Technical Program - 2006 Annual Meeting
Industrial Microbiology and Biotechnology Meeting
Baltimore Marriott Waterfront Hotel
July 30 - August 3

SUNDAY, JULY 30

6:00 pm
Keynote Address
Official opening of the Society for Industrial Microbiology Annual Meeting
The meeting will officially open with a keynote address by Dr. Gregory Stephanopoulos of the Massachusetts Institute of Technology: "Rethinking cell and metabolic engineering: Eliciting usually unreachable phenotypes via global Transcriptional Machinery Engineering (gTME)."

MONDAY MORNING, JULY 31

8:00 am
Session 1: Bio-based industrial products
Convener: B.C. Saha, USDA-ARS-NCAUR, Peoria, IL

Bioethanol production from wheat straw
B.C. Saha, M.A. Cotta, USDA-ARS-NCAUR, Peoria, IL

Biocatalytic oxidation of lactose to lactobionic acid, a useful sugar material H. Nakano, Osaka Municipal Technical Research Institute, Osaka, Japan

Direct lactic acid fermentation from starch and xylooligosaccharide with novel lactic acid bacteria and construction of the efficient systems
K. Sonomoto,* K. Shibata, M. Owaki, G. Kobayashi, H. Ohara, Kyushu University, Fukuoka, Japan

Efficient production of Vitamin B12 using Propionibacterium with metabolic analysis K. Shimizu,* K. Ye, K. Miyano, Kyushu Institute of Technology, Fukuoka, Japan

Microbial production of 1,3-propanediol: the European approach A-P. Zeng, GBF-German Research Center for Biotechnology

Production and release of ectoines by Brevibacterium epidermis
E.J. Vandamme,* A. Onraedt, B. Walcarius, W. Soetaert, Ghent University, Ghent, Belgium

8:00 am
Session 2: Upstream Process Development for Mammalian Cell Culture: from Tiny Cells to Large Reactors
Conveners: Jinyou Zhang, Merck & Co., Rahway, NJ and WengLong Lin, Shire Human Genetic Therapies, Inc., Cambridge, MA

Overview of mammalian cell line development
Y.A. Cai, Eli Lilly & Co., Indianapolis, IN

A novel and highly effective iron delivery system for mammalian cell growth and recombinant protein production
J. Zhang, D. Robinson, P. Salmon, Merck & Co., Inc., Rahway, NJ

Development and scale-up of a perfusion cell culture process for production of therapeutic protein
W.L.R. Lin, Shire Human Genetic Therapies, Inc., Cambridge, MA

Environmental effects on product quality: Approaches to understanding and controlling glycosylation of recombinant proteins
M. Gawlitzek,* R. Kiss, D. Andersen, Genentech, Inc., South San Francisco, CA

Strategy and execution of material delivery for safety assessment and proof of novel therapeutic molecules
J. Zhu,* B. Keseling, J. Roach, G. Mitra, S.P. Creekmore, National Cancer Institute and SAIC-Frederick, Inc., Frederick, MD

Designing a productive, scaleable cell culture process to make high quality monoclonal antibodies
V. Yabannavar,* D. Inlow, K. Namdev, C. Wheeler, J. Leng, J. Rlf, V. Levi, Chiron Corp., Emeryville, CA

8:30 am
Session 3: Recent chemical and enzymatic strategies for natural product diversification
Convener: Jon Thorson, University of Wisconsin

TBA
M. Chaparian, SelectX Pharmaceuticals

Bleomycin mechanism of action: Lessons from a combinatorial library
S.M. Hecht, University of Virginia, Charlottesville, VA

The origins of triterpenoid structural diversity
S. Matsuda, Rice University, Houston, TX

Using combinatorial biosynthesis for the generation of structural diversity in natural products
J.A. Salas, University of Oviedo, Oviedo, Spain

Challenges and opportunities in natural product glycosylation
J.S. Thorson, University of Wisconsin, Madison, WI

8:30 am
Session 4: Engineering enzyme biocatalysts towards commercial utility
Convener: Andreas Bommarius, Georgia Tech. University, Atlanta, GA

Protein engineering of glycerol dehydratase
X-S. Tang et al. Dupont Central R&D, Wilmington, DE

Rational improvement of enzymes for synthetic utility
J.S. Dordick, Rensselaer Polytechnic Institute, Troy, NY

Identifying the interacting positions of a protein using Boolean learning and Support Vector Machines
A. Dubey, M. Realff, J. Lee, and A. Bommarius,* Georgia Institute of Technology, Atlanta, GA

