Final Program

Metabolic Engineering III

Cheyenne Mountain Conference Resort
3225 Broadmoor Valley Road
Colorado Springs, Colorado 80906
T: 1-719-538-4000 -- F: 1-719-576-4186

Conference Chair
A.J. Sinskey
Massachusetts Institute Technology, USA

Conference Co-Chairs
Jay Bailey
Swiss Federal Institute of Technology, SWITZERLAND
Barry Buckland
Merck Research Laboratories, USA

Poster Co-Chairs
S. Nidositko, Merck Research Labs.
F. Chaplen, Oregon State University
K. Jones, Merck Research Labs.
J. Keasling, University of California

United Engineering Foundation, Inc.
Three Park Avenue
New York, NY 10016
T: 1-212-591-7836 - F: 1-212-591-7441 - E: engfnd@aol.com

PROGRAM COMMITTEE
Dr. Kerr Anderson, Dow Chemical Company, USA
Dr. Douglas Cameron, Cargill, USA
Dr. Suan Choo Cheah, Palm Oil Research Institute of Malaysia, Malaysia
Dr. Guy della-Cioppa, Biosource Genomics, USA
Dr. Stephen W. Drew, Princeton University, USA
Professor Jean-Marc Engasser, Institut National Polytechnique de Lorraine, France
Professor David Fell, Oxford Brooke University, UK
Professor John W. Frost, Michigan State University, USA
Professor Daryl K. Granner, Vanderbilt University, USA
Dr. Paul Hanke, Archer Daniels Midland Co., USA
Professor J.J. Heignen, Technical University of Delft, Netherlands
Dr. Fred G. Heineken, National Science Foundation, USA
Professor Dhinakar S. Kompala, University of Colorado, USA
Dr. Philip A. Lessard, Massachusetts Institute of Technology, USA
Professor James Liao, University of California, Los Angeles, USA
Dr. Jeremy Minshull, Maxygen, Inc., USA
Professor Bernhard O. Palsson, University of California, USA
Professor Andreas Plueckthun, University of Zurich, Switzerland
Professor Hermann Sahm, Institute for Biotechnology-Juelich, Germany
Dr. Frank A. Skraly, Metabolix, USA
Professor Peter Sorger, Massachusetts Institute of Technology, USA
Professor John Villadsen, Technical University of Denmark, Denmark
Professor Larry Wackett, University of Minnesota, USA
Professor Hans Westerhoff, Free University of Amsterdam, Netherlands
Dr. Oskar Zelder, BASF Aletiengesellschaft, Germany

STEERING COMMITTEE
The following members provided continuing direction in the development and focus of the Metabolic Engineering Conferences in association with the United Engineering Foundation:
Professor Anthony J. Sinskey, Massachusetts Institute of Technology - USA
Professor James E. Bailey, Swiss Federal Institute of Technology - Switzerland
Professor Matthias Reuss, University of Stuttgart - Germany
Professor Gregory Stephanopoulos, Massachusetts Institute of Technology - USA
Dr. Barry C. Buckland, Merck Research Laboratories - USA

The Conference Chairs, Program Committee, Steering Committee and the United Engineering Foundation would like to thank the following sponsors of this conference:
U.S. National Science Foundation
Corporate
ABEC Inc.
Allentown, Pennsylvania
BASF
USA
BioInformation Associates
Boston, Massachusetts
Cargill Inc.
Minneapolis, Minnesota
Dow Chemical Company
Midland, Michigan
DSM
Delft, Netherlands
E.I. Dupont de Nemours & Co.
Wilmington, Delaware
Eli Lilly and Company Research Laboratories
Indianapolis, Indiana
Lonza Biologics Plc
Slough, Berkshire, United Kingdom
Maxygen
Redwood City, California
Merck Research Laboratories
Rahway, New Jersey
Monsanto
USA
Pfizer Central Research
Groton, Connecticut
Roche Vitamins Inc.
Nutley, New Jersey
Yamanounchi Pharmaceuticals Co., Ltd.
Ibaraki, Japan

Sunday, October 22, 2000

15:00 - 18:30 Registration

18:30 - 19:00 Welcome and Conference Overview
Tony Sinskey, Conference Chair
Barry Buckland, Conference Co-chair
Allen Laskin, UEF

