25 | Eugene Gladyshev - Biochemical properties of NcRVT protein encoded by a reverse transcriptase-like gene from Neurospora crassa |
| 11:25-11:35 | Ken Kraaijeveld - Transposon proliferation in an asexual parasitoid |
| 11:35-11:45 | Jens Bast - Comparing the transposable element load in sexual and asexual oribatid mites using whole genome information |
| 11:45-11:55 | Sarah Schaack - Transposable Element Copy Number in Sexual and Asexual Daphnia |
| 12:00-13:00 | Lunch (Crocker Dining Hall) |
| 13:20-13:45 | Dmitri Petrov - Population genetics of transposable elements in Drosophila |
| 13:45-14:10 | Cristina Vieira - Drosophila endogenous retrovirus regulation in natural populations |
| 14:10-14:25 | Josefa Gonzalez - Adaptive TE insertions in Drosophila |
| 14:25-14:35 | Claudia Carareto - Ancestral polymorphism and re-introduction of transposable elements in Drosophila |
| 14:35-14:45 | Grace Yuh Chwen Lee - Long-term and short-term evolutionary impacts of transposable elements on Drosophila |
| 14:45-14:55 | Anna-Sophie Fiston-Lavier - Screening for transposable element-induced adaptations in Drosophila melanogaster using next-gen sequencing data |
| 14:55-15:05 | Rita Daniela Fernandez-Medina - RNAseq reveals abundant transposable element expression in the mosquito Anopheles funestus |
| 15:05-15:35 | Coffee-break (Chapel) |
| 15:35-16:00 | Eugene Koonin - The multilayer eukaryotic mobilomes: viruses as mobile elements and mobile elements of giant viruses |
| 16:00-16:25 | Marcella McClure - The mutualism continuum of retroids |
| 16:25-16:50 | Vladimir Kapitonov - "Simple" DNA transposons: scratching the surface |
| 16:50-17:15 | Arian Smit - Digging deeper in time; approaches to study ancient transposable elements | 17:15-17:25 | Sarah Oliveira - Transposable elements: maintenance of centromeric regions and chromosome B origin |
| 17:25-17:35 | Erez Levanon - Large scale DNA editing of retrotransposons accelerates mammalian genome evolution |
| 17:35-17:45 | Julia Arand - Highthrouput DNA methylation analysis of repetitive elements by hairpin bisulfite sequencing |
| 18:00-19:00 | Dinner (Woodlands) |
| 19:30-19:55 | Wojciech Makalowski - Repetitive Sequences: Beyond RepBase and RepeatMasker |
| 19:55-20:05 | Travis Wheeler - Improved Transposable Element Detection With Profile HMMs In nhmmer |
| 20:05-20:15 | David Pollock - Transposable Element Diversification and Evolution |
| 20:15-20:25 | Casimir Bamberger - Discovery and Analysis of Transposable Elements with Shotgun Proteomics |
| 20:25-23:00 | Happy Hours / poster session (Fred Farr Forum) |
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Tuesday, February 28, 2012 |
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| 7:30-8:30 | Breakfast (Crocker Dining Hall) |
| 12:00-13:00 | Lunch (Crocker Dining Hall) |
