期刊
ACS SYNTHETIC BIOLOGY
卷 6, 期 3, 页码 485-496出版社
AMER CHEMICAL SOC
DOI: 10.1021/acssynbio.6b00200
关键词
DNA synthesis; synthetic biology; design-build-test; bioCAD/CAM
资金
- DOE Joint Genome Institute
- DOE Joint BioEnergy Institute by the U.S. Department of Energy, Office of Science, Office of Biological and Environmental Research [DE-ACO2-05CH11231]
Scaling-up capabilities for the design, build, and test of synthetic biology constructs holds great promise for the development of new applications in fuels, chemical production, or cellular-behavior engineering. Construct design is an essential component in this process; however, not every designed DNA sequence can be readily manufactured, even using state-of-the-art DNA synthesis methods. Current biological computer-aided design and manufacture tools (bioCAD/CAM) do not adequately consider the limitations of DNA synthesis technologies when generating their outputs. Designed sequences that violate DNA synthesis constraints may require substantial sequence redesign or lead to price-premiums and temporal delays, which adversely impact the efficiency of the DNA manufacturing process. We have developed a suite of build-optimization software tools (BOOST) to streamline the design build transition in synthetic biology engineering workflows. BOOST incorporates knowledge of DNA synthesis success determinants into the design process to output ready-to-build sequences, preempting the need for sequence redesign. The BOOST web application is available at https://boost.jgi.doe.gov and its Application Program Interfaces (API) enable integration into automated, customized DNA design processes. The herein presented results highlight the effectiveness of BOOST in reducing DNA synthesis costs and timelines.
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