19:00 - 20:00 OPENING ADDRESS:
Willem Stemmer
Vice-President R&D, Maxygen, Inc., USA
Engineering of Complex Systems by Molecular Breeding

20:00 - 21:30 Dinner

21:30 - 22:30 Social Hour

Monday, October 23, 2000

06:30 - 08:30 Buffet Breakfast

08:30 - 12:00 SESSION I
EXPERIMENTAL AND COMPUTATIONAL TOOLS

Session Chairs
Jean-Marc Engasser, Institute National Polytechnique, FRANCE
David Fell, Oxford Brookes University, UNITED KINGDOM

08:30 - 08:35 Session Chair Introduction: Jean-Marc Engasser

08:35 - 09:05 Metabolic Rate Modeling of Industrial Fermentations and Novel
Bioprocesses
David Mousdale
Bioflux, SCOTLAND

09:05 - 09:35 A Universal Software Framework for Metabolic Flux Analysis
Wolfgang Wiechert
University of Siegen, GERMANY

09:35 - 10:05 Metabolome Analysis: A Powerful Tool in Metabolic Engineering and
Functional Analysis
Jens Nielsen
Technical University of Denmark, DENMARK

10:05 - 10:35 Coffee Break

10:35 - 10:40 Session Chair Introduction: David Fell

10:40 - 11:10 From Analysis to Synthesis: Metabolic Engineering of Saccharomyces cerevisiae
Matthias Reuss
University of Stuttgart, GERMANY

11:10 - 11:40 Unifying Kinetic and MCA Based Models in Metabolic Engineering
J.J. Heijnen
Delft University of Technology, THE NETHERLANDS

11:40 - 12:00 Discussion

12:00 - 13:30 Lunch

13:30 - 16:00 Ad hoc discussions/free time
Poster Session I set up

16:00 - 16:30 Afternoon Coffee/Refreshments

16:30 - 20:00 SESSION II
EVOLUTIONARY STRATEGIES AND METABOLIC ENGINEERING
Session Chairs
Charles Squires, Dow Chemical Corp., USA
Gjalt Huisman, Maxygen, USA

16:30 - 17:00 Understanding How Nature Re-Engineers Proteins for New Functions
Patricia Babbitt
University of California-San Francisco, USA

17:00 - 17:30 Stochastic Modeling and Optimization of Directed Evolution Protocols
Costas D. Maranas
The Pennsylvania State University, USA

17:30 - 18:00 Purification, cDNA Cloning, and Improvement of Activity by Directed
Evolution of a Novel Ketoreductase from Zygosaccharomyces rouxii
Charles Hershberger
Eli Lilly & Company, USA

18:00 - 18:30 Directed Evolution of Sulfur Heterocycle Metabolism Through Flux
Analysis, "Classical" Genetic Engineering, Gene Shuffling and Lucky Guesses
Phil DiGrazia
Enchira Biotechnology Corp., USA 18:30 - 19:00 Directed Molecular Evolution for Metabolic Engineering
Gjalt Huisman
Maxygen, USA

19:00 - 19:30 Evolutionary Engineering of Multiple-Stress Resistant Saccharomyces
cerevisiae
Uwe Sauer
ETH Zürich, SWITZERLAND

19:30 - 20:00 Discussion

20:00 - 21:30 Dinner

21:30 - 22:30 Poster Session I / Social Hour
Session Co-Chairs
Sheri Nidositko, Merck Research Labs., USA
Frank Chaplen, Oregon State University, USA

Tuesday, October 24, 2000

06:30 - 08:30 Buffet Breakfast

08:30 - 12:00 SESSION III
BIOINFORMATICS AND METABOLIC ENGINEERING

Session Chairs
Gregory Stephanopoulos, Massachusetts Institute of Technology, USA
Hans Westerhoff, Free University, THE NETHERLANDS

08:30 - 09:00 Filling in the Missing Pieces of of Biochemistry: The Role of Bioinformatics
Evgeni Selkov
Integrated Genomics, USA

09:00 - 09:30 Metabolic Pathway Databases and Software Tools
Pedro Romero
SRI International, USA

09:30 - 10:00 Cellular Bioinformatics: From Transcriptome to Metabolome … and
Back
Hans V. Westerhoff
Free University, NETHERLANDS

