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Combinatorial Engineering of 1-Deoxy-D-Xylulose 5-Phosphate Pathway Using Cross-Lapping In Vitro Assembly (CLIVA) Method

Author(s)
Zou, Ruiyang; Zhou, Kang; Stephanopoulos, Gregory; Too, Heng Phon
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Abstract
The ability to assemble multiple fragments of DNA into a plasmid in a single step is invaluable to studies in metabolic engineering and synthetic biology. Using phosphorothioate chemistry for high efficiency and site specific cleavage of sequences, a novel ligase independent cloning method (cross-lapping in vitro assembly, CLIVA) was systematically and rationally optimized in E. coli. A series of 16 constructs combinatorially expressing genes encoding enzymes in the 1-deoxy-D-xylulose 5-phosphate (DXP) pathway were assembled using multiple DNA modules. A plasmid (21.6 kb) containing 16 pathway genes, was successfully assembled from 7 modules with high efficiency (2.0 x 10[superscript 3] cfu/ µg input DNA) within 2 days. Overexpressions of these constructs revealed the unanticipated inhibitory effects of certain combinations of genes on the production of amorphadiene. Interestingly, the inhibitory effects were correlated to the increase in the accumulation of intracellular methylerythritol cyclodiphosphate (MEC), an intermediate metabolite in the DXP pathway. The overexpression of the iron sulfur cluster operon was found to modestly increase the production of amorphadiene. This study demonstrated the utility of CLIVA in the assembly of multiple fragments of DNA into a plasmid which enabled the rapid exploration of biological pathways.
Date issued
2013-11
URI
http://hdl.handle.net/1721.1/83864
Department
Massachusetts Institute of Technology. Department of Chemical Engineering; Singapore-MIT Alliance in Research and Technology (SMART)
Journal
PLoS ONE
Publisher
Public Library of Science
Citation
Zou, Ruiyang, Kang Zhou, Gregory Stephanopoulos, and Heng Phon Too. “Combinatorial Engineering of 1-Deoxy-D-Xylulose 5-Phosphate Pathway Using Cross-Lapping In Vitro Assembly (CLIVA) Method.” Edited by Jorg D. Hoheisel. PLoS ONE 8, no. 11 (November 5, 2013): e79557.
Version: Final published version
ISSN
1932-6203

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