Metabolic Engineering

From the Manchester Bio-Modelling Network

On this page you will find the slides, exercises and other related material for the postgraduate course of Metabolic Engineering at the Scool of Chemical Engineering and Analytical Science. The course is taught by Prof Hans Westerhoff, with assistance from Frank Bruggeman, Nils Blüthgen, and Evangelos Simeonidis.

Contents 1 Aims 2 Learning Outcomes 3 Outline Syllabus 4 Material for downloading 4.1 Files from lecture on 13 February 2007 (Frank Bruggeman) 4.2 Files from lecture on 14 February 2007 (Frank Bruggeman) 4.3 Files from lecture on 21 February 2007 (Vangelis Simeonidis) 4.4 Files from lecture on 06 March 2007 (Vangelis Simeonidis) 4.5 Topics covered in lecture on 07 March 2007 (Nils Blüthgen)

Aims

Familiarisation with the integration and regulation of microbial metabolism. Familiarisation with the tools used to study and manipulate metabolic processes.

Learning Outcomes

• Explain the link from genome to metabolome through transcriptome and proteome.
• Explain and evaluate factors affecting metabolism.
• Integrate some of the fundamental concepts of biosciences and biochemical engineering in order to quantify and model metabolic processes.
• Develop a good appreciation of the important multidisciplinary aspects of biotechnology.

Outline Syllabus

• Integration of anabolism and catabolism.
• Energy coupling: the role of ATP and NAD(P).
• Regulation of metabolic pathways: The role of enzymes in metabolism.
• Enzyme activity and kinetics.
• Regulation of transcription.
• Regulation of translation.
• Genetic manipulations.
• Macromolecular and elemental composition of cells.
• Stoichiometry of biological processes.
• Thermodynamics of cellular processes.
• Metabolic flux analysis.
• Metabolic control analysis.
• Applications of metabolic engineering.

Material for downloading

Files from lecture on 13 February 2007 (Frank Bruggeman)

• Introduction to Metabolic Engineering (slides).
• Introduction to Metabolism and to Enzyme Kinetics (slides).
• Excel files with the exercise solutions (xls).

Files from lecture on 14 February 2007 (Frank Bruggeman)

• Metabolic Control Analysis (pdf).
• Rate characteristics - Two enzyme pathway (excel example).
• MCA Exercises (doc).

Files from lecture on 21 February 2007 (Vangelis Simeonidis)

• Stoichiometry (slides).

Files from lecture on 06 March 2007 (Vangelis Simeonidis)

• Flux Balance Analysis (slides).

Topics covered in lecture on 07 March 2007 (Nils Blüthgen)

• Introduction to intracellular signal transduction
• How to apply metabolic control analysis to signal transduction
• Zero-order ultrasensitivity
• Kinetic proofreading
• Multiside phosphorylation