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Studying AMPK in an Evolutionary Context

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AMPK

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1732))

Abstract

The AMPK protein kinase forms the heart of a complex network controlling the metabolic activities in a eukaryotic cell. Unraveling the steps by which this pathway evolved from its primordial roots in the last eukaryotic common ancestor to its present status in contemporary species has the potential to shed light on the evolution of eukaryotes. A homolog search for the proteins interacting in this pathway is considerably straightforward. However, interpreting the results, when reconstructing the evolutionary history of the pathway over larger evolutionary distances, bears a number of pitfalls. With this in mind, we present a protocol to trace a metabolic pathway across contemporary species and backward in evolutionary time. Alongside the individual analysis steps, we provide guidelines for data interpretation generalizing beyond the analysis of AMPK.

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Acknowledgment

This work was supported by the Marie Curie ITN project CALIPSO (GA ITN-2013 607 607), and by the Deutsche Forschungsgesellschaft (EB 285/2-1).

Author information

Authors and Affiliations

  1. Applied Bioinformatics Group, Institute of Cell Biology and Neuroscience, Goethe University Frankfurt, Frankfurt, Germany

    Arpit Jain & Ingo Ebersberger

  2. Department of Ecogenomics and Systems Biology, University of Vienna, Vienna, Austria

    Valentin Roustan & Wolfram Weckwerth

  3. Vienna Metabolomics Center (VIME), University of Vienna, Vienna, Austria

    Wolfram Weckwerth

  4. Senckenberg Biodiversity and Climate Research Centre (BIK-F), Frankfurt, Germany

    Ingo Ebersberger

Authors
  1. Arpit Jain
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  2. Valentin Roustan
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  3. Wolfram Weckwerth
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  4. Ingo Ebersberger
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Corresponding author

Correspondence to Ingo Ebersberger .

Editor information

Editors and Affiliations

  1. Department of Pathology CARIM School for Cardiovascular Diseases, Maastricht University, Maastricht, The Netherlands

    Dietbert Neumann

  2. Department EMD, Inserm, U1016, Institut Cochin, CNRS, UMR8104, Université Paris Descartes, Paris, France

    Benoit Viollet

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Jain, A., Roustan, V., Weckwerth, W., Ebersberger, I. (2018). Studying AMPK in an Evolutionary Context. In: Neumann, D., Viollet, B. (eds) AMPK. Methods in Molecular Biology, vol 1732. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-7598-3_8

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  • DOI: https://doi.org/10.1007/978-1-4939-7598-3_8

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  • Publisher Name: Humana Press, New York, NY

  • Print ISBN: 978-1-4939-7597-6

  • Online ISBN: 978-1-4939-7598-3

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