10:00 - 10:30 Coffee Break

10:30 - 11:00 Sequence-Structure-Function Mapping in Microbial Genomes
Shankar Subramanian
University of California at San Diego, USA

11:00 - 11:30 From Genes to Dynamic Molecular Networks
Roland Somogyi
Molecular Mining Corp., CANADA

11:30 - 12:00 Discussion

12:00 - 13:30 Lunch

13:30 - 16:00 Poster Session I (continued)

14:00 - 16:00 Workshop I
Applications of Microarray Technologies to ME
Chair: Philip Lessard, Massachusetts Institute of Technology

16:00 - 16:30 Afternoon Coffee/Refreshments

16:30 - 19:45
SESSION IV
EXPRESSION, COMPLEXITY, AND METABOLIC ENGINEERING
Session Chairs
Douglas Cameron, Cargill, USA
John Villadsen, Technical University of Denmark, DENMARK

16:30 - 17:00 Metabolic Control Engineering - A Post-Genomic Challenge
James Liao
University of California-Los Angeles, USA

17:00 - 17:30 Global Expression Analyses in C. glutamicum and E. coli
Steffen Schaffer
Institut biotechnologie, Jülich, GERMANY

17:30 - 18:00 Transcription Profiling for the Physiological Characterization of
Industrial Microorganisms
Bettina Kempf
BASF Lynx Bioscience AG, GERMANY

18:00 - 18:15 Stretch and Break

18:15 - 18:45 Metabolic Engineering with Artificial Transcription Factors
Casey Case
Sangamo Biosciences, USA

18:45 - 19:15 Expressional Analysis of Escherichia coli Genome During Low and High
Cell Density Growth
Yea-Tyng Yang
Rice University, USA

19:15 - 19:30 Discussion

19:30 - 21:00 Dinner

21:00 - 22:30 Social Hour/Last chance to see Posters from Session I

Wednesday, October 25, 2000

06:30 - 08:30 Buffet Breakfast

08:30 - 12:00 SESSION V
APPLICATION OF METABOLIC ENGINEERING TO PHARMACEUTICALS AND FINE CHEMICALS

Session Chair
Herman Sahm, Institut Biotechnologie, GERMANY

08:30 - 09:20 Directing the Stereoselective Synthesis of Indandiol in Rhodococcus
Philip Lessard and Daniel Stafford
Massachusetts Institute of Technology, USA

09:20 - 10:00 Engineered Microbes as Catalysts in Asymmetric Synthesis
Jon Stewart
University of Florida, USA

10:00 - 10:30 Coffee Break

10:30 - 11:10 Metabolic Engineering of â-Lactam Antibiotic Producing Fungi
Roel Bovenberg
DSM-Group. NETHERLANDS

11:10 - 11:50 A Novel Ca-D-pantothenate Preparation Manufactured by Large Scale
Fermentation
Walter Pfefferle
Dagussa-Hüls AG, GERMANY

11:50 - 12:00 Discussion

12:00 - 13:30 Lunch

12:00 - 14:00 Editorial Board meeting of Journal of Metabolic Engineering (by invitation)

13:30 - 16:00 Ad hoc discussions/free time
Poster Session II set up

14:00 - 15:00 Planning meeting for Metabolic Engineering IV

14:00 - 16:00 Workshop II
Case Studies in Application of ME to Pharmaceuticals and Fine Chemicals
Chairs
Uwe Sauer, ETH Zürich
Peter Salmon, Merck & Co, Inc.

16:00 Afternoon Coffee/Refreshments

16:30 - 19:00
SESSION VI
METABOLIC ENGINEERING: APPLICATIONS TO MEDICINE
Session Chairs
Martin Yarmush, Massachusetts General Hospital, Harvard Medical School, USA
Daryl Granner, Vanderbilt University. USA

16:30 - 17:00 Improving Suicide Gene Therapy by Enzyme and Pathway Engineering
Margaret E. Black
Washington State University, USA

17:00 - 17:30 Metabolic Flux Analysis of Hepatic Metabolic Response to Injury in the
Perfused Liver
Martin Yarmush
Harvard Medical School, USA

17:30 - 18:00 Metabolic Control Analysis and Mitochondrial Pathologies
Jean-Pierre Mazat
Bordeaux University, FRANCE

