3A430295d01 - Systems Biology Systems Biology Synthetic biology Genetic networks Prof Dr Pierre Hilson Dr VIB Department of Plant Systems Biology

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Systems Biology 1 Academic year 2009 - 2010 Systems Biology Synthetic Synthetic biology biology Synthetic Genetic networks Prof. Dr Prof. Dr. Pierre Hilson . Pierre Hilson VIB Department of Plant Systems Biology University of Ghent Academic year Academic year 2009 2009-2010 2010 Outline - Introduction Synthetic genetic networks - Synthetic genetic networks - Building biological systems as engineers Building biological systems as engineers
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Systems Biology 2 Academic year 2009 - 2010 It d t i Introduction ¤ The engineering of biology: the synthesis of complex, biologically based systems, which display novel functions that do not exist in nature ¤ May be applied at all levels of the hierarchy of biological ¤ May be applied at all levels of the hierarchy of biological structures ¤ Complexity may be partly overcome through the principles of hierarchical abstraction, modularity, standardization and flexibility, and by defining appropriate levels of abstraction to describe and design biological systems (cf. microelectronics) ¤ SB enables large-scale production/conversion of materials – E g redesigned metabolic pathways for pollution remediation and – E.g. redesigned metabolic pathways for pollution remediation and for synthesis of drugs, plastics and nutriments ¤ Gd i i h t t l f t ii d t h t i ¤ Genome design might create novel function or widen the genetic code to provide flexibility unattainable in natural cells Outline - Introduction Synthetic genetic networks - Synthetic genetic networks - Building biological systems as engineers Building biological systems as engineers
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Systems Biology 3 Academic year 2009 - 2010 Network motifs Regulators Promoters Binding Link of 2 reg. Yields testable models Lee et al (2002) Science 298: 799 Synthetic biology concept Kobayashi ey al. (2004) PNAS 101, 8414
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Systems Biology 4 Academic year 2009 - 2010 A synthetic oscillatory network of transcriptional regulators Elowitz and Leibner (2000) Nature 403: 335 ¤ What are the “design principles” underlying the intracellular ¤ What are the design principles underlying the intracellular networks ¤ The design and construction of a synthetic network with a particular function should help understand natural circuits The repressilator/reporter architecture repressor from Tn 10 repressor from λ repressor from E. coli from lite: repressors include destruction tags cyclic negative feedback loop Elowitz and Leibner (2000) Nature 403: 335
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Systems Biology 5 Academic year 2009 - 2010 Mathematical modeling (1) ¤ Goals – Description in sufficient details to identify possible classes of dynamic behavior – Identification of key adjustable experimental parameters ¤ Molecular interactions cannot be described exhaustively ¤ The model takes into consideration protein and corresponding mRNA concentration as continuous dynamical variables ¤ The molecules participate in transcription, translation and degradation.
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This note was uploaded on 05/30/2010 for the course WE CMBIBI0200 taught by Professor Pierrehilson during the Spring '10 term at Ghent University.

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3A430295d01 - Systems Biology Systems Biology Synthetic biology Genetic networks Prof Dr Pierre Hilson Dr VIB Department of Plant Systems Biology

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