title: Rule-Based Design of Plant Expression Vectors Using GenoCAD.
abstract: Plant synthetic biology requires software tools to assist on the design of complex multi-genic expression plasmids. Here a vector design strategy to express genes in plants is formalized and implemented as a grammar in GenoCAD, a Computer-Aided Design software for synthetic biology. It includes a library of plant biological parts organized in structural categories and a set of rules describing how to assemble these parts into large constructs. Rules developed here are organized and divided into three main subsections according to the aim of the final construct: protein localization studies, promoter analysis and protein-protein interaction experiments. The GenoCAD plant grammar guides the user through the design while allowing users to customize vectors according to their needs. Therefore the plant grammar implemented in GenoCAD will help plant biologists take advantage of methods from synthetic biology to design expression vectors supporting their research projects.
authors.affiliation: Department of Biotechnology and Systems Biology, National Institute of Biology, Ljubljana, Slovenia.
authors.forename: Anna
authors.initials: A
authors.lastname: Coll
authors.affiliation: Virginia Bioinformatics Institute, Virginia Tech, Blacksburg, Virginia, United States of America.
authors.forename: Mandy L
authors.initials: ML
authors.lastname: Wilson
authors.affiliation: Department of Biotechnology and Systems Biology, National Institute of Biology, Ljubljana, Slovenia.
authors.forename: Kristina
authors.initials: K
authors.lastname: Gruden
authors.affiliation: Virginia Bioinformatics Institute, Virginia Tech, Blacksburg, Virginia, United States of America.
authors.forename: Jean
authors.initials: J
authors.lastname: Peccoud
mesh_terms: D018506:Gene Expression Regulation, Plant; D005822:Genetic Vectors / Q000235:genetics / Q000378:metabolism; D030821:Plants, Genetically Modified / Q000235:genetics / Q000378:metabolism; D012984:Software; D058615:Synthetic Biology