Automated Platform for the Plasmid Construction Process.

Autor: Nava AA; Joint BioEnergy Institute, Lawrence Berkeley National Laboratory, Emeryville, California 94608, United States.; Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, United States.; Department of Chemical and Biomolecular Engineering, University of California, Berkeley, Berkeley, California 94720, United States., Fear AL; Joint BioEnergy Institute, Lawrence Berkeley National Laboratory, Emeryville, California 94608, United States.; Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, United States., Lee N; Joint BioEnergy Institute, Lawrence Berkeley National Laboratory, Emeryville, California 94608, United States.; Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, United States., Mellinger P; Joint BioEnergy Institute, Lawrence Berkeley National Laboratory, Emeryville, California 94608, United States.; Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, United States., Lan G; Joint BioEnergy Institute, Lawrence Berkeley National Laboratory, Emeryville, California 94608, United States.; Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, United States., McCauley J; Joint BioEnergy Institute, Lawrence Berkeley National Laboratory, Emeryville, California 94608, United States.; Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, United States.; DOE Agile BioFoundry, Emeryville, California 94608, United States., Tan S; Joint BioEnergy Institute, Lawrence Berkeley National Laboratory, Emeryville, California 94608, United States.; Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, United States.; DOE Agile BioFoundry, Emeryville, California 94608, United States., Kaplan N; Joint BioEnergy Institute, Lawrence Berkeley National Laboratory, Emeryville, California 94608, United States.; Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, United States.; DOE Agile BioFoundry, Emeryville, California 94608, United States., Goyal G; Joint BioEnergy Institute, Lawrence Berkeley National Laboratory, Emeryville, California 94608, United States.; Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, United States.; DOE Agile BioFoundry, Emeryville, California 94608, United States., Coates RC; Joint BioEnergy Institute, Lawrence Berkeley National Laboratory, Emeryville, California 94608, United States.; Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, United States.; DOE Agile BioFoundry, Emeryville, California 94608, United States., Roberts J; Joint BioEnergy Institute, Lawrence Berkeley National Laboratory, Emeryville, California 94608, United States.; Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, United States.; Department of Bioengineering, University of California, Berkeley, Berkeley, California 94720, United States., Johnson Z; Department of Chemical and Biomolecular Engineering, University of California, Berkeley, Berkeley, California 94720, United States., Hu R; Department of Bioengineering, University of California, Berkeley, Berkeley, California 94720, United States., Wu B; Department of Bioengineering, University of California, Berkeley, Berkeley, California 94720, United States., Ahn J; Department of Bioengineering, University of California, Berkeley, Berkeley, California 94720, United States., Kim WE; Joint BioEnergy Institute, Lawrence Berkeley National Laboratory, Emeryville, California 94608, United States.; Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, United States., Wan Y; Joint BioEnergy Institute, Lawrence Berkeley National Laboratory, Emeryville, California 94608, United States.; Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, United States., Yin K; Joint BioEnergy Institute, Lawrence Berkeley National Laboratory, Emeryville, California 94608, United States.; Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, United States.; Department of Plant and Microbial Biology, University of California, Berkeley, Berkeley, California 94720, United States., Hillson N; Joint BioEnergy Institute, Lawrence Berkeley National Laboratory, Emeryville, California 94608, United States.; Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, United States.; DOE Agile BioFoundry, Emeryville, California 94608, United States., Haushalter RW; Joint BioEnergy Institute, Lawrence Berkeley National Laboratory, Emeryville, California 94608, United States.; Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, United States., Keasling JD; Joint BioEnergy Institute, Lawrence Berkeley National Laboratory, Emeryville, California 94608, United States.; Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, United States.; Department of Chemical and Biomolecular Engineering, University of California, Berkeley, Berkeley, California 94720, United States.; Department of Bioengineering, University of California, Berkeley, Berkeley, California 94720, United States.; Center for Synthetic Biochemistry, Shenzhen Institutes for Advanced Technologies, Shenzhen 518055, P.R. China.; The Novo Nordisk Foundation Center for Biosustainability, Technical University Denmark, Kemitorvet, Building 220, Kongens Lyngby 2800, Denmark.
Jazyk: angličtina
Zdroj: ACS synthetic biology [ACS Synth Biol] 2023 Dec 15; Vol. 12 (12), pp. 3506-3513. Date of Electronic Publication: 2023 Nov 10.
DOI: 10.1021/acssynbio.3c00292
Abstrakt: There is a growing need for applications capable of handling large synthesis biology experiments. At the core of synthetic biology is the process of cloning and manipulating DNA as plasmids. Here, we report the development of an application named DNAda capable of writing automation instructions for any given DNA construct design generated by the J5 DNA assembly program. We also describe the automation pipeline and several useful features. The pipeline is particularly useful for the construction of combinatorial DNA assemblies. Furthermore, we demonstrate the platform by constructing a library of polyketide synthase parts, which includes 120 plasmids ranging in size from 7 to 14 kb from 4 to 7 DNA fragments.
Databáze: MEDLINE