Assessing substitution patterns, rates and homoplasy at HVRI of Steller sea lions, Eumetopias jubatus

C. D. PHILLIPS; R. G. TRUJILLO; T. S. GELATT; M. J. SMOLEN; C. W. MATSON; R. L. HONEYCUTT; J. C. PATTON; J. W. BICKHAM

doi:10.1111/j.1365-294x.2009.04283.x

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Assessing substitution patterns, rates and homoplasy at HVRI of Steller sea lions, Eumetopias jubatus

Informally Refereed

Authors:

C. D. PHILLIPS, R. G. TRUJILLO, T. S. GELATT, M. J. SMOLEN, C. W. MATSON, R. L. HONEYCUTT, J. C. PATTON, J. W. BICKHAM

Year:

2009

Type:

Scientific Journal

Station:

Northern Research Station

DOI:

https://doi.org/10.1111/j.1365-294x.2009.04283.x

Source:

Molecular Ecology

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Abstract

Despite the widely recognized incidence of homoplasy characterizing this region, the hypervariable region I (HVRI) of the mitochondrial control region is one of the most frequently used genetic markers for population genetic and phylogeographic studies. We present an evolutionary analysis of HVRI and cytochrome b sequences from a range-wide survey of 1031 Steller sea lions, Eumetopias jubatus, to quantify homoplasy and substitution rate at HVRI. Variation in HVRI was distributed across 41 variable sites in the 238-bp segment examined. All variants at HVR1 were found to be transitions. However, our analyses suggest that a minimum of 101 changes have actually occurred within HVRI with as many as 18 substitutions occurring at a single site.

Keywords

convergent molecular evolution, Eumetopias jubatus, homoplasy, HVRI, Steller sea lion, substitution rate

Citation

Phillips, C. D.; Trujillo, R. G.; Gelatt, T. S.; Smolen, M. J.; Matson, C. W.; Honeycutt, R. L.; Patton, J. C.; Bickham, J. W. 2009. Assessing substitution patterns, rates and homoplasy at HVRI of Steller sea lions, Eumetopias jubatus. Molecular Ecology. 18(16): 3379-3393. https://doi.org/10.1111/j.1365-294x.2009.04283.x.