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Title: An open-hardware platform for optogenetics and photobiology

Abstract

In optogenetics, researchers use light and genetically encoded photoreceptors to control biological processes with unmatched precision. However, outside of neuroscience, the impact of optogenetics has been limited by a lack of user-friendly, flexible, accessible hardware. Here, we engineer the Light Plate Apparatus (LPA), a device that can deliver two independent 310 to 1550 nm light signals to each well of a 24-well plate with intensity control over three orders of magnitude and millisecond resolution. Signals are programmed using an intuitive web tool named Iris. All components can be purchased for under $400 and the device can be assembled and calibrated by a non-expert in one day. We use the LPA to precisely control gene expression from blue, green, and red light responsive optogenetic tools in bacteria, yeast, and mammalian cells and simplify the entrainment of cyanobacterial circadian rhythm. Lastly, the LPA dramatically reduces the entry barrier to optogenetics and photobiology experiments.

Authors:
 [1];  [2];  [1];  [1];  [1];  [3];  [4];  [1];  [1];  [5];  [6];  [5]
  1. Rice Univ., Houston, TX (United States). Dept. of Bioengineering
  2. Rice Univ., Houston, TX (United States). Graduate Program in Applied Physics
  3. Rice Univ., Houston, TX (United States). Ph.D. Program in Systems, Synthetic, and Physical Biology
  4. Univ. of California, Berkeley, CA (United States). Dept. of Molecular & Cell Biology
  5. Rice Univ., Houston, TX (United States). Dept. of Bioengineering; Rice Univ., Houston, TX (United States). Ph.D. Program in Systems, Synthetic, and Physical Biology; Rice Univ., Houston, TX (United States). Dept. of Biosciences
  6. Univ. of California, Berkeley, CA (United States). Dept. of Molecular & Cell Biology, and Dept. of Chemistry
Publication Date:
Research Org.:
Univ. of California, Berkeley, CA (United States)
Sponsoring Org.:
USDOE Office of Science (SC); National Institutes of Health (NIH); National Aeronautic and Space Administration (NASA); Ford Foundation
OSTI Identifier:
1430262
Grant/Contract Number:  
SC0006394
Resource Type:
Journal Article: Accepted Manuscript
Journal Name:
Scientific Reports
Additional Journal Information:
Journal Volume: 6; Journal Issue: 1; Journal ID: ISSN 2045-2322
Publisher:
Nature Publishing Group
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES

Citation Formats

Gerhardt, Karl P., Olson, Evan J., Castillo-Hair, Sebastian M., Hartsough, Lucas A., Landry, Brian P., Ekness, Felix, Yokoo, Rayka, Gomez, Eric J., Ramakrishnan, Prabha, Suh, Junghae, Savage, David F., and Tabor, Jeffrey J.. An open-hardware platform for optogenetics and photobiology. United States: N. p., 2016. Web. doi:10.1038/srep35363.
Gerhardt, Karl P., Olson, Evan J., Castillo-Hair, Sebastian M., Hartsough, Lucas A., Landry, Brian P., Ekness, Felix, Yokoo, Rayka, Gomez, Eric J., Ramakrishnan, Prabha, Suh, Junghae, Savage, David F., & Tabor, Jeffrey J.. An open-hardware platform for optogenetics and photobiology. United States. doi:10.1038/srep35363.
Gerhardt, Karl P., Olson, Evan J., Castillo-Hair, Sebastian M., Hartsough, Lucas A., Landry, Brian P., Ekness, Felix, Yokoo, Rayka, Gomez, Eric J., Ramakrishnan, Prabha, Suh, Junghae, Savage, David F., and Tabor, Jeffrey J.. Wed . "An open-hardware platform for optogenetics and photobiology". United States. doi:10.1038/srep35363. https://www.osti.gov/servlets/purl/1430262.
@article{osti_1430262,
title = {An open-hardware platform for optogenetics and photobiology},
author = {Gerhardt, Karl P. and Olson, Evan J. and Castillo-Hair, Sebastian M. and Hartsough, Lucas A. and Landry, Brian P. and Ekness, Felix and Yokoo, Rayka and Gomez, Eric J. and Ramakrishnan, Prabha and Suh, Junghae and Savage, David F. and Tabor, Jeffrey J.},
abstractNote = {In optogenetics, researchers use light and genetically encoded photoreceptors to control biological processes with unmatched precision. However, outside of neuroscience, the impact of optogenetics has been limited by a lack of user-friendly, flexible, accessible hardware. Here, we engineer the Light Plate Apparatus (LPA), a device that can deliver two independent 310 to 1550 nm light signals to each well of a 24-well plate with intensity control over three orders of magnitude and millisecond resolution. Signals are programmed using an intuitive web tool named Iris. All components can be purchased for under $400 and the device can be assembled and calibrated by a non-expert in one day. We use the LPA to precisely control gene expression from blue, green, and red light responsive optogenetic tools in bacteria, yeast, and mammalian cells and simplify the entrainment of cyanobacterial circadian rhythm. Lastly, the LPA dramatically reduces the entry barrier to optogenetics and photobiology experiments.},
doi = {10.1038/srep35363},
journal = {Scientific Reports},
number = 1,
volume = 6,
place = {United States},
year = {Wed Nov 02 00:00:00 EDT 2016},
month = {Wed Nov 02 00:00:00 EDT 2016}
}

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Cited by: 15 works
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Works referenced in this record:

Cyanobacterial daily life with Kai-based circadian and diurnal genome-wide transcriptional control in Synechococcus elongatus
journal, July 2009

  • Ito, H.; Mutsuda, M.; Murayama, Y.
  • Proceedings of the National Academy of Sciences, Vol. 106, Issue 33, p. 14168-14173
  • DOI: 10.1073/pnas.0902587106

Synthetic protein scaffolds provide modular control over metabolic flux
journal, August 2009

  • Dueber, John E.; Wu, Gabriel C.; Malmirchegini, G. Reza
  • Nature Biotechnology, Vol. 27, Issue 8, p. 753-759
  • DOI: 10.1038/nbt.1557