48 Works

Data from: Herbivory and eutrophication mediate grassland plant nutrient responses across a global climatic gradient

T. Michael Anderson, Daniel M. Griffith, James B. Grace, Eric M. Lind, Peter B. Adler, Lori A. Biederman, Dana M. Blumenthal, Pedro Daleo, Jennifer Firn, Nicole Hagenah, W. Stanley Harpole, Andrew S. MacDougall, Rebecca L. McCulley, Suzanne M. Prober, Anita C. Risch, Mahesh Sankaran, Martin Schütz, Eric W. Seabloom, Carly J. Stevens, Lauren L. Sullivan, Peter D. Wragg & Elizabeth T. Borer
Plant stoichiometry, the relative concentration of elements, is a key regulator of ecosystem functioning and is also being altered by human activities. In this paper we sought to understand the global drivers of plant stoichiometry and compare the relative contribution of climatic vs. anthropogenic effects. We addressed this goal by measuring plant elemental (C, N, P and K) responses to eutrophication and vertebrate herbivore exclusion at eighteen sites on six continents. Across sites, climate and...

Data from: Deconstruction of a plant-arthropod community reveals influential plant traits with nonlinear effects on arthropod assemblages

Joshua G. Harrison, Casey Philbin, Zach Gompert, Glen Forister, Leonardo Hernandez, Benjamin W. Sullivan, Ian Wallace, Lyra Beltran, Craig D. Dodson, Jacob S. Francis, Amie Schlageter, Oren Shelef, Su'ad Yoon, Matthew L. Forister, Ian S. Wallace, Su'ad A. Yoon, Zachariah Gompert, Casey S. Philbin, Leonardo Hernandez-Espinoza & Glen W. Forister
1. Studies of herbivores and secondary consumer communities rarely incorporate a comprehensive characterization of primary producer trait variation, thus limiting our understanding of how plants mediate community assembly of consumers. 2. We took advantage of recent technological developments for efficient generation of phytochemical, microbial, and genomic data to characterize individual alfalfa plants (Medicago sativa; Fabaceae) growing in an old-field, semi-naturalized state for 770 traits (including 753 chemical features). Using random forest modeling, we investigated the...

Data from: The predictability of genomic changes underlying a recent host shift in Melissa blue butterflies

Samridhi Chaturvedi, Lauren K. Lucas, Chris C. Nice, James A. Fordyce, Matt L. Forister, Zachariah Gompert & Matthew L. Forister
Despite accumulating evidence that evolution can be predictable, studies quantifying the predictability of evolution remain rare. Here, we measured the predictability of genome-wide evolutionary changes associated with a recent host shift in the Melissa blue butterfly (Lycaeides melissa). We asked whether and to what extent genome-wide patterns of evolutionary change in nature could be predicted (1) by comparisons among instances of repeated evolution, and (2) from SNP $\times$ performance associations in a lab experiment. We...

Genetic differentiation between two species of buckwheat (Eriogonum)

Paul G. Wolf & Jenessa B. Lemon
Discovering the extent of genetic differentiation between closely related taxa facilitates decisions regarding species protection under the Endangered Species Act. Here, we analyze genotype data to explore the relatedness of two buckwheat species: Eriogonum soredium Reveal- a narrow endemic under consideration for protection, and a widespread close relative, Eriogonum shockleyi S. Watson. Eriogonum soredium grows only on Ordovician limestone outcroppings in west central Utah, whereas the range of E. shockleyi is broad, spanning the western...

Data from: Distance, elevation, and environment as drivers of diversity and divergence in bumble bees across latitude and altitude

Jason M. Jackson, Meaghan L. Pimsler, Kennan Jeannet Oyen, Jonathan B. Koch-Uhuad, James D. Herndon, James P. Strange, Michael E. Dillon & Jeffrey D. Lozier
Identifying drivers of dispersal limitation and genetic differentiation is a key goal in biogeography. We examine patterns of population connectivity and genetic diversity using Restriction-site Associated DNA sequencing (RADseq) in two bumble bee species, Bombus vosnesenskii and Bombus bifarius across latitude and altitude in mountain ranges from California, Oregon, and Washington, U.S.A. Bombus vosnesenskii, which occurs across a broader elevational range at most latitudes, exhibits little population structure while B. bifarius, which occupies a relatively...

