Skip to main content
bioRxiv
  • Home
  • About
  • Submit
  • ALERTS / RSS
Advanced Search
New Results

Comparison of the theoretical and real-world evolutionary potential of a genetic circuit

M. Razo-Mejia, J. Q. Boedicker, D. Jones, A. DeLuna, J. B. Kinney, R. Phillips
doi: https://doi.org/10.1101/003772
M. Razo-Mejia
1Ingenieria Biotecnologica, Instituto Politecnico Nacional, Av. Mineral de Valenciana No. 200 Col. Fracc. Industrial Puerto Interior, Silao de la Victoria, Guanajuato, 36275, Mexico.
2Department of Applied Physics, California Institute of Technology, 1200 East California Boulevard, Pasadena, California 91125, USA.
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
J. Q. Boedicker
2Department of Applied Physics, California Institute of Technology, 1200 East California Boulevard, Pasadena, California 91125, USA.
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
D. Jones
2Department of Applied Physics, California Institute of Technology, 1200 East California Boulevard, Pasadena, California 91125, USA.
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
A. DeLuna
3Laboratorio Nacional de Genomica para la Biodiversidad (Langebio), Centro de Investigacion y de Estudios Avanzados (Cinvestav), 36821 Irapuato, Guanajuato, Mexico.
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
J. B. Kinney
4Simons Center for Quantitative Biology, Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 11724
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
R. Phillips
2Department of Applied Physics, California Institute of Technology, 1200 East California Boulevard, Pasadena, California 91125, USA.
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • Abstract
  • Full Text
  • Info/History
  • Metrics
  • Preview PDF
Loading

Abstract

With the development of next-generation sequencing technologies, many large scale experimental efforts aim to map genotypic variability among individuals. This natural variability in populations fuels many fundamental biological processes, ranging from evolutionary adaptation and speciation to the spread of genetic diseases and drug resistance. An interesting and important component of this variability is present within the regulatory regions of genes. As these regions evolve, accumulated mutations lead to modulation of gene expression, which may have consequences for the phenotype. A simple model system where the link between genetic variability, gene regulation and function can be studied in detail is missing. In this article we develop a model to explore how the sequence of the wild-type lac promoter dictates the fold change in gene expression. The model combines single-base pair resolution maps of transcription factor and RNA polymerase binding energies with a comprehensive thermodynamic model of gene regulation. The model was validated by predicting and then measuring the variability of lac operon regulation in a collection of natural isolates. We then implement the model to analyze the sensitivity of the promoter sequence to the regulatory output, and predict the potential for regulation to evolve due to point mutations in the promoter region.

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC-ND 4.0 International license.
Back to top
PreviousNext
Posted April 02, 2014.
Download PDF
Email

Thank you for your interest in spreading the word about bioRxiv.

NOTE: Your email address is requested solely to identify you as the sender of this article.

Enter multiple addresses on separate lines or separate them with commas.
Comparison of the theoretical and real-world evolutionary potential of a genetic circuit
(Your Name) has forwarded a page to you from bioRxiv
(Your Name) thought you would like to see this page from the bioRxiv website.
CAPTCHA
This question is for testing whether or not you are a human visitor and to prevent automated spam submissions.
Share
Comparison of the theoretical and real-world evolutionary potential of a genetic circuit
M. Razo-Mejia, J. Q. Boedicker, D. Jones, A. DeLuna, J. B. Kinney, R. Phillips
bioRxiv 003772; doi: https://doi.org/10.1101/003772
Reddit logo Twitter logo Facebook logo LinkedIn logo Mendeley logo
Citation Tools
Comparison of the theoretical and real-world evolutionary potential of a genetic circuit
M. Razo-Mejia, J. Q. Boedicker, D. Jones, A. DeLuna, J. B. Kinney, R. Phillips
bioRxiv 003772; doi: https://doi.org/10.1101/003772

Citation Manager Formats

  • BibTeX
  • Bookends
  • EasyBib
  • EndNote (tagged)
  • EndNote 8 (xml)
  • Medlars
  • Mendeley
  • Papers
  • RefWorks Tagged
  • Ref Manager
  • RIS
  • Zotero
  • Tweet Widget
  • Facebook Like
  • Google Plus One

Subject Area

  • Evolutionary Biology
Subject Areas
All Articles
  • Animal Behavior and Cognition (4372)
  • Biochemistry (9561)
  • Bioengineering (7075)
  • Bioinformatics (24800)
  • Biophysics (12581)
  • Cancer Biology (9929)
  • Cell Biology (14306)
  • Clinical Trials (138)
  • Developmental Biology (7935)
  • Ecology (12085)
  • Epidemiology (2067)
  • Evolutionary Biology (15965)
  • Genetics (10910)
  • Genomics (14716)
  • Immunology (9850)
  • Microbiology (23597)
  • Molecular Biology (9463)
  • Neuroscience (50750)
  • Paleontology (369)
  • Pathology (1537)
  • Pharmacology and Toxicology (2675)
  • Physiology (4003)
  • Plant Biology (8646)
  • Scientific Communication and Education (1506)
  • Synthetic Biology (2388)
  • Systems Biology (6417)
  • Zoology (1345)