Engineering biocatalysts using ProSAR driven enzyme evolution
R.J. Fox, Codexis, Redwood City, CA

Screening microbial libraries by ToF-SIMS surface analysis
D.P. O'Keefe, K.G. Lloyd DuPont Central Research & Development, Wilmington, DE

Strategies to overcome catalyst limitations for early stage process development
D.Pollard,* M. Truppo, C. Roberge, P. Devine, Merck Research Laboratories, Rahway, NJ

8:30 am
Session 5: Wastewater microbiology: Nutrient-removing activities of bacteria and new discoveries
Conveners: Valerie Benning and S. Tarallo, In-Pipe Technology

Sewer biofilm-ignore it at your own risk
S. Tarallo, In-Pipe Technology Co. LLC, Wheaton, IL

Fundamentals and economics of biological nutrient removal wastewater treatment
C.W. Randall, Virginia Tech University, Blacksburg, VA

Trace contaminants in wastewater treatment plants, reclamation systems and receiving streams: Evaluating the implications of their occurrence
B.M. Stinson, Metcalf and Eddy, Laurel, MD; P. Phillips, U.S. Geological Survey, Reston, VA

Microbiology and application of the Anammox Process
W. Rl. van der Star,* C. Picioreanu, M.C.M. van Loosdrecht, Delft University of Technology, Delft, The Netherlands; B. Kartal, M. Strous, Radboud University, Nijmegen, Nijmegen, The Netherlands; W. Abma, Paques BC, Balk, The Netherlands; J-W. Mulder, Waterschap Hollandses Delta, The Netherlands; M.S.M. Jetten, Delft University, Delft, NL and Radboud University, Nijmegen, Nijmegen, NL

Deammonification in a full-scale pH-controlled SBR
B. Wett, University of Innsbruck, Innsbruck, Austria; S. Murthy,* DC Water and Sewer Authority, Washington, DC; B. Stinson, Metcalf & Eddy, Laurel, MD

8:30 am
Session 6: Proteomics of the Future

Conveners: Daniel Drell, DOE and Scott Baker, Pacific Northwest National Laboratory, Richland, WA

Enzyme genomics: Application of general enzymatic screens to discover new enzymes
E. Kuznetsova, M. Proudfoot, S. Sanders, C. Gonzalez, O. Litvinova, A. Savchenko, C. Arrowsmith, A. Edwards, A. Yakunin*, University of Toronto, Toronto, ON, Canada

TBA
S. Xie, Harvard University, Cambridge, MA

High throughput proteomics: Biomarker discovery versus biological insights
M. Lipton, Pacific Northwest National Laboratory, Richland, WA

New technology for protein interaction network and topology analysis
J.E. Bruce,* X. Tang, W. Yi, S. Chowdhury, G. Munske, Washington State University, Pullman, WA; G. Anderson, N. Tolic, Environmental Molecular Sciences Laboratory, Richland, WA

TBA
F. Collart, Argonne National Laboratory, Argonne, IL

MONDAY AFTERNOON, JULY 31

1:00 pm
Session 7: Advances in Industrial Microbiology and Biotechnology in Mexico
Convener: Sergio Sanchez, UNAM, Mexico City, Mexico

Metabolic engineering of Escherichia coli for production of aromatic compounds
G. Gosset, J.L. Baez-Viveros, J. Osuna, G. Hernandez-Chavez, N. Flores, K. Juarez, X. Soberon, F. Bolivar, Inst. Biotecnol. UNAM, Cuernavaca, Morelos, Mexico

Evaluating the impact of heterogeneities in cultures of animal cells and recombinant microorganisms through the scale-down approach
O.T. Ramirez, Inst. Biotecnol., UNAM, Cuernavaca, Morelos, Mexico

Functional studies on the lactobacilli a-amylase raw starch-binding domain
D. Guillen, R. Perez, N. Oviedo, S. Sanchez, R. Rodriguez-Sanoja,* Inst. Investigac. Biomed, UNAM, Coyoacan, Mexico

Peroxidase activity for environmental purposes: Opportunities and challenges
R. Vasquez-Duhalt, Inst. Biotecnol., UNAM, Cuernavaca, Morelos, Mexico

Microbial production of aromas: The Safranal example
S. Sanchez,* M.E. Lugo, S. Villanueva, C. Cardenas, L. Del-Toro, Inst. Investac. Biomed., UNAM, Mexico City, Mexico and CIATEJ, Guadalajara, Jalisco, Mexico

1:00 pm
Session 8: Mammalian and Insect Cell Culture for Biotechnology Applications
Conveners: Michael Betenbaugh, Johns Hopkins University, Baltimore, MD and William Bentley, University of Maryland, College Park, MD

Optimization of cell processes using selective feeding strategies
S. Ozturk, Centocor, Inc.

