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Determining the Null Model for Detecting Adaptive Convergence from Genomic Data: A Case Study using Echolocating

Gregg W C Thomas1, Matthew W Hahn2

  • 1School of Informatics and Computing, Indiana University, Bloomington.

Molecular Biology and Evolution
|January 30, 2015
PubMed
Summary
This summary is machine-generated.

Convergent evolution in echolocating mammals was re-examined. New methods show no significant genomic convergence, challenging previous findings of adaptive evolution in these species.

Keywords:
adaptationconvergenceecholocationparallel evolution

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Area of Science:

  • Genomics
  • Evolutionary Biology
  • Molecular Biology

Background:

  • Convergent evolution, where similar traits arise independently, offers insights into adaptation.
  • Genomic convergence studies are complicated by chance molecular changes.
  • Previous research suggested genome-wide adaptive convergence in echolocating mammals.

Purpose of the Study:

  • To re-evaluate the evidence for genomic convergence in echolocating mammals.
  • To assess the reliability of site-specific likelihood support (SSLS) methods for detecting convergence.
  • To apply a more robust empirical null model for analyzing convergent substitutions.

Main Methods:

  • Comparison of genomic data from echolocating bats and dolphins.
  • Utilizing an empirical null model based on direct pairwise species comparisons.
  • Analyzing site-specific likelihood support (SSLS) and contrasting it with the empirical model.

Main Results:

  • Methods based on SSLS may not accurately measure convergence.
  • An empirical null model revealed no significant excess of convergence between echolocating mammals.
  • This lack of convergence was observed even in sensory genes crucial for echolocation.

Conclusions:

  • The previous conclusion of genome-wide adaptive convergence in echolocating mammals is not supported by more rigorous methods.
  • The empirical null model provides a more reliable framework for studying molecular convergence.
  • Chance molecular changes, rather than adaptive convergence, may explain observed similarities in echolocating mammals.