Publications by authors named "Devon P Humphreys"

Background: Diagnostic testing accessibility and asymptomatic transmission of SARS-CoV-2 present major challenges for curbing and preventing community prevalence of COVID-19. At-home sample collection for molecular testing provides a convenient and effective solution for disease containment and prevention.

Methods: This is a retrospective, cross-sectional, case-control study.

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Article Synopsis
  • The study investigates the phylogenetic relationships among three closely related Drosophila species, focusing on how isolating barriers affect their evolutionary paths.
  • Researchers used a dataset of 29 genetic loci to analyze the relationships, revealing that D. subquinaria is paraphyletic and has complex connections with D. recens and D. transversa depending on geographic location.
  • The findings suggest that both incomplete lineage sorting and gene flow contribute to phylogenetic discordance, indicating that ongoing gene flow from D. recens into D. subquinaria complicates understanding their evolutionary history.
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Accurate estimation of recombination rates is critical for studying the origins and maintenance of genetic diversity. Because the inference of recombination rates under a full evolutionary model is computationally expensive, we developed an alternative approach using topological data analysis (TDA) on genome sequences. We find that this method can analyze datasets larger than what can be handled by any existing recombination inference software, and has accuracy comparable to commonly used model-based methods with significantly less processing time.

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When two species are incompletely isolated, strengthening premating isolation barriers in response to the production of low fitness hybrids may complete the speciation process. Here, we use the sister species Drosophila subquinaria and Drosophila recens to study the conditions under which this reinforcement of species boundaries occurs in natural populations. We first extend the region of known sympatry between these species, and then we conduct a fine-scale geographic survey of mate discrimination coupled with estimates of gene flow within and admixture between species.

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Several previous genomic studies have focused on adaptation to high elevations, but these investigations have been largely limited to endotherms. Snakes of the genus are endemic to the Tibetan plateau and therefore present an opportunity to study high-elevation adaptations in ectotherms. Here, we report the de novo assembly of the genome of a Tibetan hot-spring snake () and then compare its genome to the genomes of the other two species of , as well as to the genomes of two related species of snakes that occur at lower elevations.

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The reinforcement of premating barriers due to reduced hybrid fitness in sympatry may cause secondary sexual isolation within a species as a by-product. Consistent with this, in the fly , females that are sympatric with mate at very low rates not only with , but also with conspecific males from allopatry. Here, we ask if these effects of reinforcement cascade more broadly to affect sexual isolation with other closely related species.

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The leaf economics spectrum (LES) is a prominent ecophysiological paradigm that describes global variation in leaf physiology across plant ecological strategies using a handful of key traits. Nearly a decade ago, Shipley et al. (2006) used structural equation modelling to explore the causal functional relationships among LES traits that give rise to their strong global covariation.

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