Cell culture engineering at GlaxoSmithKline
O. Lara-Velasco,* I. Blumentals, GlaxoSmithKline, King of Prussia, PA

Cell culture engineering at MedImmune
D. Lindsay, MedImmune

Anti-apoptosis engineering in mammalian cell culture
M. Betenbaugh, Johns Hopkins University, Baltimore, MD

Cell culture engineering at the University of Maryland
W. Bentley, University of Maryland, College Park, MD

1:00 pm
Session 9: Natural Products: New Products, New Pathways
Convener: Bradley Moore, University of California San Diego, San Diego, CA

New products from "old" pathways: The value of perseverance
G.T. Carter, Wyeth Research, Pearl River, NY

Discovery of platensimysin, a FabF inhibitor from natural products screening using a novel strategy
S.B. Singh, Merck Research Laboratories, Rahway, NJ

Discovering new molecules from uncultured microbes
J. Clardy,* S. Brady, Harvard University, Cambridge, MA

Genome mining and biochemical approaches to symbiotic natural products from environmental DNA
E.W. Schmidt,* M. Donia, B. Hathaway, University of Utah, Salt Lake City, UT; S. Sudek, University of California San Diego, CA; M.G. Haygood, Oregon Health & Science University, Beaverton, OR; M.J. Rosovitz, J. Ravel, The Institute for Genomic Research, Rockville, MD
E.W. Schmidt, University of Utah

Mining Salinispora genomes for natural products and pathways
B.S. Moore,* University of California, San Diego, CA

1:00 pm
Session 10: Molecular Tools for the Metabolic Engineer
Convener: Christina Smolke, California Institute of Technology, Pasadena, CA

Intracellular protein crosslinking: Towards the assembly of multifunctional enzyme machines
R.J. Conrado, M.P. DeLisa,* Cornell University, Ithaca, NY

Tunable promoters for strain analysis and optimization in metabolic engineering
G. Stephanopoulos, C. Fischer,* Massachusetts Institute of Technology, Cambridge, MA

Programmable nucleic acid-based sensors as general tools for optimizing flux through synthetic metabolic networks
C.D. Smolke, California Institute of Technology, Pasadena, CA

Routine whole genome resequencing using DNA microarrays:: Tracking strain evolution at the single base level
T.J. Alberts,* J. Norton, M. Molla, J. Singh, T. Richmond, R. Green, NimbleGen Systems, Inc., Madison, WI; G. Dailide, D. Dailidiene, D.E. Berg, Washington University, St. Louis, MO

Engineering microbial metabolism for production of isoprenoids
J.D. Keasling, University of California, Berkeley, CA

1:00 pm
Session 11: Fungal Genome Bioinformatics
Convener: G. Butler, Concordia University, Montreal, Quebec, Canada

Comparative gene finding in Aspergillus fumigatus and Aspergillus nidulans
M. Pertea,* S. Salzberg, University of Maryland, College Park, MD

Textpresso: A tool for literature curation
H-M. Muller,* P.W. Sternberg, California Institute of Technology, Pasadena, CA

Structural phylogenomic inference of protein function
K. Sjolander, University of California, Berkeley, CA

Comparative genomics of the oomycete plant pathogen Phytophthora
R.H.Y. Jiang,* Virginia Tech University, Blacksburg, VA and Wageningen University, Wageningen, The Netherlands; S. Tripathy, B.M. Tyler, Virginia Tech University, Blacksburg, VA; J. „in, Ohi State University, Wooster, OH; F. Govers, Wageningen University, Wageningen, The Netherlands

Sequence-based analysis of fungal secretomes
N. O’Toole, X.J. Min, G. Butler,* R. Storms, A. Tsang, Concordia University, Montreal, Quebec, Canada

1:00 pm
Session 12: Marcel Faber Roundtable: On the road to economical biofuels: Are we there yet?
Convener: Linda Lasure, Pacific Northwest National Laboratory

Panelists:
D. Kaempf, Office of the Biomass Program, USDOE, Washington, DC
G. Luli, Celunol Corp., Alachua, FL
G. Asrar, Natural Resources and Sustainable Agricultural Systems, Beltsville, MD
L. Tong, National Biodiesel Board, Jefferson City, MO

4:00 - 6:00pm
Session 13: Poster Session 1
Posters may be submitted after April 14 on a space-available basis.
Links: Paper and Poster Abstract Form (.doc) | Paper and Poster Abstract Instructions (.doc)

6:00 - 9:00pm
Session 14: Alma Dietz Actinomycete Roundtable and Dinner
From the mountain to the clinic: Streptomyces roseosporus and daptomycin
R. Baltz, Cubist Pharmaceuticals, Lexington, MA
A separate ticket is required to attend.

