Erik D. Enbody
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View article: Efficient estimation of nucleotide diversity and divergence using callable loci (and more)
Efficient estimation of nucleotide diversity and divergence using callable loci (and more) Open
The increasing scale of population genomic datasets presents computational challenges in estimating summary statistics such as nucleotide diversity (π) and divergence (dxy). Accurate estimates of diversity require knowledge of missing data…
View article: Adaptive introgression of putative carotenoid pigment genes explains geographic variation in a sexually-selected plumage trait
Adaptive introgression of putative carotenoid pigment genes explains geographic variation in a sexually-selected plumage trait Open
Understanding the genetic architecture of sexually-selected traits is a fundamental goal in evolutionary biology because it can explain the constraints and processes that shape the production of these traits and emergent evolutionary proce…
View article: Efficient Estimation of Nucleotide Diversity and Divergence using Depth Information
Efficient Estimation of Nucleotide Diversity and Divergence using Depth Information Open
The increasing scale of population genomic datasets presents computational challenges in estimating summary statistics such as nucleotide diversity (π) and divergence ( d xy ). Unbiased estimates of diversity require knowledge of missing d…
View article: Patterns of genetic diversity within three California quail species are best explained by climate and landscape changes
Patterns of genetic diversity within three California quail species are best explained by climate and landscape changes Open
View article: Selection against domestication alleles in introduced rabbit populations
Selection against domestication alleles in introduced rabbit populations Open
View article: Copy number variation and elevated genetic diversity at immune trait loci in Atlantic and Pacific herring
Copy number variation and elevated genetic diversity at immune trait loci in Atlantic and Pacific herring Open
View article: Limited genomic signatures of population collapse in the critically endangered black abalone ( <i>Haliotis cracherodii</i> )
Limited genomic signatures of population collapse in the critically endangered black abalone ( <i>Haliotis cracherodii</i> ) Open
The black abalone, Haliotis cracherodii , is a large, long‐lived marine mollusc that inhabits rocky intertidal habitats along the coast of California and Mexico. In 1985, populations were impacted by a bacterial disease known as withering …
View article: Genetic Basis and Evolution of Structural Color Polymorphism in an Australian Songbird
Genetic Basis and Evolution of Structural Color Polymorphism in an Australian Songbird Open
Island organisms often evolve phenotypes divergent from their mainland counterparts, providing a useful system for studying adaptation under differential selection. In the white-winged fairywren (Malurus leucopterus), subspecies on two isl…
View article: Limited genomic signatures of population collapse in the critically endangered black abalone (<i>Haliotis cracherodii</i>)
Limited genomic signatures of population collapse in the critically endangered black abalone (<i>Haliotis cracherodii</i>) Open
The black abalone, Haliotis cracherodii , is a large, long-lived marine mollusc that inhabits rocky intertidal habitats along the coast of California and Mexico. In 1985, populations were impacted by a bacterial disease known as withering …
View article: A Fast, Reproducible, High-throughput Variant Calling Workflow for Population Genomics
A Fast, Reproducible, High-throughput Variant Calling Workflow for Population Genomics Open
The increasing availability of genomic resequencing data sets and high-quality reference genomes across the tree of life present exciting opportunities for comparative population genomic studies. However, substantial challenges prevent the…
View article: Copy number variation and elevated genetic diversity at immune trait loci in Atlantic and Pacific herring
Copy number variation and elevated genetic diversity at immune trait loci in Atlantic and Pacific herring Open
Atlantic and Pacific herring are sister species that diverged about 2 million years ago. Here we describe a genome comparison of the two species that reveal high genome-wide differentiation as expected for two distinct species but with isl…
View article: Introgression Underlies Phylogenetic Uncertainty But Not Parallel Plumage Evolution in a Recent Songbird Radiation
Introgression Underlies Phylogenetic Uncertainty But Not Parallel Plumage Evolution in a Recent Songbird Radiation Open
Instances of parallel phenotypic evolution offer great opportunities to understand the evolutionary processes underlying phenotypic changes. However, confirming parallel phenotypic evolution and studying its causes requires a robust phylog…
View article: Low Mutation Load in a Supergene Underpinning Alternative Male Mating Strategies in Ruff (<i>Calidris pugnax</i>)
Low Mutation Load in a Supergene Underpinning Alternative Male Mating Strategies in Ruff (<i>Calidris pugnax</i>) Open
A paradox in evolutionary biology is how supergenes can maintain high fitness despite reduced effective population size, the suppression of recombination, and the expected accumulation of mutational load. The ruff supergene involves 2 rare…
View article: Integrative taxonomy reveals unrecognised species diversity in African <i>Corypha</i> larks (Aves: Alaudidae)
Integrative taxonomy reveals unrecognised species diversity in African <i>Corypha</i> larks (Aves: Alaudidae) Open
The species complex comprising the rufous-naped lark Corypha africana, Sharpe’s lark Corypha sharpii, the red-winged lark Corypha hypermetra, the Somali long-billed lark Corypha somalica and Ash’s lark Corypha ashi encompasses 31 recognise…
View article: Genetic basis and evolution of structural color polymorphism in an Australian songbird
Genetic basis and evolution of structural color polymorphism in an Australian songbird Open
Island organisms often evolve phenotypes divergent from their mainland counterparts, providing a useful system for studying adaption under differential selection. Some island birds have melanic plumage differing from the color of mainland …
