John E Dueber
Affiliation: University of California
- Expression-level optimization of a multi-enzyme pathway in the absence of a high-throughput assayMichael E Lee
The UC Berkeley and UCSF Graduate Program in Bioengineering, Berkeley, CA 94720, USA, Department of Bioengineering, University of California, Berkeley, CA 94720, USA, Energy Biosciences Institute, Berkeley, CA 94720, USA, Department of Industrial Engineering and Operations Research, University of California, Berkeley, CA 94720, USA and Department of Electrical Engineering and Computer Sciences, University of California, Berkeley, CA 94720, USA
Nucleic Acids Res 41:10668-78. 2013..This generalizable method should prove useful in engineering new pathways for the sustainable production of small molecules. ..
- Synthetic protein scaffolds provide modular control over metabolic fluxJohn E Dueber
California Institute of Quantitative Biomedical Research QB3, University of California, Berkeley, California, USA
Nat Biotechnol 27:753-9. 2009..5 g/l) without the synthetic complex. These strategies should prove generalizeable to other metabolic pathways and programmable for fine-tuning pathway flux...
- Towards repurposing the yeast peroxisome for compartmentalizing heterologous metabolic pathwaysWilliam C Deloache
UC Berkeley and UCSF Graduate Program in Bioengineering, University of California, Berkeley UC Berkeley, Berkeley, California 94720, USA
Nat Commun 7:11152. 2016..This work builds a foundation for using the peroxisome as a synthetic organelle, highlighting both promise and future challenges on the way to realizing this goal. ..
- Avoidance of truncated proteins from unintended ribosome binding sites within heterologous protein coding sequencesWeston R Whitaker
Departments of Bioengineering, University of California, Berkeley, California 94720, United States
ACS Synth Biol 4:249-57. 2015..We found that balancing promoter strengths and upstream RBS strengths to intermediate levels can achieve the target protein concentration while avoiding both excessive noise and truncated protein...
- Application of a Palladium-Catalyzed C-H Functionalization/Indolization Method to Syntheses of cis-Trikentrin A and Herbindole BRaul A Leal
Department of Chemistry, University of California, Berkeley, Berkeley, CA, 94720, USA
Angew Chem Int Ed Engl 55:11824-8. 2016..Key steps include a sterically demanding Buchwald-Hartwig amination as well as a unique C(sp(3) )-H amination/indole formation. Studies toward a selective desymmetrization of the meso-hydroquinone are also reported. ..
- Selection of chromosomal DNA libraries using a multiplex CRISPR systemOwen W Ryan
Energy Biosciences Institute, University of California, Berkeley, Berkeley, United States
elife 3:. 2014....
- A Highly Characterized Yeast Toolkit for Modular, Multipart AssemblyMichael E Lee
Department of Bioengineering, University of California, Berkeley, California 94720, United States
ACS Synth Biol 4:975-86. 2015..Additionally, by relieving researchers of the burden of technical details, they can focus on higher-level aspects of experimental design. ..
- An enzyme-coupled biosensor enables (S)-reticuline production in yeast from glucoseWilliam C Deloache
Department of Bioengineering, University of California, Berkeley, Berkeley, California, USA
Nat Chem Biol 11:465-71. 2015..Future work to improve titers and connect these steps with downstream pathway branches, already demonstrated in S. cerevisiae, will enable low-cost production of many high-value BIAs. ..
- Engineering robust control of two-component system phosphotransfer using modular scaffoldsWeston R Whitaker
The University of California, Berkeley and University of California, San Francisco Graduate Program in Bioengineering, Berkeley, CA 94720, USA
Proc Natl Acad Sci U S A 109:18090-5. 2012..Thus, we demonstrate that design principles inspired by the complex signal-transduction pathways of eukaryotes may be generalized, abstracted, and applied to prokaryotes using well-characterized parts...
- BglBricks: A flexible standard for biological part assemblyJ Christopher Anderson
Department of Bioengineering, University of California, Berkeley, CA 94720, USA
J Biol Eng 4:1. 2010..In particular, the system is not suitable for the construction of protein fusions due to an unfavorable scar sequence that encodes an in-frame stop codon...
- The pathogen protein EspF(U) hijacks actin polymerization using mimicry and multivalencyNathan A Sallee
Graduate Program in Chemistry and Chemical Biology, University of California, San Francisco, 600 16th Street, San Francisco, California 94158, USA
Nature 454:1005-8. 2008..Thus, this pathogen has used a simple autoinhibitory fragment as a component to build a highly effective actin polymerization machine...
- Engineering synthetic signaling proteins with ultrasensitive input/output controlJohn E Dueber
Program in Biological Sciences, University of California, San Francisco, California 94158 2517, USA
Nat Biotechnol 25:660-2. 2007..By systematically altering the number and affinity of modular autoinhibitory interactions, we show that we can predictably convert a simple linear signaling protein into an ultrasensitive switch...
- Reprogramming control of an allosteric signaling switch through modular recombinationJohn E Dueber
Program in Biological Sciences, University of California, San Francisco, CA 94143 2240, USA
Science 301:1904-8. 2003..Synthetic switch proteins were created with diverse gating behaviors in response to nonphysiological inputs. Thus, this type of modular framework can facilitate the evolution or engineering of cellular signaling circuits...