TUESDAY MORNING, AUGUST 1

8:30am
Session 15: Production of Therapeutic Proteins in Yeast and Filamentous Fungi
Convener: Tillman Gerngross, Dartmouth College, Hanover, NH

The K. lactis system
C. Taron, New England Biolabs

The C1 expression system for the production of therapeutic proteins
R.P, Burlingame, Dyadic International, Inc.

Analysis and optimization of recombinant Pichia pastoris with modern high-throughput methods
D. Mattanovitch, University of Natural Resources and Applied Life Sciences, Vienna, Austria

Production of recombinant proteins in the methylotrophic yeast Pichia pastoris
J. Cregg, Keck Graduate Inst. of Applied Life Sciences, Claremont, CA

Fungal protein expression systems with humanized secretory pathways: the answer to therapeutic protein production?
T. Gerngross, Dartmouth College, Hanover, NH

8:30am
Session 16: Enabling Technologies for Natural Product Research
Conveners: Kevin Reynolds, Portland State University, Portland, OR and Greg Challis, University of Warwick, Warwick, UK

Increased yields and structural diversity for natural products: Testing and refining old ideas
K. Reynolds, Portland State University, Portland, OR

Production of fungal toxins by bacterial endosymbionts
C. Hertweck, Leibniz-Institute for Natural Products Research, Jena, Germany

Expanding the Role of Genetic Engineered Polyketides in Drug Discovery
G.W. Ashley. Kosan Biosciences, Hayward, CA

New natural products and biosynthetic pathways from genome mining
G.L. Challis, University of Warwick, Warwick, UK

Protein engineering and natural product biosynthesis through genetic selection: the nuclear receptor connection
D.F. Doyle, Georgia Institute of Technology, Atlanta, GA

TBA
J. Orjala, University of Illinois, Chicago, IL

8:30am
Session 17: Advances in Industrial Enzymes
Convener: Debbie Yaver, Novozymes, Davis, CA

Engineering protein catalysts for the synthesis and degradation of poly(omega-hydroxyfatty acids)
R.A. Gross, NSF I/UCR Center for Biocatalysis and Bioprocessing of Macromolecules, University of California, Riverside, CA

Putting engineering back into protein engineering
J. Minshull, DNA 2.0, Menlo Park, IL

Protein engineering of biocatalysts for industrial uses
A. Svendsen, Novozymes A/S, Bagsvaerd, Denmark

How enzymes acquire new catalytic activities
R. Kazlauskas, University of Minnesota, St. Paul, MN

Soil-based gene discovery to accelerate and broaden biocatalytic applications
M. Subramanian, University of Iowa, Iowa City, IA

8:30am
Session 18: Engineering Primary Metabolism - New Pathways to Old Products
Conveners: Hans Liao, Cargill, Minneapolis, MN and Ish Dhawan, Codexis, Redwood City, CA

Re-engineering E. coli for ethanol and lactate
L.O. Ingram, University of Florida, Gainesville, FL

Recent developments in the Acetone-Butanol-Ethanol fermentation
H.P. Blaschek, University of Illinois, Urbana, IL

Pathway engineering for enhanced succinate production
K-Y. San, Rice University, Houston, TX

Designing strains for selection of evolved pathways
F. Srienc, University of Minnesota, Minneapolis/St. Paul, MN

Metabolic engineering of an oleaginous yeast for production of Omega-3 fatty acids
S. Picataggio, DuPont, Wilmington, DE

Towards integration of biorefinery and microbial amino acid production
A. Marx, Degussa AG, Hanau, Germany

8:30am
Session 19: Quality assurance for food, water and environmental microbiology testing labs
Convener: R.S. Donofrio, NSF International, Ann Arbor, MI

Accreditation and the water microbiology laboratory
R.S. Donofrio, NSF International, Ann Arbor, MI

