87 Works

FoRCy: Rocking Shallow Foundation Performance in Slow Cyclic and Monotonic Experiments

Manouchehr Hakhamaneshi, Bruce L. Kutter, Andreas Gerasimos Gavras, Sivapalan Gajan, Angelos Tsatsis, George Gazetas, Ioannis Anastasopoulos, Tetsuya Kohno, Giovanna Pianese, Keshab Sharma, Lijun Deng, Weian Liu, Roberto Paolucci & Jonathan Monical
Numerous centrifuge experiments (e.g., Rosebrook 2001; Ugalde et al. 2007; Gajan and Kutter 2008; Deng et al. 2012; Hakhamaneshi et al. 2012; Liu et al. 2013; Allmond and Kutter 2014; Loli et al. 2014) and 1g shake-table experiments (e.g., Shirato et al. 2008; Drosos et al. 2012; Antonellis et al. 2015; Tsatsis and Anastasopoulos 2015) have demonstrated that rocking shallow foundations can be designed to provide re-centering and energy dissipation with little damage to the...

Data from: Human traffic and habitat complexity are strong predictors for the distribution of a declining amphibian

Rachel B. Anderson
Invasive species and habitat modification threaten California's native pond-breeding amphibians, including the federally threatened California Red-legged Frog (Rana draytonii). The relative contributions of invasive species, including the American Bullfrog (Lithobates catesbeianus), and of habitat changes to these declines are disputed. I conducted a field study over several years in central California to examine the presence/absence of these two species at 79 breeding ponds to determine the predictive role for occupancy of factors including vegetation, pond...

Data from: Geography of speciation affects rate of trait divergence in haemulid fishes

Jose Tavera & Peter Wainwright
Speciation and the interactions between recently diverged species are thought to be major causes of ecological and morphological divergence in evolutionary radiations. We explored the role of these factors in the diversification of New World haemulid fishes, a major radiation of shore fishes in the tropical West Atlantic and East Pacific that are key members of coral reef ecosystems in this region. A time calibrated molecular phylogeny of this group reveals 21 sister species pairs,...

Is the USDA core collection of common bean representative of genetic diversity of the species, as assessed by SNP diversity?

Paul Gepts, Saarah Kuzay & Paige Hamilton
Core collections are envisioned to be a representative subset of larger germplasm collections. They were introduced to facilitate the characterization and use of these germplasm collections. The common bean (Phaseolus vulgaris) core collection of the USDA Western Regional Plant Introduction Station was one of the first ones to be established in the early 1990s. Here, we evaluate the representativity of this common bean collection in light of the availability of a SNP platform and new...

Effect of Drought Stress on the Genetic Architecture of Photosynthate Allocation and Remobilization in Pods of Common Bean (Phaseolus vulgaris L.), a Key Species for Food Security

Paul Gepts, Jorge Carlos Berny Mier Y Teran, Enéas R. Konzen, Antonia Palkovic, Siu M. Tsai, Idupulapati M. Rao & Stephen Beebe
Background: Common bean is the most important staple grain legume for direct human consumption and nutrition. It complements major sources of carbohydrates, including cereals, root crop, or plantain, as a source of dietary proteins. It is also a significant source of vitamins and minerals like iron and zinc. To fully play its nutritional role, however, its robustness against stresses needs to be strengthened. Foremost among these is drought, which commonly affects its productivity and seed...

Data from: Chiral Majorana fermion modes in a quantum anomalous Hall insulator–superconductor structure

Qing Lin He, Lei Pan, Alexander L. Stern, Edward C. Burks, Xiaoyu Che, , Jing Wang, Biao Lian, Quan Zhou, Eun Sang Choi, Koichi Murata, Xufeng Kou, Zhijie Chen, Tianxiao Nie, Qiming Shao, Yabin Fan, Shou-Cheng Zhang, Kai Liu, Jing Xia & Kang L. Wang
Majorana fermion is a hypothetical particle that is its own antiparticle. We report transport measurements that suggest the existence of one-dimensional chiral Majorana fermion modes in the hybrid system of a quantum anomalous Hall insulator thin film coupled with a superconductor. As the external magnetic field is swept, half-integer quantized conductance plateaus are observed at the locations of magnetization reversals, giving a distinct signature of the Majorana fermion modes. This transport signature is reproducible over...

