Annual Meeting – Workshops

Two pre-meeting workshops will be held at SIMB Annual Meeting 2012. Both all-day workshops will be held Sunday, August 12 at the Washington Hilton Hotel.

Workshop 1: Fermentation Basics
Worskhop 2: Advanced, parallel upstream screening and process development: Maximizing culture consistency to get the most out of lab-scale Design of Experiment (DoE) efforts

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Workshop 1

Fermentation Basics


$375 SIM Member
$525 Non-member
$188 Students

Organizer: Mark Berge, Medimmune

This workshop’s focus is to provide individuals with an introduction to fermentation concepts in industrial settings.  The workshop will be lecture-based with visual aids to help the attendees understand the fermentation principles discussed.  The workshop will be broken into sections based upon the topics that are being presented.  After each section has been completed, the attendees will be given real life fermentation case studies that they will work through to reinforce the just discussed topics.  The first section of the workshop will include topics on fermenter design including aspect ratios, agitator design, sparger design and sterilization of equipment and media.  The second section will deal with actual operational issues of fermentation processes.  Included will be discussions about media considerations, foam control strategies, shear, mixing, aeration, feeds and different types of fermentations and the controls involved. The workshop will finish with a section that covers issues involved in scale-up to production size fermentors.

Workshop Schedule

8:00 am
Fermentation introduction


Fermentation Organisms

Filamental fungus

Microbial Growth & Production

Growth measurement methods
Basic kinetics
Production systems

Problem Set #1

Fermentation Media

Carbon sources
Nitrogen sources
Trace elements

Fermentation Methods


Problem Set #2

Types of Fermenters


Fermentation Equipment

pH probes
DO probes



Problem Set #3

9:30 am Break

9:45 am

Power input
Shear input

Problem Set #4


Gassing strategies
Effect on agitation
Oxygen transfer
Oxygen uptake measurement
Carbon dioxide evolution

Problem Set #5

Noon – 1 pm Lunch

1:00 PM
Fermenter Mass Balance
Fermenter Energy Balance
Problem Set #6

Fermentation Scaling

Benefits/ challenges

2:30 pm Break

2:45 Case Study

4:00 Workshop Ends

Mark Berge
2010-Current: Sr. Scientist at MedImmune, Inc. in the Process Cell Culture & Fermentation group leading a team responsible for fermentation and cell culture process development activities.  2006-2010: Sr. Scientist at Amgen Inc. in Cell Science & Technology group developing processes for therapeutic protein production using fermentation. 1999-2005: Sr. Scientist at Pfizer Inc. in Global Biologics division developing processes for therapeutic protein production using cell culture. 1995-1999: Process Engineer at FermPro Manufacturing in deep tank toll manufacturing for varied customers of food grade materials.  Mark holds a B.S. and M.S. in Chemical Engineering from the University of New Hampshire.

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Workshop 2

Advanced, parallel upstream screening and process development: Maximizing culture consistency to get the most out of lab-scale Design of Experiment (DoE) efforts.

Supported by: Applikon Biotechnology Inc.


$375 SIM Member
$525 Non-member
$188 Students

Organizer: David Laidlaw, Kuhner Shaker Inc. & Wouter Duetz, Enzyscreen BV

Background: There are a number of good fermentation schools throughout North America and Europe available to those wishing to learn and improve their fermentation skills. There are not, however, a wide number of comparable education programs focusing on the steps which occur just prior to the stirred tank bioreactor. This workshop is intended to help researchers perform better experiments upstream of their stirred tank bioreactors – from creation of the cell lines up and until they inoculate them into stirred and controlled vessels.

Format: Five or six morning seminars followed by rotating afternoon workstations. The equipment and Presenters featured in the morning lectures will be available for hands-on training and applications discussions in the afternoon. The perspective of this workshop will be to first teach the engineering principles behind the featured tools in a series of lectures and then provide expert training on those tools later in the afternoon.

Hardware on hand: Well plates, closures and clamp systems, flasks, sensor well plates, sensor flasks, Sensordish reader, sensor flask reader, buglab hand held OD scanner, controlled multi-well plate instruments, shaker-incubator, RAMbio, RAMOS, miniature stirred tank bioreactors.

