87 Works

Groove Loops: A Collection of Repeating Multi-Instrumental Patterns

Petr Janata
This dataset contains 456 musical stimuli used in the series of studies reported in: Janata, P., Peterson, J., Ngan, C., Keum, B., Whiteside, H., & Ran, S. (2018). Psychological and Musical Factors Underlying Engagement with Unfamiliar Music. Music Perception, 36(2), 175-200. doi:10.1525/mp.2018.36.2.175

Data from: Life table invasion models: spatial progression and species-specific partitioning

Zihua Zhao, Cang Hui, Richard E. Plant, Min Su, Tim Carpenter, Nikos Papadopoulos, Zhihong Li & James R. Carey
Biological invasions are increasingly being considered important spatial processes that drive global changes, threatening biodiversity, regional economies, and ecosystem functions. A unifying conceptual model of the invasion dynamics could serve as a useful tool for comparison and classification of invasion processes involving different species across large geographic ranges. By dividing these geographic ranges that are subject to invasions into discrete spatial units we here conceptualize the invasion process as the transition from pristine to invaded...

Sex-specific evolution of relative leg size in Drosophila prolongata results from changes in the intersegmental coordination of tissue growth

David Michael Luecke & Artyom Kopp
Evolution of relative organ size is the most prolific source of morphological diversity, yet the underlying molecular mechanisms that modify growth control are largely unknown. Models where organ proportions have undergone recent evolutionary changes hold the greatest promise for understanding this process. Uniquely among Drosophila species, D. prolongata displays a dramatic, male-specific increase in the size of its forelegs relative to other legs. By comparing leg development between males and females of D. prolongata and...

Testing urban drivers of riparian woody vegetation composition in a precipitation-limited system

Joanna Solins & Mary Cadenasso
In precipitation-limited regions, where water availability is a key driver of vegetation patterns, altered hydrology in urban areas may have a particularly strong effect on riparian plant communities. Urban water inputs can create perennial flows in formerly intermittent streams, potentially providing a water subsidy to riparian plants during dry seasons. However, during rainy seasons, increased storm flow magnitudes in urban areas can cause stream channel incision and associated lowered water tables. Channel incision may reduce...

Life Cycle Modeling of Tech & Strategies for a Sustainable Freight System in California

Hanjiro Ambrose & Alissa Kendall
California’s freight transportation system is a vital part of the state’s economy, but generates a high portion of local pollution in parts of the state with poor air quality. In recognition of these challenges, Executive Order B-32-15 encourages adoption of advanced vehicle technologies and infrastructure, as well as the use of alternative energy and fuels in the freight sector. These measures are echoed in the state’s Sustainable Freight Action Plan. Most emissions reductions from freight...

Identifying conservation priorities in a defaunated tropical biodiversity hotspot

Andrew Tilker, Jesse F Abrams, An Nguyen, Lisa Hörig, Jan Axtner, Julie Louvrier, Benjamin M Rawson, Hoa Anh Nguyen Quang, Francois Guegan, Thanh Van Nguyen, Minh Le, Rahel Sollmann & Andreas Wilting
Aim: Unsustainable hunting is leading to widespread defaunation across the tropics. To mitigate against this threat with limited conservation resources, stakeholders must make decisions on where to focus anti-poaching activities. Identifying priority areas in a robust way allows decision-makers to target areas of conservation importance, therefore maximizing the impact of conservation interventions. Location: Annamite mountains, Vietnam and Laos. Methods: We conducted systematic landscape-scale surveys across five study sites (four protected areas, one unprotected area) using...

Data from: Using an arbitrary moment predictor to investigate the optimal choice of prognostic moments in bulk cloud microphysics schemes

Adele A. Igel
Most bulk cloud microphysics schemes predict up to three standard properties of hydrometeor size distributions, namely, the mass mixing ratio, number concentration, and reflectivity factor in order of increasing scheme complexity. However, it is unclear whether this combination of properties is optimal for obtaining the best simulation of clouds and precipitation in models. In this study, a bin microphysics scheme has been modified to act like a bulk microphysics scheme. The new scheme can predict...

