34 Works

Data from: The location of the citation: changing practices in how publications cite original data in the Dryad Digital Repository

Christine Mayo, Todd J. Vision & Elizabeth A. Hull
While stakeholders in scholarly communication generally agree on the importance of data citation, there is not consensus on where those citations should be placed within the publication – particularly when the publication is citing original data. Recently, CrossRef and the Digital Curation Center (DCC) have recommended as a best practice that original data citations appear in the works cited sections of the article. In some fields, such as the life sciences, this contrasts with the...

Data from: Wolbachia in the Drosophila yakuba complex: pervasive frequency variation and weak cytoplasmic incompatibility, but no apparent effect on reproductive isolation

Brandon S. Cooper, Paul S. Ginsberg, Michael Turelli & Daniel R. Matute
Three hybridizing species-the clade ((Drosophila yakuba, D. santomea), D. teissieri) -comprise the yakuba complex in the D. melanogaster subgroup. Their ranges overlap on Bioko and São Tomé, islands off west Africa. All three species are infected with Wolbachia, maternally inherited, endosymbiotic bacteria, best known for manipulating host reproduction to favor infected females. Previous analyses reported no cytoplasmic incompatibility (CI) in these species. However, we discovered that Wolbachia from each species cause intra- and interspecific CI....

Data from: Genetic structure of phenotypic robustness in the Collaborative Cross mouse diallel panel

Paula N. Gonzalez, Mihaela Pavlicev, Philipp Mitteroecker, Fernando Pardo-Manuel De Villena, Richard Spritz, Ralph Marcucio & Benedikt Hallgrimsson
Developmental stability and canalization describe the ability of developmental systems to minimize phenotypic variation in the face of stochastic micro-environmental effects, genetic variation and environmental influences. Canalization is the ability to minimize the effects of genetic or environmental effects, while developmental stability is the ability to minimize the effects of micro-environmental effects within individuals. Despite much attention, the mechanisms that underlie these two components of phenotypic robustness remain unknown. We investigated the genetic structure of...

Data from: Genetic by environmental variation but no local adaptation in oysters (Crassostrea virginica)

A. Randall Hughes, Torrance C. Hanley, James E. Byers, Jonathan H. Grabowski, Jennafer C. Malek, Micahel F. Piehler, David L. Kimbro & Michael F. Piehler
Functional trait variation within and across populations can strongly influence population, community, and ecosystem processes, but the relative contributions of genetic vs. environmental factors to this variation are often not clear, potentially complicating conservation and restoration efforts. For example, local adaptation, a particular type of genetic by environmental (G*E) interaction in which the fitness of a population in its own habitat is greater than in other habitats, is often invoked in management practices, even in...

Data from: Population genetic structure between Yap and Palau for the coral Acropora hyacinthus

Annick Cros, Robert J. Toonen, Sarah W. Davies & Stephen A. Karl
Information on connectivity is becoming increasingly in demand as marine protected areas are being designed as an integral part of a network to protect marine resources at the ecosystem level. Larval dispersal and population structure, however, remain very difficult to assess. Here, we tested the predictions of a detailed oceanographic connectivity model of larval dispersal and coral recruitment within Palau and between Palau and Yap, which was developed to support the review of the existing...

Data from: Further development of the Assessment of Military Multitasking Performance: iterative reliability testing

Margaret M. Weightman, Karen L. McCulloch, Mary V. Radomski, Marsha Finkelstein, Amy S. Cecchini, Leslie F. Davidson, Kristin J. Heaton, Laurel B. Smith & Matthew R. Scherer
The Assessment of Military Multitasking Performance (AMMP) is a battery of functional dual-tasks and multitasks based on military activities that target known sensorimotor, cognitive, and exertional vulnerabilities after concussion/mild traumatic brain injury (mTBI). The AMMP was developed to help address known limitations in post concussive return to duty assessment and decision making. Once validated, the AMMP is intended for use in combination with other metrics to inform duty-readiness decisions in Active Duty Service Members following...

Data from: Quantifying thermal extremes and biological variation to predict evolutionary responses to changing climate

Joel G. Kingsolver & Lauren B. Buckley
Central ideas from thermal biology, including thermal performance curves and tolerances, have been widely used to evaluate how changes in environmental means and variances generate changes in fitness, selection and microevolution in response to climate change. We summarize the opportunities and challenges for extending this approach to understanding the consequences of extreme climatic events. Using statistical tools from extreme value theory, we show how distributions of thermal extremes vary with latitude, time scale and climate...