Detailed Description:
Driven by Quality by Design (QbD) initiatives, Design of Experiment (DoE) approaches to fermentation and process development ask more of our upstream bench-scale experiments than ever before. This educational workshop will teach theoretical and practical implementation of tools and technologies intended for upstream screening and process development experiments. The workshop will cover many commonly used laboratory tools and will emphasize their practical use in the laboratory with hands-on training. This workshop will not lecture on Design of Experiments but will instead emphasize the use of proper laboratory techniques and tools so that process-defining experiments are conducted under characterized and reproducible conditions.

The tools featured in this workshop would generally be implemented upstream of stirred tank bioreactors. Starting with advanced well plates the lectures will progress through advanced shake flasks, small controlled well-plate systems and ultimately conclude at miniature stirred-tank bioreactors. The lectures will review and explain published engineering and characterization data for these platforms and show how to use this information to improve daily experiment routines and generate higher quality results. Lectures will be presented in a training format and will prepare the participant for an afternoon of rotating workstations. It is during the afternoon workstations that participants will put their newly learned skills to use. The series of (5 or 6) workstations will allow attendees to obtain hands-on experience with the equipment and ask applications-specific questions of the mornings presenters.

Examples of the groups that could possibly present include:

Time Lecture Presenter
8-8:15 Introduction, Learning objectives statements Dave Laidlaw
8:15-9 The importance of Scalability from screening steps to bioreactors Raj Krishnan (Merck & Co.)
9-9:45 kLa determination and Scaling between platforms based on matched kLa Wouter Duetz (Enzyscreen)
9:30 Break
9:45-10:15 Well Plate Culturing Theory and Techniques Wouter Duetz (Enzyscreen)
10:30- 11 Shake Flask Culturing Theory and Techniques Dave Laidlaw
11- 11:30 Adding pH and DO sensors to Well Plates, Shake Flasks and other small vessels Gernot John (PreSens)
11:30-12 Measuring Respiratory Quotient in Flasks Dave Laidlaw
12-1 Lunch
1 pm Carbon Supplementation to Flasks (Feed Beads) Dave Laidlaw
1:30-2:15 Media Design for Consistent Bioprocess Scaleup from microscale to fermentation Stefan Junne (TU Berlin)
2:15-3:30 Rotating workstations ALL PRESENTERS
3:30-4:00 Course Evaluation / Learning outcomes survey

Learning Outcomes:

Students will demonstrate the ability to:

  • Define kLa and describe user-controllable factors which influence kLa of shaken batch culture systems
  • Demonstrate an understanding of OTR influencing factors for Well Plates and flasks
  • Determine what shaking conditions and fill volumes should be used for specific applications
  • Calculate the kLa of a shaken lab-scale bioreactor system
  • Scale cultures from a 96 LWP to the following vessels, specifying shaking velocities and fill volumes:
    • 96LWP
    • 24DWP
    • 50ml, 250ml and 2000ml shake flask
    • Demonstrate an understanding of in-phase and out of phase mixing
    • Explain the how the following impact mixing and OTR’s in flasks: baffles, flask size, flask construction materials, cap closure selection
    • Demonstrate an understanding of nutrient balance and feeding techniques for small batch cultures

David Laidlaw
Biologist and CEO North American Operations, Kuhner Shaker Inc.

Dave Laidlaw is an active community member in the field of small-scale fermentation and cell culture process control and instrumentation. Having completed graduate studies in the Biotechnology Laboratory at the University of British Columbia, Mr. Laidlaw has worked as a process development scientist and an equipment development specialist. It is with this background that David brings an end-user perspective to upstream screening and technology development. Prior to joining Kuhner Shaker Inc., David held positions of Small-Scale Technologies Manager at Applikon Biotechnology Inc., Applications Development at MicroReactor Technologies Inc. and in Fermentation Process Development at Genentech Inc.

Wouter Duetz
Co-Founder, Enzyscreen BV

Wouter Duetz studied Biochemistry and Microbiology at the University of Amsterdam, before working for 10 years at the National Institute of Public Health and Environmental Protection (RIVM) on oxygenases involved in the microbiological degradation of aromatic pollutants. He received a PhD for his work in this field from the University of Groningen. Subsequently, he worked for 5 years at the ETH Zurich as a group leader on screening for new biocatalysts with Prof. Bernard Witholt. In 2002 he set up the company Enzyscreen, now focusing on the development of systems for the cultivation in microtiter plates.

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Fermentation Basics