title: GenoCAD Plant Grammar to Design Plant Expression Vectors for Promoter Analysis.
abstract: With the rapid advances in prediction tools for discovery of new promoters and their cis-elements, there is a need to improve plant expression methodologies in order to facilitate a high-throughput functional validation of these promoters in planta. The promoter-reporter analysis is an indispensible approach for characterization of plant promoters. It requires the design of complex plant expression vectors, which can be challenging. Here, we describe the use of a plant grammar implemented in GenoCAD that will allow the users to quickly design constructs for promoter analysis experiments but also for other in planta functional studies. The GenoCAD plant grammar includes a library of plant biological parts organized in structural categories to facilitate their use and management and a set of rules that guides the process of assembling these biological parts into large constructs.
authors.affiliation: Department of Biotechnology and Systems Biology, National Institute of Biology, Večna pot 111, 1000, Ljubljana, Slovenia. anna.coll@nib.si.
authors.forename: Anna
authors.initials: A
authors.lastname: Coll
authors.affiliation: Biocomplexity Institute of Virginia Tech, 1015 Life Science Circle, Blacksburg, VA, 24061-0477, USA.
authors.forename: Mandy L
authors.initials: ML
authors.lastname: Wilson
authors.affiliation: Department of Biotechnology and Systems Biology, National Institute of Biology, Večna pot 111, 1000, Ljubljana, Slovenia.
authors.forename: Kristina
authors.initials: K
authors.lastname: Gruden
authors.affiliation: Department of Chemical & Biological Engineering, Colorado State University, Fort Collins, CO, USA.|GenoFAB, LLC, 548 Market Street, #46143, San Francisco, CA, USA.
authors.forename: Jean
authors.initials: J
authors.lastname: Peccoud
mesh_terms: D018506:Gene Expression Regulation, Plant / Q000235:genetics; D005818:Genetic Engineering / Q000379:methods*; D005822:Genetic Vectors; D010944:Plants / Q000235:genetics; D011401:Promoter Regions, Genetic; D012984:Software; D058615:Synthetic Biology / Q000379:methods*
keywords: GenoCAD; Plant expression vectors; Plant grammar; Plant promoters; Synthetic biology