Impact of basal diet on obesity phenotype of recipient mice following fecal microbiome transfer from obese or lean human donors. Appendix D. Microbiome sequencing data

Daphne Rodriguez, Abby Benninghoff & Korry Hintze
The complete data set generated by 16S rRNA sequencing of all fecal samples analyzed is provided as a digital data .biom file accessible.

Data from: Vertical differentiation in tropical forest butterflies: a novel mechanism generating insect diversity?

Chris C. Nice, James A. Fordyce, Katherine L. Bell, Matthew L. Forister, Zachariah Gompert & Phil J. DeVries
Many tropical fruit-feeding nymphalid butterflies are associated with either the forest canopy or the understory, however, the exceptions offer insights into the origins of tropical diversity. As it occurs in both habitats of tropical forests in Ecuador and Peru, Archaeoprepona demophon is one such exception. We compared patterns of occurrence of A. demophon in the canopy and understory and population genomic variation for evidence of ecological and genetic differentiation between habitats. We found that butterfly...

Incorporating Drones in My Classroom: Survey Data from High School Teachers 2018

Tyson Sorenson, Kelsey Hall, Olivia Horning, Joshua Dallin & Davis Francis
Survey data collected from 69 high school and middle school teachers. Survey gauges intentions of integrating drone curriculum concepts into the classroom. Dataset includes summary data, raw data and survey instrument.

Genetic Engineering in Agriculture Curricula for Grades 9-12

Tyson Sorenson, Olivia Horning, Kelsey Hall, David Francis & Joshua Dallin
This is a curriculum package that was developed for teachers to be able to integrate genetic engineering and biotechnology concepts, skills, and career applications into their classrooms. This package was developed as part of the LEARN workshop entitled "Genetic Engineering: Workshop for Teachers." This curriculum package includes five full units of instructions with lesson plans, presentation resources, and other resources for teachers. This package is intended for students in grades 9-12. Each unit is complete...

Thirteen years of vegetation chronosequence data in ex-arable and undisturbed fields near Winthrop, Washington, USA

andrew kulmatiski & Karen Beard
Non-native plants have invaded much of the western United States over the past 100 years. Most of these invasive species are early-successional, yet they appear to persist for decades. The goal of this research was to describe non-native and native plant abundance in ex-arable and adjacent undisturbed fields over time.

Data from: Natural selection and the predictability of evolution in Timema stick insects

Patrik Nosil, Romain Villoutreix, Clarissa F. De Carvalho, Tim E. Farkas, Victor Soria-Carrasco, Jeff L. Feder, Bernard J. Crespi & Zachariah Gompert
Predicting evolution remains difficult. We studied the evolution of cryptic body coloration and pattern in a stick insect using 25 years of field data, experiments, and genomics. We found that evolution is more difficult to predict when it involves a balance between multiple selective factors and uncertainty in environmental conditions than when it involves feedback loops that cause consistent back-and-forth fluctuations. Specifically, changes in color-morph frequencies are modestly predictable through time (r2 = 0.14) and...

Data on Household Disaster Preparedness for U.S. States and Metropolitan Areas

Peter Howe
This dataset contains model estimates of the proportion of the adult population who report having supplies at home to use in case of a disaster, at the state level and Core-Based Statistical Area (CBSA) level in the U.S. “state_2015_table.csv” contains estimated proportion of adults (18+) who have set aside supplies at home in case of a disaster at the state level for 2015. “cbsa_2015_table.csv” contains estimated proportion of adults (18+) who have set aside supplies...

Preventative Capital Study (Cache County)

Arthur J. Caplan & Ramjee Acharya
We address the issue of optimal investment in “preventative capital” to mitigate episodic, mobile-source air pollution events. We calibrate Berry et al.'s (2015) endogenous-risk model using a unique dataset related to "red air day" episodes occurring in Northern Utah over the past decade. Our analysis demonstrates that, under a wide range of circumstances, the optimal steady-state level of preventative capital stock – raised through the issuance of a municipal “clean air bond” that funds more...