Supporting data for the manuscript: Observations and modeling of the surface seiches of Lake Tahoe, USA

Derek Roberts, S. Geoffrey Schladow & Alexander Forrest
This data set was created to make the data associated with the manuscript Observations and modeling of the surface seiches of Lake Tahoe, USA, accepted for publication in Aquatic Sciences, publically available per journal convention. The publication abstract is shown below: A rich array of spatially complex surface seiche modes exists in lakes. While the amplitude of these oscillations is often small, knowledge of their spatio-temporal characteristics is valuable for understanding when they might be...

Data from: Feline immunodeficiency virus in puma: estimation of force of infection reveals insights into transmission

Jennifer Reynolds, Scott Carver, Mark Cunningham, Ken Logan, Winston Vickers, Kevin Crooks, Sue VandeWoude & Meggan Craft
Determining parameters that govern pathogen transmission (such as the force of infection, FOI), and pathogen impacts on morbidity and mortality, is exceptionally challenging for wildlife. Vital parameters can vary, for example across host populations, between sexes and within an individual's lifetime. Feline immunodeficiency virus (FIV) is a lentivirus affecting domestic and wild cat species, forming species-specific viral--host associations. FIV infection is common in populations of puma (Puma concolor), yet uncertainty remains over transmission parameters and...

Employee airline travel preferences survey data, UC Davis GreenFLY project

Annamaria Amenta & Angela Sanguinetti
This survey data is from a study exploring the potential to promote lower-emissions air travel by providing consumers with information about the carbon emissions of possible flight choices in the context of online flight search and booking. We surveyed over 450 faculty, researchers, and staff at the University of California, Davis, and asked them to choose among hypothetical flight options for a domestic and an international university-related business trip. Emissions estimates for different flight alternatives...

Explaining illness with evil: Pathogen prevalence fosters moral vitalism

Brock Bastian, Christin-Melanie Vauclair, Steve Loughnan, Paul Bain, Ashwini Ashokkumar, Maja Becker, Michal Bilewicz, Emma Collier-Baker, Carla Crespo, Paul W. Eastwick, Ronald Fischer, Malte Friese, Ángel Gómez, Valeschka M. Guerra, Jose Luis Castellanos Guevara, Katja Hanke, Nic Hooper, Li-Li Huang, Shi Junqi, Minoru Karasawa, Peter Kuppens, Siri Leknes, Müjde Peker, Cesar Pelay, Afoditi Pina … & William B. Swann
Pathogens represent a significant threat to human health leading to the emergence of strategies designed to help manage their negative impact. We examined how spiritual beliefs developed to explain and predict the devastating effects of pathogens and spread of infectious disease. Analysis of existing data in Studies 1 and 2 suggests that moral vitalism (beliefs about spiritual forces of evil) is higher in geographical regions characterized by historical higher levels of pathogens. Furthermore, drawing on...

Persistence of an endangered native duck, feral mallards, and multiple hybrid swarms across the main Hawaiian Islands

Caitlin Wells, Philip Lavretsky, Michael Sorenson, Jeffrey Peters, Jeffrey DaCosta, Stephen Turnbull, Kimberly Uyehara, Christopher Malachowski, Bruce Dugger, John Eadie & Andrew Engilis
Interspecific hybridization is recognized as an important process in the evolutionary dynamics of both speciation and the reversal of speciation. However, our understanding of the spatial and temporal patterns of hybridization that erode versus promote species boundaries is incomplete. The endangered, endemic koloa maoli (or Hawaiian duck, Anas wyvilliana) is thought to be threatened with genetic extinction through ongoing hybridization with an introduced congener, the feral mallard (A. platyrhynchos). We investigated spatial and temporal variation...