Method validation in food microbiology
R. Firstenberg-Eden, MicroSys, Inc., Ann Arbor, MI

Improving retail food safety through microbial test monitoring
J. Griffith, Wawa, Inc., Wawa, PA

HACCP plan development and food processors
C. Bedillion, NSF, Ann Arbor, MI

QC microbiology in the environmental water testing laboratory
T. Scott, BCS Laboratories, Gainesville, FL

8:30am
Session 20: Industrial Fungal Proteomics I
Conveners: Kim Brown, Novozymes, Davis, CA and Mark Marten, University of Maryland Baltimore County, Baltimore, MD

Proteomics as a tool for enzyme discovery in filamentous fungi-the search for novel enzymes from un-sequenced genomes
K. Brown, Novozymes, Inc., Davis, CA

Analysis of the Aspergillus flavus secretome
W.A. Francisco, Arizona State University, Tempe, AZ

Mass spectrometry identification of secreted enzymes involved in lignocellulose degradation by the white rot basidiomycete Phanerochaete chrysosporium
D. Cullen, USDA Forest Products Laboratory, Madison, WI

Defining the secretome of the wheat pathogen Fusarium graminearum
J. Walton, Michigan State University, East Lansing, MI

TUESDAY MORNING, AUGUST 1

1:00 - 2:00pm
Amgen Award Lecture
"Splendid gifts from microorganisms - Discovery, Chemistry and Chemical Biology" Dr. Satoshi Omura, The Kitasato Institute, Tokyo, Japan

2:00 pm
Session 21: US Federation for Culture Collections Roundtable: Cultures, Culture Collections and Industrial Microbiology
Convener: Micah Krichevsky, USFCC, Rockville, MD

The panel participants will discuss the role of culture collections as repositories of cultures (pure and mixed) providing a resource for industrial use. In considering this topic we shall discuss organization of information in culture collections to support industrial and environmental use of microbes, the utility and confusion arising from nomenclature of collection holdings, select agents collections for development of counter measures, culturing of microbes in situ to affect environmental change, and collection support of industrial microbiology in developing nations. The panel members will illustrate the broad range of interactions between industrial microbiology and collections in addition to the important repository function as sources of stock cultures.

Panelists:
M.I. Krichevsky, USFCC, Rockville, MD
C. Litchfield, George Mason University, Manassas, VA
M. Segal, US EPA, Washington, DC
M. Wolcott, USAMRIID, Ft. Detrick, MD

2:00pm
Session 22: Student Contributed Paper Session
Conveners: Susan Bagley, Michigan Technological University, Houghton, MI and Rob Donofrio, NSF International, Ann Arbor, MI

3:30pm
Session 23: Poster Session 2

6:30pm
Society Reception and Dinner
Dinner speaker: Dr. Arnold Demain, Drew University, Madison, New Jersey

WEDNESDAY MORNING, AUGUST 2

8:30am
Session 24: Cell and tissue culture models for drug development and therapies
Convener: J.H. David Wu, University of Rochester, Rochester, NY

Recombinant CHO cell line development for therapeutic proteins-a case study
S.S. Lee, Bristol-Myers Squibb, Syracuse, NY

Three-dimensionally engineered normal human broncho-epithelial tissue-like assemblies: Target tissues for human respiratory viral infections
T.J. Goodwin, NASA Johnson Space Center, Houston, TX

Differentiation of murine embryonic stem (ES) cells into osteoblasts in a rotational wall vessel
A. Mantalaris, Imperial College London, London, UK

Development of a 3-D bone marrow tissue mimicry
J.H. David Wu, University of Rochester, Rochester, NY

Stem cell technology in pharmaceutical drug discovery
J.E. Hambor, Pfizer Global Research

8:30am
Session 25: Production of nutraceuticals through strain and fermentation improvements
Convener: Adam Burja, Ocean Nutrition Canada, Dartmouth, NS, Canada

Integrated approach to improve microbial omega-3 fermentation process
H. Radianingtyas, Ocean Nutrition Canada, Dartmouth, NS Canada

A genome scale metabolic model of Lactobacillus plantarum and its use for pathway discovery and maximal nutraceutical production
J. Hugenholtz, NIZO Food Research, Ede, The Netherlands

Milking of microalgae
D.M. Kleinegris, Wageningen University, Wageningen, The Netherlands

Biosynthesis and heterologous production of docosahexaenoic acid (DHA) and other polyunsaturated fatty acids
R Zirkle, Martek Biosciences, Boulder, CO

