Next generation phylogeography of cave and surface Astyanax mexicanus

[Display omitted] •A conclusive phylogeny of cave populations of A. mexicanus remains elusive.•The number of origins of cave populations remains unclear.•A high resolution phylogeny is critical for interpreting experimental studies.•We construct a high-resolution phylogeny from several thousand SNP...

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Bibliographic Details
Published in:Molecular phylogenetics and evolution 2014-10, Vol.79, p.368-374
Main Authors: Coghill, Lyndon M., Darrin Hulsey, C., Chaves-Campos, Johel, García de Leon, Francisco J., Johnson, Steven G.
Format: Article
Language:English
Subjects:
Animals
Astyanax mexicanus
Bayes Theorem
Biological Evolution
Cave
Caves
Characidae - classification
Characidae - genetics
DNA, Mitochondrial - genetics
Likelihood Functions
Mexico
Models, Genetic
Phenotypic regression
Phylogeny
Phylogeography
Polymorphism, Single Nucleotide
Sequence Analysis, DNA
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Summary:[Display omitted] •A conclusive phylogeny of cave populations of A. mexicanus remains elusive.•The number of origins of cave populations remains unclear.•A high resolution phylogeny is critical for interpreting experimental studies.•We construct a high-resolution phylogeny from several thousand SNP loci.•We provide novel insight into the origin and number of cave populations. The loss of traits is a commonly observed evolutionary pattern in cave organisms, but due to extensive morphological convergence, inferring relationships between cave and surface populations can be difficult. For instance, Astyanax mexicanus (the blind Mexican cavefish) is thought to have repeatedly lost its eyes following colonization of cave environments, but the number of evolutionarily independent invasions of this species into caves remains unclear. Because of these repeated losses, it has become a model organism for studying the genetic basis of phenotypic trait loss. Here we reconstruct a high-resolution phylogeography for A. mexicanus inferred from both mitochondrial DNA and several thousand single nucleotide polymorphisms. We provide novel insight into the origin of cave populations from the Sabinos and Río Subterráneo caves and present evidence that the Sabinos cave population is part of a unique cave lineage unrelated to other A. mexicanus cave populations. Our results indicate A. mexicanus cave populations have at least four independent origins.
ISSN:1055-7903
1095-9513
DOI:10.1016/j.ympev.2014.06.029