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Session 2 – Cell Wall, Biomass and Biofuels KEYNOTE LECTURE S2.4- Natural diversity from genomics to phenomics John P. Vogel USDA-ARS Western Regional Research Center, Albany, CA, 94710 USA john.vogel@ars.usda.gov Abstract Natural variation in genomic sequence and the resultant phenotypic variation are valuable tools for determining gene function. To develop resources to allow researchers to use natural variation as a research tool my laboratory together with an international group of collaborators has initiated several projects focused on natural diversity in Brachypodium distachyon. To provide a genomic foundation for these studies we are resequencing 56 natural accessions through the US Department of Energy Joint Genome Institute. Analysis of the first six accessions is nearly complete and shows tremendous diversity with SNP frequencies ranging from 200-600 base pairs per SNP. To survey the phenotypic diversity in a large collection of natural accessions we are collaborating with the High Resolution Plant Phenomics Facility in Canberra, Australia. In addition, we are creating homozygous T-DNA lines for phenotypic analysis. Another area of interest is the use of the related, but perennial, species B. sylvaticum as a tool to understand the genetic basis of perenniality. Initial steps in this direction include the development of an efficient transformation system and surveying genetic diversity in a small collection of B. sylvaticum accessions. Keywords natural diversity, resequencing, phenotype, Brachypodium sylvaticum, transformation 19
Session 2 – Cell Wall, Biomass and Biofuels S2.5- Functional characterization of candidate cell wall genes in B. distachyon Pubudu Handakumbura, Gina M. Trabucco, Michael V. Veling, Dominick A. Matos, Karen S. Osmont, Scott J. Lee, Samuel P. Hazen Biology Department, University of Massachusetts, 221 Morrill Science Center III, Amherst, MA, 01003, USA hazen@bio.umass.edu Abstract The cell wall is a complex composite of polysaccharides, proteins, and lignin, with lignin and cellulose representing two of the most abundant bio-organic compounds on Earth. Much of what is currently understood about the transcriptional regulation of cell wall biosynthesis is from the study of Arabidopsis thaliana xylem vessels and fibers, yet this understanding may not be generalizable across land plants. The cell walls of grasses, including domesticated cereals that provide the majority of human calories and the perennials under development as biofuel energy crops, differ significantly in morphology and composition from the eudicot A. thaliana. We are taking a reverse genetics approach to understand the transcriptional regulation of secondary cell wall biosynthesis using the grass model system Brachypodium distachyon. In order to confirm transcription factor targets, we have silenced and confirmed candidate cellulose and lignin associated genes using artificial microRNAs. Using our well establish yeast one-hybrid assay, we are testing for activity between cis-regulatory regions of those genes and a collection of transcription factor proteins. In doing so, we seek to resolve the regulatory networks leading to cellulose and lignin synthesis. Keywords Transcription factor, secondary cell wall, gene expression 20
Page 2 and 3: Acknowledgements: Institut National
Page 4 and 5: Contents Programme 4 Oral presentat
Page 6 and 7: Wednesday 19 th October, 2011 11:00
Page 8 and 9: Friday 21 st October, 2011 Biotic a
Page 10 and 11: ORAL COMMUNICATIONS 9
Page 12 and 13: Session 1 - Evolution and Natural V
Page 18 and 19: Session 2 - Cell Wall, Biomass and
Page 26 and 27: Session 3 - Tools and Bioengineerin
Page 32 and 33: Session 4 - Biotic and Abiotic Stre
Page 42 and 43: Session 5 - Plant Development, Meta
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Session 5 - Plant Development, Meta
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Session 5 - Plant Development, Meta
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S: Speakers’ abstracts P: Posters
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LIST OF PARTICIPANTS 75
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BOUCHABKE-COUSSA Oumaya INRA IJPB I
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GIRALDO Patricia E.T.S.I. Agronomos
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MARION-POLL Annie INRA IJPB Institu
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RENAULT Hugues CNRS - IBMP Institut
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WARD Eric Two Blades Foundation, P.
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