Data from: The role of habitat filtering in the leaf economics spectrum and plant susceptibility to pathogen infection

Miranda E. Welsh, James Patrick Cronin & Charles E. Mitchell
The leaf economics spectrum (LES) describes global covariation in the traits of plant leaves. The LES is thought to arise from biophysical constraints and habitat filtering (ecological selection against unfit trait combinations along environmental gradients). However, the role of habitat filtering in generating the LES has not been tested experimentally. If the process of habitat filtering plays a role in generating the LES, the LES could weaken in communities that have yet to be filtered...

Data from: Clinical factors associated with long-term complete remission versus poor response to chemotherapy in HIV-infected children and adolescents with Kaposi sarcoma receiving bleomycin and vincristine: a retrospective observational study

Nader Kim El-Mallawany, William Kamiyango, Jeremy S. Slone, Jimmy Villiera, Carrie L. Kovarik, Carrie M. Cox, Dirk P. Dittmer, Saeed Ahmed, Gordon E. Schutze, Michael E. Scheurer, Peter N. Kazembe & Parth S. Mehta
Kaposi sarcoma (KS) is the most common HIV-associated malignancy in children and adolescents in Africa. Pediatric KS is distinct from adult disease. We evaluated the clinical characteristics associated with long-term outcomes. We performed a retrospective observational analysis of 70 HIV-infected children and adolescents with KS less than 18 years of age diagnosed between 8/2010 and 6/2013 in Lilongwe, Malawi. Local first-line treatment included bleomycin and vincristine plus nevirapine-based highly active anti-retroviral therapy (HAART). Median age...

Data from: The Mouse Universal Genotyping Array: from substrains to subspecies

Andrew P. Morgan, Chen-Ping Fu, Chia-Yu Kao, Catherine E. Welsh, John P. Didion, Liran Yadgary, Leeanna Hyacinth, Martin T. Ferris, Timothy A. Bell, Darla R. Miller, Paola Giusti-Rodriguez, Randal J. Nonneman, Kevin D. Cook, Jason K. Whitmire, Lisa E. Gralinski, Mark Keller, Alan D. Attie, Gary A. Churchill, Petko Petkov, Patrick F. Sullivan, Jennifer R. Brennan, Leonard McMillan & Fernando Pardo-Manuel De Villena
Genotyping microarrays are an important resource for genetic mapping, population genetics, and monitoring of the genetic integrity of laboratory stocks. We have developed the third generation of the Mouse Universal Genotyping Array (MUGA) series, GigaMUGA, a 143,259-probe Illumina Infinium II array for the house mouse (Mus musculus). The bulk of the content of GigaMUGA is optimized for genetic mapping in the Collaborative Cross and Diversity Outbred populations, and for substrain-level identification of laboratory mice. In...

Data from: Chromosome-wide impacts on the expression of incompatibilities in hybrids of Tigriopus californicus

Christopher S. Willett, Thiago G. Lima, Lydia Hatfield & Inna Kovaleva
Chromosome rearrangements such as inversions have been recognized previously as contributing to reproductive isolation by maintaining alleles together that jointly contribute to deleterious genetic interactions and postzygotic reproductive isolation. In this study an impact of potential incompatibilities merely residing on the same chromosome is found in crosses of populations of the copepod Tigriopus californicus. When genetically divergent populations of this copepod are crossed, hybrids show reduced fitness and deviations from expected genotypic ratios can be...

Data from: Viral pathogen production in a wild grass host driven by host growth and soil nitrogen

Briana K. Whitaker, Megan A. Rúa & Charles E. Mitchell
Nutrient limitation is a basic ecological constraint that has received little attention in studies on virus production and disease dynamics. Nutrient availability could directly limit the production of viral nucleic acids and proteins, or alternatively limit host growth and thus indirectly limit metabolic pathways necessary for viral replication. In order to compare direct and indirect effects of nutrient limitation on virus production within hosts, we manipulated soil nitrogen (N) and phosphorus (P) availability in a...