Large scale production of astaxanthin from microalgae: Applications in human health and nutrition
M. Olaizola, Mera Pharmaceuticals, Kaulua-Kona, HI

8:30am
Session 26: New Technologies and Systems in Biocatalysis
Convener: Brian Bachmann, Vanderbilt University, Nashville, TN

Searching for promiscuous thermostable enzymes
N. Pohl, Iowa State University, Ames, IA

Development of a novel enzymatic NAD(P)H regeneration system for industrial biocatalysis
H. Zhao, University of Illinois, Urbana, IL

Evolution of unnatural azole nucleotide biosynthesis
B. Bachmann, Vanderbilt University, Nashville, TN

Production of biologically important oligosaccharides by biocatalysts
P.G. Wang, The Ohio State University, Columbus, OH

Engineering allosteric protein switches
M. Ostermeier, Johns Hopkins University, Baltimore, MD

8:30am
Session 27: Engineering Regulatory Networks
Conveners: James Liao, UCLA, Los Angeles, CA and Goutham Vemuri, Danish Technical University, Lyngby, Denmark

Enhancing bioprocesses using in silico metabolic engineering
J. Forster, Fluxome Sciences

Boosting isoprenoid biosynthesis: Expression of a bacterial mevalonate pathway in Rhodobacter sphaeroides
R. Lopez-Ulibarri, DSM Nutritional Products Ltd. Basel, Switzerland

Expression systems for improving Corynebacterium glutamicum production strains
H. Schroeder Research Fine Chemicals BASF-AG, Ludwigshafen, Germany

Elementary Network Decomposition: A framework for integration of knowledge on regulatory networks
Yandi Dharmadi and Ramon Gonzalez, Rice University, Houston, TX
Dissecting a pheromone switch for secondary metabolism in Streptomycetes
W-S Hu, University of Minnesota, Minneapolis, MN

Engineering redox balance to reduce overflow metabolism
G. Vermuri,*, J. Nielsen, L. Olsson Danish Technical University, Lyngby, Denmark; M.A. Eiteman, University of Georgia, Athens, GA

8:30am
Session 28: The Untapped Potential of Halophiles
Convener: Carol Litchfield, George Mason University, Manassas, VA

An unexplored group of triple extremophiles: haloalkalithermophiles
J. Wiegel, University of Georgia, Athens, GA

Stress response in the halopohilic Archaea: the role of ionic salt composition and concentration on protein expression.
P.T. Pesenti, George Mason University, Fairfax, VA

Halophilic biotransformation of aromatic compounds
B. Peyton, Montana State University, Bozeman, MT

The fallacy of sequence dependence as told by ancient microbes
R.H. Vreeland, West Chester University, West Chester, PA

Transcriptomic studies of the model Archeon Halobacterium sp. NRC-1
S. DasSarma, University of Maryland Biotechnology Institute, COMB, Baltimore, MD

8:30am
Session 29: Fungal Proteomics in Agriculture
Conveners: Thomas Mitchell, North Carolina State University, Raleigh, NC and Daren Brown, USDA-ARS-NCAUR, Peoria, IL

Applications of Functional Protein Chips
H. Zhu, Johns Hopkins School of Medicine, Baltimore, MD

Toward deconstruction of a Type I iterative polyketide synthase
C. Townsend, Johns Hopkins University, Baltimore, MD

Systemic proteome profiling of the Fusarium graminearum-maize interaction
S. Gleddie, Eastern Cereal and Oilseed Research Centre, Ottawa, ON, Canada

Alternaria proteomics: Towards identification of plant pathogenicity factors and human immunogenic proteins
C. Lawrence, Virginia Bioinformatics Institute, Virginia Polytechnic Institute and State University, Blacksburg, VA

Mass spectrometry for the proteomic detection of plant pathogenic fungi
B. Cooper, USDA-ARS Beltsville, Beltsville, MD

THURSDAY MORNING, AUGUST 3

8:30am
Session 30: Advances in Industrial Microbiology and Biotechnology in Canada
Convener: Susan Jensen, University of Alberta, Edmonton, Alberta Canada

Late steps in the biosynthesis of clavam metabolites by Streptomyces clavuligerus
S.E. Jensen, University of Alberta, Edmonton, AB, Canada

Innovations in expression strategies for production of monoclonal antibodies and recombinant proteins
D.I.H. Stewart, Cangene Corp.