Data from: Spatial heterogeneity in species composition constrains plant community responses to herbivory and fertilization

Dorothee Hodapp, Elizabeth T. Borer, W. Stanley Harpole, Eric M. Lind, Eric W. Seabloom, Peter B. Adler, Juan Alberti, Carlos A. Arnillas, Jonathan D. Bakker, Lori Biederman, Marc Cadotte, Elsa E. Cleland, Scott Collins, Philip A. Fay, Jennifer Firn, Nicole Hagenah, Yann Hautier, Oscar Iribarne, Johannes M.H. Knops, Rebecca L. McCulley, Andrew MacDougall, Joslin L. Moore, John W. Morgan, Brent Mortensen, Kimberly J. La Pierre … & Johannes M. H. Knops
Environmental change can result in substantial shifts in community composition. The associated immigration and extinction events are likely constrained by the spatial distribution of species. Still, studies on environmental change typically quantify biotic responses at single spatial (time series within a single plot) or temporal (spatial beta-diversity at single time points) scales, ignoring their potential interdependence. Here, we use data from a global network of grassland experiments to determine how turnover responses to two major...

SDNET2018: A concrete crack image dataset for machine learning applications

Marc Maguire, Sattar Dorafshan & Robert J. Thomas
SDNET2018 is an annotated image dataset for training, validation, and benchmarking of artificial intelligence based crack detection algorithms for concrete. SDNET2018 contains over 56,000 images of cracked and non-cracked concrete bridge decks, walls, and pavements. The dataset includes cracks as narrow as 0.06 mm and as wide as 25 mm. The dataset also includes images with a variety of obstructions, including shadows, surface roughness, scaling, edges, holes, and background debris. SDNET2018 will be useful for...

Mesospheric Densities and Temperatures Derived from 11 Years of Data Acquired with the Rayleigh-Scatter Lidar at the Atmospheric Lidar Observatory at Utah State University

Vincent Wickwar & Joshua Herron
Frequent observations were carried out with the Rayleigh-scatter lidar at Utah State University’s Atmospheric Lidar Observatory (41.742572° N, 111.808273° W, and 1466 m) from August 1993 through December 2004. Of 964 nights observed, a total of 839 nights were judged good for deriving temperatures. These 839 were reduced to obtain all-night relative neutral densities and absolute temperatures. These results extend from 45 to ≤ 95 km, thereby covering the mesosphere. This netCDF file starts by...

Data from: Polar Topside Ionosphere During Geomagnetic Storms: Comparison of ISIS-II with TDIM

Jan J. Sojka, Dan Rice, Michael David, Robert W. Schunk, Robert Benson & H. G. James
Output files from runs of the TDIM ionospheric model used for calculations and electron density profiles from ISIS-II and TDIM used in figures in the article in Radio Science.

Data from: Weak interspecific interactions in a sagebrush steppe? Conflicting evidence from observations and experiments

Peter B. Adler, Andrew Kleinhesselink, Giles Hooker, Joshua B. Taylor, Brittany Teller & Stephen P. Ellner
Stable coexistence requires intraspecific limitations to be stronger than interspecific limitations. The greater the difference between intra- and interspecific limitations, the more stable the coexistence, and the weaker the competitive release any species should experience following removal of competitors. We conducted a removal experiment to test whether a previously estimated model, showing surprisingly weak interspecific competition for four dominant species in a sagebrush steppe, accurately predicts competitive release. Our treatments were 1) removal of all...

Data from: Diel predator activity drives a dynamic landscape of fear

Michel T. Kohl, Daniel R. Stahler, Matthew C. Metz, James D. Forester, Matthew J. Kauffman, Nathan Varley, Patrick J. White, Douglas W. Smith & Daniel R. MacNulty
A ‘landscape of fear’ (LOF) is a map that describes continuous spatial variation in an animal’s perception of predation risk. The relief on this map reflects, for example, places that an animal avoids to minimize risk. Although the LOF concept is a potential unifying theme in ecology that is often invoked to explain the ecological and conservation significance of fear, little is known about the daily dynamics of a LOF. Despite theory and data to...