Genital morphology and the mechanics of copulation in the millipede genus Pseudopolydesmus (Diplopoda: Polydesmida: Polydesmidae)

Xavier Zahnle, Petra Sierwald, Stephanie Ware & Jason Bond
Mate choice, copulation, genital morphology, and sperm storage are not very well understood in millipedes. The use of three-dimensional x-ray computed tomography (µCT) provides new morphological data regarding millipede reproductive systems in both the female and male, including chitinous sclerites and membranes, muscles, glands, oviducts, and sperm conduits. Here we present a complete integrated account of the morphology and function of the female genital organs in the family Polydesmidae (Diplopoda: Polydesmida) using µCT, UV fluorescence...

Low coverage whole genomes of Calypte anna across California, USA

Nicole Adams, Ruta Bandivadekar, Michael Clark, Lisa Tell & Rachael Bay
Recently, it was suggested that North America has lost nearly 30% of its avifauna since the 1970s. To mitigate such avian population declines, many birds in California are protected under the Migratory Bird Treaty Act and California Fish and Game Code. Avian presence, therefore, at Caltrans infrastructure projects, especially bridge construction, has caused costly delays. To avoid this conflict and understand population-specific migration and nesting patterns, we used Anna’s hummingbird, Calypte anna, (a species whose...

Bicycling comfort video experiment

Dillon Fitch, Jane Carlen & Susan Handy
This tabular data can be used to evaluate perceived bicycling comfort on distinct state highways in California. The highway settings are primarily urban, but vary in traffic conditions, lane configurations, speeds, and bicycling infrastructure. The data include survey responses to video clips of these state highways along with a series of additional survey data that co-varies with the video survey responses.

Domestic Well Vulnerability to Drought Duration and Unsustainable Groundwater Management in California's Central Valley

Richard Pauloo, Helen Dahlke, Graham Fogg, Herve Guillon, Amanda Fencl & Alvar Escriva-Bou
Millions of Californians access drinking water via domestic wells, which are vulnerable to drought and unsustainable groundwater management. Groundwater overdraft and the possibility of longer drought duration under climate change threatens domestic well reliability, yet we lack tools to assess the impact of such events. Here, we leverage 943,469 well completion reports and 20 years of groundwater elevation data to develop a spatially-explicit domestic well failure model covering California's Central Valley. Our model successfully reproduces...

Accuracy of genomic selection and long-term genetic gain for resistance to Verticillium wilt in a genetically diverse strawberry population

Steven Knapp, Dominique Pincot, Michael Hardigan, Glenn Cole, Peter Henry, Thomas Gordon & Randi Famula
Verticillium wilt, a soil-borne disease caused by the fungal pathogen Verticillium dahliae, threatens strawberry (Fragaria × ananassa) production worldwide. The development of resistant cultivars has been a challenge since the disease was first reported on strawberry in the early 1900s. The empirical evidence suggests that genetic gains have not been negligible and that the genetics of resistance to this pathogen is quantitative. While resistant cultivars have been developed, a comparatively small percentage are highly resistant,...

One-dimensional models of radiation transfer in heterogeneous canopies: a review, re-evaluation, and improved model

Brian Bailey, María Ponce De León & E. Scott Krayenhoff
This dataset contains the project files and data output for the publication: Bailey, Brian; Ponce de León, María; Krayenhoff, E. Scott (2019), One-dimensional models of radiation transfer in heterogeneous canopies: A review, re-evaluation, and improved model. The file main.cpp contains the main program that sets up and runs the simulations. Output files are stored in the 'output' directory. The current version of the Helios source code can be downloaded at https://www.github.com/PlantSimulationLab/Helios

Data from: Anthropogenic Basin Closure and Groundwater Salinization (ABCSAL)

Richard Pauloo
Global food systems rely on irrigated agriculture, and most of these systems in turn depend on fresh sources of groundwater. In this study, we demonstrate that groundwater development, even without overdraft, can transform a fresh, open basin into an evaporation dominated, closed-basin system, such that most of the groundwater, rather than exiting via stream baseflow and lateral subsurface flow, exits predominantly by evapotranspiration from irrigated lands. In these newly closed hydrologic basins, just as in...