Fermentation/cell culture capacity and infrastructure issues and developments
G. Macaloney, QSV Biologics, Edmonton, AB, Canada

Bio/cheminformatic analysis of bacterial genomes: a rational, effective approach in natural product drug discovery
M. Piraee, Ecopia Biosciences, Inc., St. Laurent, Quebec, Canada

Enabling technologies for natural product research
J. Archambault, Millenia Hope Biopharma, Laval, Quebec, Canada

8:30am
Session 31: Natural Product Mechanisms of Action
Convener: Jun Liu, Johns Hopkins University, Baltimore, MD

Identification of target molecules for antitumor compounds
H. Osada, RIKEN, Saitama, Japan

Chemical genetic approach to target identification of antitumor natural products
M. Yoshida, RIKEN, Saitama, Japan

Genomic approaches to the modes of action of bioactive small molecules
H. Luesch, University of Florida, Gainesville, FL

Regulation of Hsp90 by pharmacologic inhibition: A comparison of N- and C-terminal domain inhibitors
L. Neckers, National Cancer Institute, Bethesda, MD

Probing eukaryotic translation initiation using a marine sponge natural product
J.O. Liu, Johns Hopkins University School of Medicine, Baltimore, MD

8:00am
Session 32: Bacillus megaterium as industrial production host
Convener: Dieter Jahn, Technical University Braunschweig, Braunsweig, Germany

The versatility of B. megaterium, a genetic perspective
P. Vary, Northern Illinois University, DeKalb, IL

Metabolic flux analysis of B. megaterium strains by 13C substrates
W-D. Deckwer, German Research Center of Biotechnology

Strain development in B. megaterium with respect to enzyme production and biosafety
F. Meinhardt, University of Munster, Munster, Germany

High level production and export of recombinant proteins into the growth medium using B. megaterium
D. Jahn, Technical University Braunschweig, Braunschweig, Germany

The cell biology of the bacterial cytoskeleton
J. Pogliano, University of California, San Diego, CA

Commercial systems for protein production in B. megaterium
MoBiTec

8:00am
Session 33: Engineering Metabolic Networks Toward the Production of Novel products
Convener: Matheos Koffas, The State University of New York at Buffalo, Buffalo, NY

Carotenoid production in an obligate methanotroph, Methylomonas sp. 16a
M. Odom, DuPont CR&D, Wilmington, DE

Production of aromatic compounds by metabolic engineering
L. Huang, DuPont CR&D, Wilmington, DE

Metabolic engineering of plant polyphenols in microorganisms
M. Koffas, The State University of New York at Buffalo, Buffalo, NY

Engineering nitrate and nitrite metabolic systems in E. coli: A novel platform for the anaerobic synthesis of oxidized products
R. Gonzalez, Rice University, Houston, TX

DNA programmed chemistry for the discovery of biomolecules
E. Driggers, Ensemble Discovery

Engineering of biosynthetic reaction sequences for small molecule biosynthesis
C. Schmidt-Dannert, University of Minnesota

TBA
N. Renninger, Amyris

8:30am
Session 34: Extremophiles
Convener: Frank Robb, University of Maryland Biotechnology Institute, Baltimore, MD

Extreme microbial tourism? Safe solar system exploration
J. Rummel, National Aeronautics and Space Administration, Washington, DC

Microbial genome evolution in hydrothermal environments
J. Di Ruggiero, University of Maryland, College Park, MD

Environmental genome sequencing and proteomics of novel ultra-small Euryarchaeota from extremely acidic microbial communities
B.J. Baker, University of California Berkeley, Berkeley, CA

Some like it cold: Enzymes at extremely low temperatures
J. Koker, Penn State University, University Park, PA

Life in hot carbon monoxide, with hydrogen production
S. Techtmann, University of Maryland Biotechnology Institute, Baltimore, MD

8:30am
Session 35: Industrial Fungal Proteomics II
Conveners: Jon Magnuson, Pacific Northwest National Laboratory, Richland, WA and Valerie Sarisky-Reed, DOE Office of the Biomass Program, Washington, DC

Fungal proteomics at DSM
M. Olsthoorn, DSM

Proteomic and transcriptomic analysis of the ligninolytic system in the lignin-degrading basidiomycete Phanerochaete chrysosporium
H. Wariishi. Kushu University, Fukuoka, Japan

Shotgun proteomic analysis of Saccharomyces cerevisiae in high gravity fermentations
P.C. Wright, University of Sheffield, Sheffield, UK

Proteome analysis of Trichoderma reesei
E. Panisko, Pacific Northwest National Laboratory, Richland, WA

Metabolism of Aspergillus. Lessons from functional genomics
J. Nielsen, Technical University of Denmark, Lyngby, Denmark

THURSDAY AFTERNOON, AUGUST 3

1:00 - 2:00 pm
The Charles Thom Award Lecture
Patents for Patients – Opportunities in Microbial Products
Richard Monaghan,Monatay Entyerprises LLC, Morristownl NJ

2:00pm
Session 36: Genetics, Protein Expression and Morphology: Connecting the Dots in Fungal Fermentations
Convener: Swapnil Bhargava, Novozymes North America, Franklinton, NC

Influence of fungal morphology on industrial fermentation processes
R.P. Burlingame, Dyadic International, Inc.

