Modular synthetic inverters from zinc finger proteins and small RNAs
Abstract
© 2016 Hsia et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. Synthetic zinc finger proteins (ZFPs) can be created to target promoter DNA sequences, repressing transcription. The binding of small RNA (sRNA) to ZFP mRNA creates an ultrasensitive response to generate higher effective Hill coefficients. Here we combined three "off the shelf" ZFPs and three sRNAs to create new modular inverters in E. col i and quantify their behavior using induction fold. We found a general ordering of the effects of the ZFPs and sRNAs on induction fold that mostly held true when combining these parts. We then attempted to construct a ring oscillator using our new inverters. Our chosen parts performed insufficiently to create oscillations, but we include future directions for improvement upon our work presented here.
- Authors:
-
- Univ. of California, Berkeley, CA (United States)
- Univ. of California, Berkeley, CA (United States); Joint BioEnergy Inst. (JBEI), Emeryville, CA (United States)
- Joint BioEnergy Inst. (JBEI), Emeryville, CA (United States); Univ. of California, Berkeley, CA (United States); Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
- Univ. of Illinois, Champaign, IL (United States)
- Publication Date:
- Research Org.:
- Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)
- Sponsoring Org.:
- USDOE Office of Science (SC), Biological and Environmental Research (BER)
- OSTI Identifier:
- 1256959
- Alternate Identifier(s):
- OSTI ID: 1379062
- Grant/Contract Number:
- AC02-05CH11231; FA9550-14-1-0089
- Resource Type:
- Accepted Manuscript
- Journal Name:
- PLoS ONE
- Additional Journal Information:
- Journal Volume: 11; Journal Issue: 2; Journal ID: ISSN 1932-6203
- Publisher:
- Public Library of Science
- Country of Publication:
- United States
- Language:
- English
- Subject:
- 59 BASIC BIOLOGICAL SCIENCES; plasmid construction; messenger RNA; DNA-binding proteins; DNA transcription; cloning; repeated sequences; zinc finger domain; synthetic gene oscillators
Citation Formats
Hsia, Justin, Holtz, William J., Maharbiz, Michel M., Arcak, Murat, Keasling, Jay D., and Rao, Christopher V. Modular synthetic inverters from zinc finger proteins and small RNAs. United States: N. p., 2016.
Web. doi:10.1371/journal.pone.0149483.
Hsia, Justin, Holtz, William J., Maharbiz, Michel M., Arcak, Murat, Keasling, Jay D., & Rao, Christopher V. Modular synthetic inverters from zinc finger proteins and small RNAs. United States. https://doi.org/10.1371/journal.pone.0149483
Hsia, Justin, Holtz, William J., Maharbiz, Michel M., Arcak, Murat, Keasling, Jay D., and Rao, Christopher V. Wed .
"Modular synthetic inverters from zinc finger proteins and small RNAs". United States. https://doi.org/10.1371/journal.pone.0149483. https://www.osti.gov/servlets/purl/1256959.
@article{osti_1256959,
title = {Modular synthetic inverters from zinc finger proteins and small RNAs},
author = {Hsia, Justin and Holtz, William J. and Maharbiz, Michel M. and Arcak, Murat and Keasling, Jay D. and Rao, Christopher V.},
abstractNote = {© 2016 Hsia et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. Synthetic zinc finger proteins (ZFPs) can be created to target promoter DNA sequences, repressing transcription. The binding of small RNA (sRNA) to ZFP mRNA creates an ultrasensitive response to generate higher effective Hill coefficients. Here we combined three "off the shelf" ZFPs and three sRNAs to create new modular inverters in E. col i and quantify their behavior using induction fold. We found a general ordering of the effects of the ZFPs and sRNAs on induction fold that mostly held true when combining these parts. We then attempted to construct a ring oscillator using our new inverters. Our chosen parts performed insufficiently to create oscillations, but we include future directions for improvement upon our work presented here.},
doi = {10.1371/journal.pone.0149483},
journal = {PLoS ONE},
number = 2,
volume = 11,
place = {United States},
year = {Wed Feb 17 00:00:00 EST 2016},
month = {Wed Feb 17 00:00:00 EST 2016}
}
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