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Response to BERAC Review

Overview of JGI BERAC Recommendations Managing multi-lab environment Operation of user facility LSP program JGI Energy Portfolio. Response to BERAC Review.

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Response to BERAC Review

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  1. Overview of JGI BERAC Recommendations Managing multi-lab environment Operation of user facility LSP program JGI Energy Portfolio Response to BERAC Review

  2. “User facility providing DNA sequencing & analysis in support of DOE missions in alternative energy, carbon cycling & bioremediation.” JGI Mission www.jgi.doe.gov

  3. Cost-effective Sequencing at JGI FY06 capacity: 30 billion basepairs Cntr1 Cntr2 Cntr3 JGI Cntr4 Cntr5 Cntr6 NIH data provided by Jane Peterson, NHGRI

  4. Microbial Genome Program Proposed Accepted Community Sequencing Program Proposed Accepted Success of JGI User Programs

  5. Primary JGI User Distribution KEY: RED=Academic; Blue=National Laboratory; Black=Industry

  6. 1st Annual JGI User Meeting JGI User Meeting, April 2006 250 Users and potential users Sequence-based science talks Tours of JGI facility Poster sessions User Committee formed

  7. LLNL Managing in a multi-lab environment: Dual workforce at PGF Succession planning at PGF Coordination of partner tasks The JGI Partnership JGI Director LANL LBNL PNNL SHGC ORNL PGF

  8. Management of LBL/LLNL workforce Coordination of safety training & tracking EH&S MOU complete, waiting signatures LBL has 1º responsibility for EH&S Cyber-security MOU Committee configured, meets this month BERAC RecommendationsOperations and Management-1

  9. Succession planning for key JGI positions Hired production sequencing lead Senior managers identified “seconds” Seconds contribute to weekly mgmt meetings BERAC RecommendationsOperations and Management-2

  10. Coordination of JGI partner lab tasks: Weekly genome management conference call Monthly partners conference call “Finishing in the future” meeting Eukaryotic Genome Program summit BERAC RecommendationsOperations and Management-3

  11. Efficiency of the user facility: User Agreement DNA Libraries Sequencing scales easily Peer review Project management Asssembly Assembly & annotation throughput BERAC RecommendationsUser Facility Proposals Sequencing Annotation

  12. Managing the User Facility: Peer review MGP and CSP programs/review groups merged Broadened geographical representation Electronic proposal submission & review Letter-of-intent process User committee input on peer review committees BEERAC RecommendationsUser Facility-1

  13. Managing the User Facility: Formal project management Appointed project management lead Hired 2 new project managers Launched Global Project Tracking System End-of-project survey in draft form BEERAC RecommendationsUser Facility-2

  14. Managing the User Facility: Improve large genome analysis throughput JAZZ assembly program overhauled 2 programmers hired into assembly group 3 people hired into annotation group BERAC RecommendationsUser Facility-3

  15. Lab Science Program • LSP created by new JGI MOU • Facilitate access to JGI for Natl. Lab investigators • Fulfill programmatic sequencing needs of DOE • Shape JGI products and services to meet needs of the Natl. Labs • BERAC concerns • Scientific vision for LSP • Implementation

  16. LSP lead Appointed Jerry Tuskan, ORNL, Jan ‘06 Focus on bioenergy LSP lead now reports to JGI Director Implementation Lab points-of-contact identified Small-scale sequencing program 14 proposals received, 10 approved to date Large-scale sequencing program Plant Genomes for Energy white paper Fungal Genomes for Energy white paper BERAC RecommendationsLSP Program

  17. 2% Transportation Fuels Petroleum – 98% Bioenergy & the JGI Corn based ethanol Soy-based biodiesel NSF/USDA/DOE funded project LSP project Transportation Fuels

  18. Saccharomyces cerevisiae • Zymomonas mobilis • Thermoanaerobacter ethanolicus • Pichia stipitis Improved Feedstocks Ethanol producing organisms • Cellulosic Materials • Poplar • Maize/Corn Stover • Switchgrass • Brachypodium • Sorghum • Improved cellulose & lignin degradation • Termite hindgut microbiota • White Rot Fungus • Clostridium thermocellum • Saccharophagus degradans • Acidothermus cellulolyticus JGI and Bioenergy Saccharification Fermentation Cellulose Sugars

  19. Auxin Regulation of Poplar Shape 7.1 transgenic control 4.4 stem cross sectional area (cm) 90-day-old Populus cuttings Enhanced radial growth of IAA16.3 transgenic trees IAA16.3 Control

  20. New Cellulase Genes from Termite Gut Cellulose 15 Endoglucanases 12 Exoglucanases Cellobiose H2O P Cellobiose phosphorylase 22 -glucosidase P Glc Glc Glc Glc-1-P

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