Data from: Phenotypic shifts in urban areas in the tropical lizard Anolis cristatellus

Kristin M. Winchell, Robert Graham Reynolds, Sofia R. Prado-Irwin, Alberto R. Puente-Rolón & Liam J. Revell
Urbanization is an important dimension of global change, and urban areas impose significant natural selection on species within them. Although many species persist in urban areas, little research has investigated whether populations have adapted to urbanization. Even less work has considered tropical regions, which have recently experienced dramatic urban growth. In the present study we focused on the neotropical lizard, Anolis cristatellus. We tested whether lizard ecology and morphology differ between urban and natural areas...

Data from: Context dependence in complex adaptive landscapes: frequency and trait-dependent selection surfaces within an adaptive radiation of Caribbean pupfishes

Christopher Herbert Martin
The adaptive landscape provides the foundational bridge between micro- and macroevolution. One well-known caveat to this perspective is that fitness surfaces depend on ecological context, including competitor frequency, traits measured, and resource abundance. However, this view is based largely on intraspecific studies. It is still unknown how context-dependence affects the larger features of peaks and valleys on the landscape which ultimately drive speciation and adaptive radiation. Here I explore this question using one of the...

Data from: The emergence of performance trade-offs during local adaptation: insights from experimental evolution

Lisa M. Bono, , David W. Pfennig, Christina L. Burch & Leno B. Smith
Environmental heterogeneity is considered a general explanation for phenotypic diversification, particularly when heterogeneity causes populations to diverge via local adaptation. Performance trade-offs, such as those stemming from antagonistic pleiotropy, are thought to contribute to the maintenance of diversity in this scenario. Specifically, alleles that promote adaptation in one environment are expected to promote maladaptation in alternative environments. Contrary to this expectation, however, alleles that underlie locally adaptive traits often fail to exhibit fitness costs in...

Data from: A chemical-genomic screen of neglected antibiotics reveals illicit transport of kasugamycin and blasticidin S

Anthony L. Shiver, Hendrik Osadnik, George Kritikos, Bo Li, Nevan Krogan, Athanasios Typas & Carol A. Gross
Fighting antibiotic resistance requires a deeper understanding of the genetic factors that determine the antibiotic susceptibility of bacteria. Here we describe a chemical-genomic screen in Escherichia coli K-12 that was designed to discover new aspects of antibiotic resistance by focusing on a set of 26 antibiotics and other stresses with poorly characterized mode-of-action and determinants of resistance. We show that the screen identifies new resistance determinants for these antibiotics including a common signature from two...

Data from: The effect of temperature on Drosophila hybrid fitness

Charles J. J. Miller & Daniel R. Matute
Mechanisms of reproductive isolation inhibit gene flow between species and can be broadly sorted into two categories: prezygotic and postzygotic. While comparative studies suggest that prezygotic barriers tend to evolve first, postzygotic barriers are crucial for maintaining species boundaries and impeding gene flow that might otherwise cause incipient species to merge. Most, but not all, postzygotic barriers result from genetic incompatibilities between two or more loci from different species, and occur due to divergent evolution...

Data from: Effects of reduced-impact selective logging on palm regeneration in Belize

Boris Arevalo, Jair Valladarez, Shahira Muschamp, Elma Kay, Alex Finkral, Anand Roopsind & Francis E. Putz
To assess the impacts of a low-intensity selective timber harvest on a palm community in Belize, we mapped logging infrastructure (i.e., roads, log landings, skid trails, and stumps) and measured palm regeneration 1 year after a timber harvest carried out using reduced-impact logging (RIL) practices. We sampled palms across a gradient of increasing harvest impact severity from areas not directly affected by logging, in felling gaps, on secondary and primary skid trails, and on log...

Data from: Correlated evolution of male and female reproductive traits drive a cascading effect of reinforcement in Drosophila yakuba

Aaron A. Comeault, Aarti Venkat & Daniel R. Matute
Selection against maladaptive hybridization can drive the evolution of reproductive isolation in a process called reinforcement. While the importance of reinforcement in evolution has been historically debated, many examples now exist. Despite these examples, we typically lack a detailed understanding of the mechanisms limiting the spread of reinforced phenotypes throughout a species' range. Here we address this issue in the fruit fly Drosophila yakuba, a species that hybridizes with its sister species D. santomea and...