Impacts of caudal autotomy on personality

Marcus Michelangeli, Brooke Melki-Wegner, Kate Laskowski, Bob Wong & David Chapple
Caudal autotomy, the voluntary shedding of a tail, is a last-ditch strategy used by many lizard species to escape from predators. There are several costs associated with caudal autotomy that may cause lizards to make behavioral adjustments during tail regeneration. These behavioral changes may be dependent upon individual differences in response to autotomy (e.g. trait or state-dependent differences) and/or the degree of tail loss, as many lizards have the capacity to only partially shed their...

Data from: Individual differences in behaviour explain variation in survival: a meta-analysis

Maria Moiron, Kate Laskowski & Petri Niemelä
Research focusing on among-individual differences in behaviour (“animal personality”) has been blooming for over a decade. One of the central theories explaining the maintenance of such behavioural variation posits that individuals expressing greater “risky” behaviours should suffer higher mortality. Here, for the first time, we synthesize the existing empirical evidence for this key prediction. Our results did not support this prediction as there was no directional relationship between riskier behaviour and greater mortality; however there...

Functional variants of DOG1 control seed chilling responses and variation in seasonal life history strategies in Arabidopsis thaliana

Alejandra Martinez-Berdeja, Michelle Stitzer, Mark A. Taylor, Miki Okada, Exequiel Ezcurra, Daniel E. Runcie & Johanna Schmitt
The seasonal timing of seed germination determines a plant's realized environmental niche, and is important for adaptation to climate. The timing of seasonal germination depends on patterns of seed dormancy release or induction by cold and interacts with flowering time variation to construct different seasonal life histories. To characterize the genetic basis and climatic associations of natural variation in seed chilling responses and associated life history syndromes, we selected 559 fully-sequenced accessions of the model...

Pharmaceutical Effects of Inhibiting the Soluble Epoxide Hydrolase in Canine Osteoarthritis

Cindy McReynolds, Sung Hee Hwang, Jun Yang, Debin Wan, Karen Wagner, Christophe Morisseau, Dongyang Li, William Schmidt & Bruce Hammock
Osteoarthritis (OA) is a degenerative joint disease that causes pain and bone deterioration driven by an increase in prostaglandins and inflammatory cytokines. Current treatments focus on inhibiting prostaglandin production, a pro-inflammatory lipid metabolite, with NSAID drugs; however, other lipid signaling targets could provide safer and more effective treatment strategies. Epoxides of polyunsaturated fatty acids are anti-inflammatory lipid mediators that are rapidly metabolized by the soluble epoxide hydrolase (sEH) into corresponding vicinal diols. sEH inhibitors (sEHI)...

Data from: Human-induced reductions in fish predator boldness decrease their predation rates on prey in kelp forests

O. Kennedy Rhoades, Steve I. Lonhart & John J. Stachowicz
Humans have restructured food webs and ecosystems by depleting biomass, reducing size structure, and altering traits of consumers. However, few studies have examined the ecological impacts of human-induced trait changes across large spatial and temporal scales and species assemblages. We compared behavioural traits and predation rates by predatory fishes on standard squid prey in protected areas of different protection levels and ages, and found that predation rates were 6.5 times greater at old, no-take (>...

Data from: Loss of cytoplasmic incompatibility and minimal fecundity effects explain relatively low Wolbachia frequencies in Drosophila mauritiana

Megan K. Meany, William R. Conner, Sophia V. Richter, Jessica A. Bailey, Michael Turelli & Brandon S. Cooper
Maternally transmitted Wolbachia bacteria infect about half of all insect species. Many Wolbachia cause cytoplasmic incompatibility (CI), reduced egg hatch when uninfected females mate with infected males. Although CI produces a frequency-dependent fitness advantage that leads to high equilibrium Wolbachia frequencies, it does not aid Wolbachia spread from low frequencies. Indeed, the fitness advantages that produce initial Wolbachia spread and maintain non-CI Wolbachia remain elusive. wMau Wolbachia infecting Drosophila mauritiana do not cause CI, despite...

