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Open AccessGenetic map** of craniofacial traits in the Mexican tetra reveals loci associated with bite differences between cave and surface fish
The Mexican tetra, Astyanax mexicanus, includes interfertile surface-dwelling and cave-dwelling morphs, enabling powerful studies aimed at uncovering genes involved in the evolution of cave-associated traits. Com...
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Article
Open AccessSelection-driven trait loss in independently evolved cavefish populations
Laboratory studies have demonstrated that a single phenotype can be produced by many different genotypes; however, in natural systems, it is frequently found that phenotypic convergence is due to parallel gene...
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Article
Open AccessA chromosome-level genome of Astyanax mexicanus surface fish for comparing population-specific genetic differences contributing to trait evolution
Identifying the genetic factors that underlie complex traits is central to understanding the mechanistic underpinnings of evolution. Cave-dwelling Astyanax mexicanus populations are well adapted to subterranean l...
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Article
Open AccessUsing multiple reference genomes to identify and resolve annotation inconsistencies
Advances in sequencing technologies have led to the release of reference genomes and annotations for multiple individuals within more well-studied systems. While each of these new genome assemblies shares sign...
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Article
Open AccessThe evolution of a series of behavioral traits is associated with autism-risk genes in cavefish
An essential question in evolutionary biology is whether shifts in a set of polygenic behaviors share a genetic basis across species. Such a behavioral shift is seen in the cave-dwelling Mexican tetra, Astyanax m...
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Article
Open AccessGrowth and stress response mechanisms underlying post-feeding regenerative organ growth in the Burmese python
Previous studies examining post-feeding organ regeneration in the Burmese python (Python molurus bivittatus) have identified thousands of genes that are significantly differentially regulated during this process....
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Article
Open AccessThe cavefish genome reveals candidate genes for eye loss
Natural populations subjected to strong environmental selection pressures offer a window into the genetic underpinnings of evolutionary change. Cavefish populations, Astyanax mexicanus (Teleostei: Characiphysi), ...
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Article
Population genetics of Blanding’s turtle (Emys blandingii) in the midwestern United States
Blanding’s turtle (Emys blandingii) has declined substantially in North America due to anthropogenic activities, leaving populations smaller and increasingly fragmented spatially. We sampled 212 turtles to evalua...
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Open AccessThe western painted turtle genome, a model for the evolution of extreme physiological adaptations in a slowly evolving lineage
We describe the genome of the western painted turtle, Chrysemys picta bellii, one of the most widespread, abundant, and well-studied turtles. We place the genome into a comparative evolutionary context, and focus...
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Erratum to: Effects of Premature Termination Codon Polymorphisms in the Drosophila pseudoobscura Subclade
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Article
Comparative population genetics of aquatic turtles in the desert
In a desert-spring ecosystem, the desert can be a formidable barrier to dispersal for species with sensitivity to desiccation. In the desert-spring ecosystem of Cuatro Ciénegas, México, three endemic turtle sp...
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Article
Effects of Premature Termination Codon Polymorphisms in the Drosophila pseudoobscura Subclade
Premature termination codon (PTC) mutations can have dramatic effects—both adaptive and deleterious—on gene expression and function. Here, we examine the number and selective effects of PTC mutations within the D...
