Multi‐trait evolution in a cave fish, Astyanax mexicanus

@article{Protas2008MultitraitEI,
  title={Multi‐trait evolution in a cave fish, Astyanax mexicanus},
  author={Meredith E. Protas and Inna Tabansky and Melissa D. Conrad and Joshua B. Gross and Oriol Vidal and Clifford J. Tabin and Richard Borowsky},
  journal={Evolution \& Development},
  year={2008},
  volume={10}
}
SUMMARY When surface species colonize caves, a characteristic suite of traits eventually evolves over time, regardless of species. The genetic basis of the inevitable appearance of these very similar phenotypes was investigated through quantitative trait loci (QTL) mapping of 12 traits that differ significantly between the recently evolved (<1 Myr). Mexican cave tetra and its surface conspecific. The traits were a representative set, including eye size, pigment cell numbers, chemical… 
A chromosome-level genome of Astyanax mexicanus surface fish for comparing population-specific genetic differences contributing to trait evolution
TLDR
A high-resolution, chromosome-level surface fish genome is presented, enabling the first genome-wide comparison between surface fish and cavefish populations and confirming the essential role of a gene within an eye size QTL, rx3, in eye formation in A. mexicanus.
The Population Genomics of Repeated Evolution in the Blind Cavefish Astyanax mexicanus
TLDR
The findings indicate that the repeatability of evolution at the genetic level is substantial, suggesting that ancestral standing genetic variation significantly contributed to the population genetic variability used in adaptation to the cave environment.
Genome Editing Using TALENs in Blind Mexican Cavefish, Astyanax mexicanus
TLDR
TALENs were designed to target two genes that contain coding changes in cavefish relative to surface fish and map to the same location as QTL for pigmentation, oculocutaneous albinism 2 (oca2) and melanocortin 1 receptor (mc1r), and it was found that surface fish genes can be mutated using this method.
Genetic mapping of metabolic traits in the blind Mexican cavefish reveals sex-dependent quantitative trait loci associated with cave adaptation
TLDR
This study reveals previously unappreciated genomic regions associated with blood glucose regulation, body condition, gonad size, and internal organ morphology in cavefish and finds an interaction between sex and metabolism-related traits in A. mexicanus.
In-Frame Indel Mutations in the Genome of the Blind Mexican Cavefish, Astyanax mexicanus
TLDR
A genome-wide screen for in-frame indels using alignments of RNA-sequencing reads to the draft cavefish genome reveals previously unappreciated traits evolving in this species under environmental pressures and provides insight to genetic changes underlying convergence of organisms evolving in complete darkness.
The cavefish genome reveals candidate genes for eye loss
TLDR
The first de novo genome assembly for Astyanax mexicanus cavefish is presented, contrast repeat elements to other teleost genomes, identify candidate genes underlying quantitative trait loci (QTL), and assay these candidate genes for potential functional and expression differences.
Gene flow and population structure in the Mexican blind cavefish complex (Astyanax mexicanus)
TLDR
The similar cave phenotypes found in these caves are the result of repeated convergences in spite of gene flow from surface populations suggesting either strong natural or sexual selection for alleles responsible for the cave phenotype in the cave environment.
Natural bone fragmentation in the blind cave‐dwelling fish, Astyanax mexicanus: candidate gene identification through integrative comparative genomics
TLDR
This work underscores the value of cave‐dwelling fish as a powerful evolutionary model of craniofacial disease, and demonstrates the power of integrative system‐level studies for informing the genetic basis of craniafacial aberrations in nature.
Phenotypic plasticity as an important mechanism of cave colonization and adaptation in Astyanax cavefish
TLDR
It is suggested that phenotypic plasticity may significantly contribute to the rapid evolution of cave-related traits providing a foundation for genetic assimilation in colonization of A. mexicanus to dark cave environments.
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