Data from: Resource constraints highlight complex microbial interactions during lake biofilm development

Kevin H. Wyatt, Rody C. Seballos, Maria N. Shoemaker, Shawn P. Brown, Sudeep Chandra, Kevin A. Kuehn, Allison R. Rober & Steven Sadro
Abstract 1. This study evaluated how the availability of nutrients and organic carbon interact to influence the associations between autotrophic and heterotrophic microorganisms during lake biofilm development. Considering that decomposers are often better competitors for nutrients than producers in aquatic environments, we hypothesized that heterotrophs would outcompete autotrophs for available nutrients unless heterotrophs were limited by organic carbon provided by autotrophs. 2. To test our hypothesis, we evaluated autotrophic (algae) and heterotrophic (fungi, bacteria) biomass...

Data from: Species-specific responses to habitat conversion across scales synergistically restructure Neotropical bird communities

Luke O. Frishkoff & Daniel S. Karp
Ecologists are increasingly exploring methods for preserving biodiversity in agricultural landscapes. Yet because species vary in how they respond to habitat conversion, ecological communities in agriculture and more natural habitats are often distinct. Unpacking the heterogeneity in species responses to habitat conversion will be essential for predicting and mitigating community shifts. Here, we analyze two years of bird censuses at 150 sites across gradients of local land cover, landscape forest amount and configuration, and regional...

Genomes From Bacteria Associated with the Canine Oral Cavity: a Test Case for Automated Genome-Based Taxonomic Assignment

David Coil, Guillaume Jospin, Jonathan Eisen, Aaron Darling, Collin Wallis, Ian Davis, Stephen Harris, Lucy Holcombe & Ciaran O'Flynn
Taxonomy for bacterial isolates is commonly assigned via sequence analysis. However, the most common sequence-based approaches (e.g. 16S rRNA gene-based phylogeny or whole genome comparisons) are still labor intensive and subjective to varying degrees. Here we present a set of 33 bacterial genomes, isolated from the canine oral cavity. Taxonomy of these isolates was first assigned by PCR amplification of the 16S rRNA gene, Sanger sequencing, and taxonomy assignment using BLAST. After genome sequencing, taxonomy...

Exposure to light changes soil chemical properties

Timothy Doane, Lucas Silva & William Horwath
Assessment of the effect of UV and visible light on the chemical properties of soils. Raw data of chemical properties measured in a laboratory study of a soils exposed to light.

Data from: Organic functional group and organic matter concentrations from FT-IR measurements of particulate matter samples in the Southeastern Aerosol Research and Characterization (SEARCH) network from 2009-2016

Ann M. Dillner, Alexandra J. Boris, Satoshi Takahama, Andrew T. Weakley, Bruno Debus, Carley D. Frederickson, Martin Esparza-Sanchez, Charlotte Burke, Matteo Reggente, Stephanie L. Shaw & Eric S. Edgerton
This dataset contains organic functional group, organic matter (OM), organic carbon (OC) concentration measurements at five sites in the SEARCH network from 2009-2016. Spectra from each sample are included, in the format used in these papers. The sampling sites are urban Birmingham (BHM) and rural Centreville (CTR) in Alabama, urban Jefferson Street, Atlanta (JST) and rural Yorkville (YRK) in Georgia, and rural Outlying Landing Field (OLF) near Pensacola in Florida as well as a co-located...