18:00 - 18:30 New Insights into Epidermal Growth Factor (EGF) Signal Transduction
via Mathematical Modeling
Birgit Schoeberl
Max-Planck Institute, GERMANY

18:30 - 19:00 Discussion

20:00 - 21:30 Dinner

21:30 - 23:00 Poster Session II / Social Hour
Session Co-Chairs
Kristala Jones, Merck Research Labs., USA
Jay Keasling, University of California, USA

Thursday, October 26, 2000

06:30 - 08:30 Buffet Breakfast

08:30 - 12:00 SESSION VII
METABOLIC ENGINEERING OF PLANTS

Session Chairs
Raviga Sambanthamurthi, MPOB, MALAYSIA
John Shanklin, Brookhaven National Laboratory, USA

08:30 - 09:00 Metabolic Engineering of Plants for Osmotic Stress Resistance
Andrew Hanson
University of Florida, USA

09:00 - 09:30 Challenges in Engineering Overproduction of Plant Alkaloids
Jacqueline V. Shanks
Iowa State University, USA

09:30 - 10:00 Genetic Engineering of Primary Carbohydrate Metabolism Within the
Potato (Solanum tuberosum)
Alisdair R. Fernie
Max-Planck Institute, GERMANY

10:00 - 10:30 Coffee Break

10:30 - 11:00 Controlling Modification of Fatty Acids for Improved Plant Oils
John Shanklin
Brookhaven National Laboratories, USA

11:00 - 11:30 Metabolic Flux in Oil Palm
Umi Salamah Ramli
MPOB, MALAYSIA

11:30 - 12:00 Lignin Biosynthesis: A Candidate for Metabolic Engineering in Woody
Plants
Ron Sederoff
North Carolina State University, USA

12:00 - 12:15 Discussion

12:15 - 13:30 Lunch

13:30 - 16:00 Poster Session II (continued)

16:00 Afternoon Coffee/Refreshments

16:30 - 20:00
SESSION VIII
THERAPEUTIC PROTEINS
Session Chair
Peter Gray, University of New South Wales, AUSTRALIA

16:30- 17:00 Metabolic Engineering in UDP-Galactose and CMP-NANA Pools in CHO
Cells in Order to Improve Glycosylation of Recombinant Glycoproteins
Thomas Ryll
Abgenix, USA

17:00 - 17:30 Optimization of the Synthesis of Recombinant Proteins in Yeast
Juan A. Asenjo
University of Chile. CHILE

17:30 - 18:00 Metabolic Engineering of CHO Cells - Use of Proteomics to Identify
Cellular Changes Associated with Recombinant Protein Expression
Peter Gray
University of New South Wales, AUSTRALIA

18:00 - 18:30 Discussion

SESSION IX
MERCK METABOLIC ENGINEERING AWARD LECTURE

Session Chair
Barry Buckland, Merck Research Labs.

19:00 - 20:00 Merck Award Lecture
Jay Bailey
ETH-Zurich, SWITZERLAND

20:00 - 22:00 Conference Banquet

22:00 - 23:00 Social Hour/Last chance to see Session II Posters

Friday, October 27, 2000

06:30 - 08:30 Buffet Breakfast

08:30 - 12:00 SESSION X
NEW DIRECTIONS IN METABOLIC ENGINEERING

Session Chairs
Matthias Reuss, University of Stuttgart, GERMANY
James Bailey, Swiss Federal Institute of Technology, SWITZERLAND

08:30 - 09:00 Image Informatics in the Quantative Analysis of Cell Physiology
Peter Sorger/Ilya Goldberg
Massachusetts Institute of Technology, USA

09:00 - 09:30 In vitro Metabolic Engineering for Functional Genomics and New Pathway Discovery
Jonathan Dordick
Rensselaer Polytechnic Institute. USA

09:30 - 10:00 Coffee Break

10:00 - 10:30 Metabolic Engineering Analysis of Single Cells
Friedrich Srienc
University of Minnesota, USA

10:30 - 11:00 After a Decade of Progress, an Expanded Role for Metabolic
Engineering
Gregory Stephanopoulos
Massachusetts Institute of Technology, USA

11:00 - 12:00 Conference wrap-up and discussion

12:00 - 13:30 Lunch and Adjournment

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