title: Bioinformatics for the synthetic biology of natural products: integrating across the Design-Build-Test cycle.
abstract: Covering: 2000 to 2016Progress in synthetic biology is enabled by powerful bioinformatics tools allowing the integration of the design, build and test stages of the biological engineering cycle. In this review we illustrate how this integration can be achieved, with a particular focus on natural products discovery and production. Bioinformatics tools for the DESIGN and BUILD stages include tools for the selection, synthesis, assembly and optimization of parts (enzymes and regulatory elements), devices (pathways) and systems (chassis). TEST tools include those for screening, identification and quantification of metabolites for rapid prototyping. The main advantages and limitations of these tools as well as their interoperability capabilities are highlighted.
authors.affiliation: Manchester Centre for Fine and Specialty Chemicals (SYNBIOCHEM), Manchester Institute of Biotechnology, University of Manchester, Manchester M1 7DN, UK. pablo.carbonell@manchester.ac.uk eriko.takano@manchester.ac.uk.
authors.forename: Pablo
authors.initials: P
authors.lastname: Carbonell
authors.forename: Andrew
authors.initials: A
authors.lastname: Currin
authors.forename: Adrian J
authors.initials: AJ
authors.lastname: Jervis
authors.forename: Nicholas J W
authors.initials: NJ
authors.lastname: Rattray
authors.forename: Neil
authors.initials: N
authors.lastname: Swainston
authors.forename: Cunyu
authors.initials: C
authors.lastname: Yan
authors.forename: Eriko
authors.initials: E
authors.lastname: Takano
authors.forename: Rainer
authors.initials: R
authors.lastname: Breitling
mesh_terms: D001688:Biological Products; D019295:Computational Biology; D015394:Molecular Structure; D058615:Synthetic Biology
chemical_list: D001688:Biological Products