Data from: The cryptic origins of evolutionary novelty: 1,000-fold-faster trophic diversification rates without increased ecological opportunity or hybrid swarm

Christopher Herbert Martin
Ecological opportunity is frequently proposed as the sole ingredient for adaptive radiation into novel niches. An additional trigger may be genome-wide hybridization resulting from ‘hybrid swarm’. However, these hypotheses have been difficult to test due to the rarity of comparable control environments lacking adaptive radiations. Here I exploit such a pattern in microendemic radiations of Caribbean pupfishes. I show that a sympatric three-species radiation on San Salvador Island, Bahamas diversified 1,445 times faster than neighboring...

Data from: Male mate choice, male quality, and the potential for sexual selection on female traits under polygyny.

Courtney L. Fitzpatrick & Maria R. Servedio
Observations of male mate choice are increasingly common, even in species with traditional sex roles. In addition, female traits that bear the hallmarks of secondary sexual characters are increasingly reported. These concurrent empirical trends have led to the repeated inference that, even under polygyny, male mate choice is a mechanism of sexual selection on female traits. It is often either assumed or argued that in these cases females are competing for males of superior “quality”;...

Data from: Color phenotypes are under similar genetic control in two distantly related species of Timema stick insect

Aaron Arthur Comeault, Clarissa Ferreira Carvalho, Stuart R. Dennis, Victor Soria-Carrasco, Patrik Nosil & Stuart Dennis
Ecology and genetics are both of general interest to evolutionary biologists as they can influence the phenotypic and genetic response to selection. The stick insects Timema podura and T. cristinae exhibit a green/melanistic body color polymorphism that is subject to different ecologically-based selective regimes in the two species. Here we describe aspects of the genetics of this color polymorphism in T. podura, and compare this to previous results in T. cristinae. We first show that...

Data from: The genetic architecture of novel trophic specialists: higher effect sizes are associated with exceptional oral jaw diversification in a pupfish adaptive radiation

Christopher H. Martin, Priscilla A. Erickson & Craig T. Miller
The genetic architecture of adaptation is fundamental to understanding the mechanisms and constraints governing diversification. However, most case studies focus on loss of complex traits or parallel speciation in similar environments. It is still unclear how the genetic architecture of these local adaptive processes compares to the architecture of evolutionary transitions contributing to morphological and ecological novelty. Here we identify quantitative trait loci (QTL) between two trophic specialists in an excellent case study for examining...

Data from: Diabolical survival in Death Valley: recent pupfish colonization, gene flow, and genetic assimilation in the smallest species range on earth

Christopher Martin, Jacob Crawford, Bruce Turner, Lee Simons, Jacob E. Crawford & Christopher H. Martin
One of the most endangered vertebrates, the Devils Hole pupfish Cyprinodon diabolis, survives in a nearly impossible environment: a narrow subterranean fissure in the hottest desert on earth, Death Valley. This species became a conservation icon after a landmark 1976 U.S. Supreme Court case affirming federal groundwater rights to its unique habitat. However, one outstanding question about this species remains unresolved: how long has diabolis persisted in this hellish environment? We used next-generation sequencing of...

Data from: MycoDB, a global database of plant response to mycorrhizal fungi

V. Bala Chaudhary, Megan A. Rúa, Anita Antoninka, James D. Bever, Jeffery Cannon, Ashley Craig, Jessica Duchicela, Alicia Frame, Monique Gardes, Catherine Gehring, Michelle Ha, Miranda Hart, Jacob Hopkins, Baoming Ji, Nancy Collins Johnson, Wittaya Kaonongbua, Justine Karst, Roger T. Koide, Louis J. Lamit, James Meadow, Brook G. Milligan, John C. Moore, , Bridget Piculell, Blake Ramsby … & Jason D. Hoeksema
Plants form belowground associations with mycorrhizal fungi in one of the most common symbioses on Earth. However, few large-scale generalizations exist for the structure and function of mycorrhizal symbioses, as the nature of this relationship varies from mutualistic to parasitic and is largely context-dependent. We announce the public release of MycoDB, a database of 4,010 studies (from 438 unique publications) to aid in multi-factor meta-analyses elucidating the ecological and evolutionary context in which mycorrhizal fungi...

Registration Year

  • 2016
    34

Resource Types

  • Dataset
    34

Affiliations

  • University of North Carolina
    34
  • University of Montana
    2
  • University of Washington
    2
  • University of California System
    2
  • Duke University
    2
  • University of Georgia
    2
  • University of California, Berkeley
    2
  • University of Wisconsin-Madison
    2
  • Indiana University Bloomington
    2
  • University of Mississippi
    2