Pod indehiscence is a domestication and aridity resilience trait in common bean

Travis Parker, Jorge Carlos Berny Mier Y Teran, Antonia Palkovic, Judy Jernstedt & Paul Gepts
Abstract Plant domestication has strongly modified crop morphology and development. Nevertheless, many crops continue to display some atavistic characteristics that were advantageous to their wild ancestors, such as pod dehiscence (PD). Here, we provide the first comprehensive assessment of the inheritance of PD in a domesticated grain legume, common bean (Phaseolus vulgaris). We compared three methods to evaluate the PD phenotype and identified multiple, unlinked genetic regions controlling PD using a biparental population and two...

The effects of body mass on immune cell concentrations of terrestrial mammals

Cynthia J. Downs, Ned A. Dochtermann, Ray Ball, Kirk C. Klasing & Lynn B. Martin
Theory predicts that body mass should affect the way organisms evolve and use immune defenses. We investigated the relationship between body mass and blood neutrophil and lymphocyte concentrations among 250+ terrestrial mammalian species. We tested whether existing theories (e.g., Protecton Theory, immune system complexity, and rate of metabolism) accurately predicted the scaling of immune cell concentrations. We also evaluated the predictive power of body mass for these leukocyte concentrations compared to sociality, diet, life history,...

Data and analysis code for \"Forest recovery following extreme drought in California, USA: natural patterns and effects of pre-drought management\"

Derek Young, Marc Meyer, Becky Estes, Shana Gross, Amarina Wuenschel, Christina Restaino & Hugh Safford
This repository contains data and code for the paper "Forest recovery following extreme drought in California, USA: natural patterns and effects of pre-drought management" by Young et al., published in Ecological Applications. The abstract of the paper is as follows. Rising temperatures and more frequent and severe droughts are driving increases in tree mortality in forests around the globe. However, in many cases, the likely trajectories of forest recovery following drought-related mortality are poorly understood....

Sociodemographic data for battery electric vehicle owning households in California (From NCST Project \"Understanding the Early Adopters of Fuel Cell Vehicles\")

Scott Hardman
Sociodemographic data for fuel cell and battery electric vehicle owning households in California

Exploration of the yield potential of mesoamerican wild common beans from contrasting eco-geographic regions by nested recombinant inbred populations

Paul Gepts, Jorge Berny Mier Y Teran, Eneas Konzen, Siu Mui Tsai & Antonia Palkovic
Genetic analyzes and utilization of wild genetic variation in common bean (Phaseolus vulgaris L.) for crop improvement have been hampered by evaluation difficulties, identification of advantageous variation, and linkage drag. The lack of adaptation to field conditions and the existence of highly structured populations make association mapping of diversity panels not optimal. Joint linkage mapping of nested populations avoids the later constraint, while populations crossed with a common domesticated parent allow the evaluation of wild...

Popular flight costs and emissions data

Annamaria Amenta & Angela Sanguinetti
This dataset gives information on 67 popular destinations for UC Davis employee business travel. For each destination, we give a selection of possible flights, collected in Summer and Fall 2019, each annotated with emissions as estimated by Atmosfair.de, and also the probability that each flight would be chosen, based on a model of employee flight choice preference that we compute from survey data.

Vertical transmission of a nematode from female lizards to the brains of their offspring

Nathalie Feiner, Sueli De Souza-Lima, Fátima Jorge, Soraya Naem, Fabien Aubret, Tobias Uller & Steven Nadler
Parasites have evolved a diversity of life styles that exploit the biology of their hosts. Some nematodes that parasitize mammals pass via the placenta or milk from one host to another. Similar cases of vertical transmission have never been reported in avian and non-avian reptiles, suggesting that egg laying may constrain themeans of parasite transmission. However, here we report the first incidence of transovarial transmission of a previously undescribed nematode in an egg-laying amniote, the...

Registration Year

  • 2019

Resource Types

  • Dataset


  • University of California, Davis
  • University of Montana
  • University of Nevada Reno
  • University of Washington
  • Stanford University
  • Lund University
  • Fudan University
  • University of Vermont
  • University of California, Berkeley
  • United States Department of Agriculture