User:Jerome Bonnet
Research interests
Developing and applying tools to program living cells like computers.
I was a post-doc in the Endy Lab at Stanford University from 2008 to 2013. I was a fellow from the Stanford Center on Longevity from 2009-2012.
I have been working on the engineering of the first rewritable DNA memory and the first complete logic gates collection operating in single cells and capable of signal amplification via a genetic transistor-like architecture, the Transcriptor.
Both systems use the powerful serine integrases recombinases from bacteriophages. These enzymes can operate in numerous species, enabling our devices to be widely re-applied to various model systems. We contributed the Boolean Integrase Logic (BIL) Gates family in the public domain via the BioBrick Public Agreement.
We hope that the tools we developed to program living cells will revolutionize the study and the engineering of biological systems. For example, our genetic memory devices could be combined as described here by Pakpoom Subsoontorn to build a cell cycle counter. By allowing cells to report the number of time they divided, such a counter would enable high-resolution monitoring of aging and developmental processes.
Contact
Jerome Bonnet, Department of Bioengineering
Y2E2-B007, 473 Via Ortega, Stanford, CA 94305
email: bonnet[at]stanford.edu
Education
2007, PhD in cell and molecular biology, University of Montpellier (CRBM-CNRS UMR5237), France.
2003, MS in Biological science and health, University of Montpellier.
2001, BS in Biochemistry, University of Montpellier.
Publications
Amplifying genetic logic gates
Science, 28 March 2013, doi: 10.1126/science.1232758
Jérôme Bonnet, Peter Yin, Monica E. Ortiz, Pakpoom Subsoontorn, Drew Endy
Abstract PDF NPR YouTube primer News and views in Science and Nature Methods
Switches, switches, every where, In any drop we drink
Molecular cell, 2013, Jan 24;49(2):232-3. Preview on Hatfull lab's paper
Jérôme Bonnet and Drew Endy
URL PDF
Rewritable digital data storage in live cells via engineered control of recombination directionality
PNAS, 2012, 109(23):8884-8889
Jérôme Bonnet, Pakpoom Subsoontorn and Drew Endy.
Abstract PDF
Polycomb-dependent regulatory contacts between distant Hox loci in Drosophila
Cell, 2011 144 (2) pp. 214-226
Frédéric Bantignies, Virginie Roure, Itys Comet, Benjamin Leblanc, Bernd Schuettengruber, Jerome Bonnet, Vanessa Tixier, André Mas, and Giacomo Cavalli.
Abstract
Targeting Kinases and Phosphatases that regulate Cell Cycle Progression
Trends in cell cycle research, 2008.
Jérôme Bonnet, Johanna Scheper, Gilles Divita and May C. Morris
URL
Characterization of centrosomal localization and dynamics of Cdc25C phosphatase in mitosis
Cell Cycle, 2008, 7:13, 1991-1998
Jérôme Bonnet, Peter Coopman and May C. Morris
Abstract PDF
Differential phosphorylation of Cdc25C in mitosis
Biochemical and Biophysical research communication, 2008, 370, 483–488
Jérôme Bonnet, Pauline Mayonove, and May C. Morris
Abstract PDF
Useful links
other interests
Hibernating member of Yakasseme (West African traditional Mandingo music).
See more on Donaba, French site with a lot of music videos.