Aspergillus niger morphology: Filamentness vs. Pelletness.
K Bruno, Pacific Northwest National Laboratory, Richland, WA

Studying micro and nano morphology of filamentous fungi
M.R. Marten, University of Maryland Baltimore County, Baltimore, MD

Manipulating morphology through carbon substrate feeding in fungal fermentations
S. Bhargava, Novozymes North America, Inc., Franklinton, NC

Impacts of genomics on use of Aspergillus for industrial production
J. Nielsen, Danish Technical University, Lyngby, Denmark

2:00pm
Session 37: Novel Enzymology for Natural Product Biosynthesis and Engineering
Conveners: Hung-wen Liu, University of Texas, Austin, TX and J. Noel, HHMI and Salk Institute for Biological Studies, La Jolla, CA

Mechanistic studies of unusual C-O bond formation in antibiotic biosynthesis
H-W. Liu, University of Texas, Austin, TX

Mechanistic studies of unusual reactions in beta-lactam antibiotic biosynthesis
C. Townsend, Johns Hopkins University, Baltimore, MD

Bacterial quorum-quenching: Enzymology of a mettalo-lactonase from Bacillus thuringiensis
W. Fast, University of Texas, Austin, TX

Structure, mechanism, and chemistry of novel fatty acid-polyketide synthase hybrids
J. Noel, Salk Institute for Biological Studies, La Jolla, CA

Substrate specificity of strictosidine synthase
S. O Connor, MIT, Cambridge, MA

TBA
M. Burkhart, University of California San Diego, San Diego, CA

2:00pm
Session 38: Development of Commercial Biocatalytic Processes
Convener: John Wong, Pfizer, Groton, CT

Commercial process development using nitrilase: achieving catalyst productivity and volumetric productivity
R. DiCosimo, DuPont Central Research, Wilmington, DE

New oxidoreductases for enantioselective large-scale keto reductions
A. Gupta, IEP GmbH, Weisbaden, Germany

Evolving enzymes for highly efficient chemical processes
S. Ma, Codexis, Inc., Redwood City, CA

Development of an enzymatic process for the manufacture of Pregabalin
C. Martinez, Pfizer Global Research and Development Groton, CT

From the test tube to the 75 m3 bioreactor
H-P. Meyer, Lonza AG, Visp, Switzerland

2:00pm
Session 39: Engineering of Mammalian Cells for Optimal Protein Production
Convener: John Birch, Lonza Biologics, Slough, Berkshire, UK

The functional proteome of mammalian cell factories
D. James, University of Queensland, Brisbane, Australia

Impact of apoptosis gene targeting on recombinant glycoprotein produced in CHO cells
M. Yap, Bioprocessing Technology Institute, Centros, Singapore

A genomic platform for metabolic engineering of Chinese hamster ovary cells
W-S. Hu, University of Minnesota, Minneapolis, MN

Cell glycoengineering for production of therapeutic antibodies with increased biological activity
P. Bruenker, Glycart Biotechnology AG, Zurich, Switzerland

The development of highly productive mammalian cell processes for recombinant antibody production
J. Birch, Lonza Biopharmaceuticals, Slough, Berkshire, UK

2:00 pm
Session 40: Proteomics Panel Discussion
Convener: Matthew Sachs, Oregon Health and Science University, Portland, OR

There will be two topics of discussion at the Fungal Proteomics Forum.

The first topic will be an open discussion of research challenges confronting fungal biologists pursuing proteomics research. These challenges include sample preparation, proteomic analysis in the absence of genome sequence data, coordination of large scale projects and data dissemination. The second topic will be the future of the International Fungal Proteomics Symposium: Should a 3rd International Fungal Proteomics Symposium be held? Is so, are there volunteers to take on the task of organizing the meeting and where and when will the 3rd International Fungal Proteomics Symposium take place?