Data from: Local and system-wide adaptation is influenced by population connectivity

Patrik Nosil, Victor Soria-Carrasco, Jeffery L. Feder, Samuel M. Flaxman, Zachariah Gompert, Jeffrey L. Feder & Zach Gompert
Complex systems can be conceptualized and studied as networks of nodes with varying connectivity between nodes. In well-connected systems, local disturbance of individual nodes can be countered by input from neighbouring nodes, buffering the system against local change. Thus, pronounced change in a well-connected system may not occur until the system hits a threshold or ‘tipping point’ that drives a shift to an alternative, system-wide state. In contrast, poorly connected systems are more prone to...

Data from: Long-term experimental hybridisation results in a heterologous transition and the evolution of a new sex chromosome in swordtail fish

Paolo Franchini, Julia C. Jones, Peiwen Xiong, Susanne Kneitz, Zachariah Gompert, Wesley C. Warren, Ronald B. Walter, Axel Meyer & Manfred Schartl
The remarkable diversity of sex determination mechanisms known in fish may be fuelled by exceptionally high rates of sex chromosome turnovers or transitions. However, the evolutionary causes and genomic mechanisms underlying this variation and instability are yet to be understood. Here we report on an over 30-year evolutionary experiment in which we tested the genomic consequences of hybridisation and selection between two Xiphophorus fish species with different sex chromosome systems. We find that introgression and...

Optimal Vehicle Trips (Cache County)

Arthur Caplan & Ramjee Acharya
This paper develops a conceptual model of optimal vehicle trips in a region plagued by weather-dependent, mobile-source air pollution, and numerically estimates optimal trips for one of the nation's perennially worst air quality regions in terms of short-term particulate matter. Based upon data-driven parameters and damage estimates, our numerical model generates steady-state values for region-wide vehicle trips and associated PM2.5 concentrations along with their corresponding optimal time paths. Our dataset includes a host of pertinent...

Elk female age, brucellosis status, and pregnancy status collected over >20 years at winter feedgrounds in Wyoming

Johan T du Toit & Gavin Cotterill
We investigated the impacts of brucellosis (Brucella abortus) on elk (Cervus canadensis) productivity using serological data from over 6000 captures since 1990 in the Greater Yellowstone Ecosystem, USA. Over 1000 of these records included known age and pregnancy status. Using Bayesian multilevel models, we estimated the age-specific pregnancy probabilities of exposed and native elk. We then used repeat-capture data to investigate the full effects of the disease on life history. Brucellosis exposure reduced pregnancy rates...

Data from: Predation shapes the evolutionary traits of cervid weapons

Matthew C. Metz, Douglas J. Emlen, Daniel R. Stahler, Daniel R. MacNulty, Douglas W. Smith & Mark Hebblewhite
Sexually selected weapons evolved to maximize the individual reproductive success of males in many polygynous breeding species. Many weapons are also retained outside of reproductive periods for secondary reasons, but the importance of these secondary functions is poorly understood. Here we leveraged a unique opportunity from the predator–prey system in northern Yellowstone National Park, WY, USA to evaluate whether predation by a widespread, coursing predator (wolves) has influenced a specific weapon trait (antler retention time)...

The Total Western Diet and Vancomycin Treatment Increase Inflammation-Mediated Colorectal Cancer--Microbiome Sequencing Data

Korry Hintze & Niklas Aardema
Data includes .biom and mapping files (.txt) of microbiome data sequenced via 16s rRNA sequencing and processed using the latest version of QIIME. A complete dataset of 16S rRNA sequencing of terminal fecal samples is provided as a digital data .biom file. Biom files are readable through QIIME software, available at Qiime.org. A mapping file, formatted as a tab-delimited .txt file, is also available.

Registration Year

  • 2018

Resource Types

  • Dataset


  • Utah State University
  • University of Minnesota
  • University of Washington
  • University of Nevada Reno
  • United States Department of Agriculture
  • University of Guelph
  • Texas State University
  • University of Montana
  • University of Pretoria
  • University of Notre Dame