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Whole-Genome Identification of Neutrally Evolving Pseudogenes Using the Evolutionary Measure dN/dS

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Pseudogenes

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1167))

Abstract

Starting with the assumption that they are dead copies of genes lacking functionality, and hence that they are not subjected to selective pressure, pseudogenes can be distinguished from protein-coding genes using neutrality and its measure. Here, we describe the different methods that allow to estimate neutral evolution by calculating the ratio between non-synonymous (i.e., causing an amino-acidic change) and synonymous (silent) substitutions and we discuss their application to the identification of pseudogenes.

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Author information

Authors and Affiliations

  1. Joint IRB-BSC Program on Computational Biology, Barcelona Supercomputing Center, Barcelona, Spain

    Lise Olivia Andrieux Ph.D. & David Torrents Arenales

  2. Computational Genomics Group, Life Sciences Department, Barcelona Supercomputing Center (BSC) – Centro Nacional de Supercomputacion (CNS) Nexus II – Planta 1, c/Jordi Girona, 29, 08034, Barcelona, Catalunya, Spain

    Lise Olivia Andrieux Ph.D.

  3. Institució Catalana de Recerca i Estudis Avançats (ICREA), Barcelona, Spain

    David Torrents Arenales

Authors
  1. Lise Olivia Andrieux Ph.D.
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  2. David Torrents Arenales
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Corresponding author

Correspondence to Lise Olivia Andrieux Ph.D. .

Editor information

Editors and Affiliations

  1. Istituto Toscano Tumori, Pisa, Italy

    Laura Poliseno

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Andrieux, L.O., Arenales, D.T. (2014). Whole-Genome Identification of Neutrally Evolving Pseudogenes Using the Evolutionary Measure dN/dS . In: Poliseno, L. (eds) Pseudogenes. Methods in Molecular Biology, vol 1167. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-0835-6_6

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  • DOI: https://doi.org/10.1007/978-1-4939-0835-6_6

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  • Publisher Name: Humana Press, New York, NY

  • Print ISBN: 978-1-4939-0834-9

  • Online ISBN: 978-1-4939-0835-6

  • eBook Packages: Springer Protocols

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