View article: A fast, reproducible, high-throughput variant calling workflow for evolutionary, ecological, and conservation genomics
A fast, reproducible, high-throughput variant calling workflow for evolutionary, ecological, and conservation genomics Open
The increasing availability of genomic resequencing datasets and high quality reference genomes across the tree of life present exciting opportunities for comparative population genomic studies. However, substantial challenges prevent the …
View article: A Long-Standing Hybrid Population Between Pacific and Atlantic Herring in a Subarctic Fjord of Norway
A Long-Standing Hybrid Population Between Pacific and Atlantic Herring in a Subarctic Fjord of Norway Open
Atlantic herring (Clupea harengus) and Pacific herring (C. pallasii) are sister species that split from a common ancestor about 2 million years ago. Balsfjord, a subarctic fjord in Northern Norway, harbors an outpost population of Pacific …
View article: Introgression underlies phylogenetic uncertainty but not parallel plumage evolution in a recent songbird radiation
Introgression underlies phylogenetic uncertainty but not parallel plumage evolution in a recent songbird radiation Open
Instances of parallel phenotypic evolution offer great opportunities to understand the evolutionary processes underlying phenotypic changes. However, confirming parallel phenotypic evolution and studying its causes requires a robust phylog…
View article: Testosterone Coordinates Gene Expression Across Different Tissues to Produce Carotenoid-Based Red Ornamentation
Testosterone Coordinates Gene Expression Across Different Tissues to Produce Carotenoid-Based Red Ornamentation Open
Carotenoid pigments underlie most of the red, orange, and yellow visual signals used in mate choice in vertebrates. However, many of the underlying processes surrounding the production of carotenoid-based traits remain unclear due to the c…
View article: Does capacity to elevate androgens underlie variation in female ornamentation and territoriality in White-shouldered Fairywren (<i>Malurus alboscapulatus</i>)?
Does capacity to elevate androgens underlie variation in female ornamentation and territoriality in White-shouldered Fairywren (<i>Malurus alboscapulatus</i>)? Open
Historic bias toward study of male sex hormones and sexual signals currently constrains our perspective of hormone—behavior—phenotype relationships. Resolving how ornamented female phenotypes evolve is particularly important for understand…
View article: Systematics of the avian family Alaudidae using multilocus and genomic data
Systematics of the avian family Alaudidae using multilocus and genomic data Open
SNP datasets (gzipped VCF files) and tree output (newick-formatted trees in .trees files) associated with the publication Systematics of the avian family Alaudidae using multilocus and genomic data by Alström et al. (2023). In the…
View article: Systematics of the avian family Alaudidae using multilocus and genomic data
Systematics of the avian family Alaudidae using multilocus and genomic data Open
SNP datasets (gzipped VCF files) and tree output (newick-formatted trees in .trees files) associated with the publication Systematics of the avian family Alaudidae using multilocus and genomic data by Alström et al. (2023). In the…
View article: Does Capacity to Elevate Androgens Underlie Variation in Female Ornamentation and Territoriality in White-Shouldered Fairywren (Malurus Alboscapulatus)?
Does Capacity to Elevate Androgens Underlie Variation in Female Ornamentation and Territoriality in White-Shouldered Fairywren (Malurus Alboscapulatus)? Open
View article: Systematics of the avian family Alaudidae using multilocus and genomic data
Systematics of the avian family Alaudidae using multilocus and genomic data Open
View article: Large effect loci have a prominent role in Darwin’s finch evolution
Large effect loci have a prominent role in Darwin’s finch evolution Open
A fundamental goal in evolutionary biology is to understand the genetic architecture of adaptive traits and its evolutionary relevance. Using whole-genome data of 3,958 Darwin’s finches on the Galápagos Island of Daphne Major we identify s…
View article: Rapid adaptive radiation of Darwin’s finches depends on ancestral genetic modules
Rapid adaptive radiation of Darwin’s finches depends on ancestral genetic modules Open
Recent adaptive radiations are models for investigating mechanisms contributing to the evolution of biodiversity. An unresolved question is the relative importance of new mutations, ancestral variants, and introgressive hybridization for p…
View article: The evolutionary history and mechanistic basis of female ornamentation in a tropical songbird
The evolutionary history and mechanistic basis of female ornamentation in a tropical songbird Open
Ornamentation, such as the showy plumage of birds, is widespread among female vertebrates, yet the evolutionary pressures shaping female ornamentation remain uncertain. In part this is due to a poor understanding of the mechanistic route t…
View article: Low mutation load in a supergene underpinning alternative male mating strategies in ruff
Low mutation load in a supergene underpinning alternative male mating strategies in ruff Open
Ruffs are shorebirds with an elaborate lekking behavior involving three male morphs with different mating strategies: Independents, Satellites, and Faeders 1,2 . The latter two are heterozygous for different versions of a supergene maintai…
View article: Male White-shouldered Fairywrens (Malurus alboscapulatus) elevate androgens greater when courting females than during territorial challenges
Male White-shouldered Fairywrens (Malurus alboscapulatus) elevate androgens greater when courting females than during territorial challenges Open
Androgens like testosterone mediate suites of physical and behavioral traits across vertebrates, and circulation varies considerably across and within taxa. However, an understanding of the causal factors of variation in circulating testos…
View article: Drought disrupts year-round breeding readiness in a tropical songbird
Drought disrupts year-round breeding readiness in a tropical songbird Open
Climate change is expected to increase the prevalence and severity of extreme weather events like drought. For many opportunistically breeding tropical bird species, precipitation serves as a primary cue for onset of breeding, and sustaine…