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antiSMASH 3.0—a comprehensive resource for the genome mining of biosynthetic gene clusters
Abstract Microbial secondary metabolism constitutes a rich source of antibiotics, chemotherapeutics, insecticides and other high-value chemicals. Genome mining of gene clusters that encode the…
antiSMASH 5.0: updates to the secondary metabolite genome mining pipeline
AntiSMASH 5 adds detection rules for clusters encoding the biosynthesis of acyl-amino acids, β-lactones, fungal RiPPs, RaS-Ri PPs, polybrominated diphenyl ethers, C-nucleosides, PPY-like ketones and lipolanthines and provides more detailed predictions for type II polyketide synthase-encoding gene clusters.
- S. Lee
- Engineering, BiologyBiotechnology and bioengineering
Improvements in fermentation/separation technology and the development of bacterial strains or plants that more efficiently synthesize PHAs will bring the costs down to make PHAs competitive with the conventional plastics.
Fermentative butanol production by clostridia
- S. Lee, J. Park, S. Jang, L. Nielsen, Jae-Hi Kim, Kwang S. Jung
- Engineering, ChemistryBiotechnology and bioengineering
- 1 October 2008
This article reviews biotechnological production of butanol by clostridia and some relevant fermentation and downstream processes and the strategies for strain improvement by metabolic engineering and further requirements to make fermentative butanol production a successful industrial process.
Metabolic engineering of Escherichia coli for direct production of 1,4-butanediol.
This work engineered the E. coli host to enhance anaerobic operation of the oxidative tricarboxylic acid cycle, thereby generating reducing power to drive the BDO pathway, leading to a strain of Escherichia coli capable of producing 18 g l(-1) of this highly reduced, non-natural chemical.
Plastic bacteria? Progress and prospects for polyhydroxyalkanoate production in bacteria
- S. Lee
- Engineering, Biology
- 1 November 1996
antiSMASH 4.0—improvements in chemistry prediction and gene cluster boundary identification
The thoroughly updated antiSMASH version 4 is presented, which adds several novel features, including prediction of gene cluster boundaries using the ClusterFinder method or the newly integrated CASSIS algorithm, improved substrate specificity prediction for non-ribosomal peptide synthetase adenylation domains based on the new SANDPUMA algorithm, and several usability features have been updated and improved.
Production of succinic acid by bacterial fermentation
Microbial cell-surface display.
Systems metabolic engineering of microorganisms for natural and non-natural chemicals.
- Jeong Wook Lee, D. Na, Jong Myoung Park, J. Lee, Sol Choi, S. Lee
- Engineering, BiologyNature chemical biology
- 1 June 2012
The general strategies of systems metabolic engineering are discussed and examples of its application are offered and insights are offered as to when and how each of the different strategies should be used.