Genome-Wide Association Mapping of Phenotypic Traits Subject to a Range of Intensities of Natural Selection in Timema cristinae*

@article{Comeault2014GenomeWideAM,
  title={Genome-Wide Association Mapping of Phenotypic Traits Subject to a Range of Intensities of Natural Selection in Timema cristinae*},
  author={Aaron A. Comeault and V{\'i}ctor Soria-Carrasco and Zachariah Gompert and Timothy E. Farkas and C. Alex Buerkle and Thomas Lee Parchman and Patrik Nosil},
  journal={The American Naturalist},
  year={2014},
  volume={183},
  pages={711 - 727}
}
The genetic architecture of adaptive traits can reflect the evolutionary history of populations and also shape divergence among populations. Despite this central role in evolution, relatively little is known regarding the genetic architecture of adaptive traits in nature, particularly for traits subject to known selection intensities. Here we quantitatively describe the genetic architecture of traits that are subject to known intensities of differential selection between host plant species in… 
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47 Citations

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References

SHOWING 1-10 OF 106 REFERENCES

GENOME DIVERGENCE AND THE GENETIC ARCHITECTURE OF BARRIERS TO GENE FLOW BETWEEN LYCAEIDES IDAS AND L. MELISSA

Quantitatively describe aspects of the genetic architecture of two sets of traits, male genitalic morphology and oviposition preference, that putatively function as barriers to gene flow between the butterfly species Lycaeides idas and L. melissa and are consistent with the hypothesis that divergent selection on male genitalia has contributed to heterogeneous genetic differentiation, and that both sets of trait affect fitness in hybrids.

Combining population genomics and quantitative genetics: finding the genes underlying ecologically important traits

It is argued that a combination of the two approaches, population genomics and quantitative genetic approaches, provides a powerful approach to uncovering the molecular mechanisms responsible for adaptation.

QTL ANALYSIS OF FLORAL TRAITS IN LOUISIANA IRIS HYBRIDS

The QTL results imply that the genetic basis of floral morphology and color traits might facilitate the maintenance of phenotypic divergence between Iris fulva and Iris brevicaulis, although a great deal ofphenotypic variation was observed among hybrids.

Spatially and temporally varying selection on intrapopulation quantitative trait loci for a life history trade‐off in Mimulus guttatus

This study reports a 3‐year field study of selection on intrapopulation quantitative trait loci of flower size, a highly polygenic trait in Mimulus guttatus, providing direct evidence of balancing selection mechanisms on QTL of an ecologically relevant trait.

Genomic consequences of multiple speciation processes in a stick insect

Patterns consistent with effects of numerous factors are found, including geographical distance, gene flow, divergence in host plant use and climate, and selection against maladaptive hybridization in a system undergoing ecological speciation.

Genetic architecture of quantitative traits in mice, flies, and humans.

It is argued that the distribution of effect size of common variants is the same for all phenotypes regardless of species, and the importance of epistasis, pleiotropy, and gene by environment interactions is discussed.

GENETIC ARCHITECTURE AND ADAPTIVE SIGNIFICANCE OF THE SELFING SYNDROME IN CAPSELLA

The genetic architecture and evolutionary forces underlying evolution of the selfing syndrome in Capsella rubella following its recent divergence from the outcrossing ancestor C. grandiflora are characterized and the directionality of QTL effects, as well as population genetic patterns of polymorphism and divergence at 318 loci, are consistent with a history of directional selection on theSelfing syndrome.

THE GENETIC ARCHITECTURE OF ADAPTATION UNDER MIGRATION–SELECTION BALANCE

Analytical approximations and individual‐based simulations are used to explore how genetic architecture evolves when two populations connected by migration experience stabilizing selection toward different optima and find that adaptation with migration tends to result in concentrated genetic architectures with fewer, larger, and more tightly linked divergent alleles.

Genome-wide genetic association of complex traits in heterogeneous stock mice

It is shown that genome-wide high-resolution mapping of multiple phenotypes can be achieved using a stock of genetically heterogeneous mice, and a conservative and robust bootstrap analysis is developed to map 843 QTLs.

THE GENETICS OF ADAPTIVE SHAPE SHIFT IN STICKLEBACK: PLEIOTROPY AND EFFECT SIZE

A quantitative trait loci study of a suite of 54 position traits describing body shapes of two threespine stickleback species suggested that sex differences may provide variation upon which selection can act, consistent with predictions of the geometric model of adaptation.
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