Adaptive specialization and constraint in morphological defenses of planktonic larvae

Samuel Bashevkin, John Christy & Steven Morgan
Morphological defenses of plankton can include armor, spines, and coloration. Spines defend from gape-limited fish predators while pigmentation increases visibility to fishes but defends from ultraviolet radiation (UVR). Planktonic crab larvae (zoeae) exhibit inter- and intra-specific variability in the lengths of defensive spines, extent of pigmentation, and body size. The determinants of this variability and the relationships among these traits are largely unknown. Larvae may employ generalized defenses against the dual threats of UVR and...

Data from: Evolution of sexually dimorphic pheromone profiles coincides with increased number of male-specific chemosensory organs in Drosophila prolongata

Yige Luo, Yuewei Zhang, Jean-Pierre Farine, Jean-François Ferveur, Santiago Ramírez & Artyom Kopp
Binary communication systems that involve sex-specific signaling and sex-specific signal perception play a key role in sexual selection and in the evolution of sexually dimorphic traits. The driving forces and genetic changes underlying such traits can be investigated in systems where sex-specific signaling and perception have emerged recently and show evidence of potential coevolution. A promising model is found in Drosophila prolongata, which exhibits a species-specific increase in the number of male chemosensory bristles. We...

Measurements from the Fire Influence on Regional and Global Environments Experiment (FIREX) Fire Lab Mini Chamber Experiment

Christopher Cappa, Christopher Lim, David Hagan & Jesse Kroll
All experiments were conducted during the Fire Influence on Regional to Global Environments Experiment (FIREX) lab study, which took place at the Missoula Fire Sciences Lab in Missoula, MT, USA during November, 2016. Experiments focused on refining our understanding of emissions and short timescale processing. The focus was on measuring fuels or combustion conditions that are characteristic of the western U.S. that may be under-sampled by the fire research community. Numerous types of biomass were...

Multi-scale landscape genetics of American marten at their southern range periphery

Cody Aylward, James Murdoch & C. William Kilpatrick
American marten (Martes americana) are a conservation priority in many forested regions of North America. Populations are fragmented at the southern edge of their distribution due to suboptimal habitat conditions. Facilitating gene flow may improve population resilience through genetic and demographic rescue. We used a multi-scale approach to estimate the relationship between genetic connectivity and landscape characteristics among individuals at three scales in the northeastern United States: regional, subregional, and local. We integrated multiple modeling...

Exploring the role of attitude in the acceptance of self-driving shuttles

YAN XING, Susan Handy, Giovanni Circella, Yunshi Wang & Farzad Alemi
Self-driving vehicles, as a revolution in mobility, are emerging and developing rapidly. However, public attitudes toward this new unproven technology are still uncertain. Given the significant influence of attitude toward a new technology on the intention to use it, the question arises as to why some people are in favor of this technology whereas others are not. Additionally, questions about the key attitudes influencing self-driving technology acceptance, where these attitudes come from, and how they...

Genome Synteny Has Been Conserved Among the Octoploid Progenitors of Cultivated Strawberry Over Millions of Years of Evolution

Michael Hardigan, Mitchell Feldmann, Anne Lorant, Kevin Bird, Steven Knapp, Patrick Edger, Glenn Cole, Charlotte Acharya & Randi Famula
Allo-octoploid cultivated strawberry (Fragaria × ananassa) originated through a combination of polyploid and homoploid hybridization, domestication of an interspecific hybrid lineage, and continued admixture of wild species over the last 300 years. While genes appear to flow freely between the octoploid progenitors, the genome structures and diversity of the octoploid species remain poorly understood. The complexity and absence of an octoploid genome frustrated early efforts to study chromosome evolution, resolve subgenomic structure, and develop a...

Data from: Interest in nonsocial novel stimuli as a function of age in rhesus monkeys

Eliza Bliss-Moreau & Mark Baxter
Human cognitive and affective life changes with healthy aging; cognitive capacity declines while emotional life becomes more positive and social relationships are prioritized. This may reflect an awareness of limited lifetime unique to humans, leading to a greater interest in maintaining social relationships at the expense of the nonsocial world in the face of limited cognitive and physical resources. Alternately, fundamental biological processes common to other primate species may direct preferential interest in social stimuli...

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