98 Works

CNS isotope values in eye lenses for juvenile and adult Chinook Salmon

Miranda Bell Tilcock, Carson Jeffres, Andrew Rypel, Ted Sommer, Jacob Katz, George Whitman & Rachel Johnson
Tracking habitat use and dietary shifts in migratory species is vital to conservation and management. Yet conventional animal tracking often precludes tracking small juveniles at critical life-stages where recruitment bottlenecks often manifest. Stable isotope analysis (SIA) in consecutive laminae in eye lenses, a protein-rich depositional tissue, has emerged as a promising tool in fishes to develop long-term interpretive records of dietary histories using a single archival tissue. Currently, studies using fisheye lenses to study SIA...

Age affects strain-rate dependence of the mechanical properties of kelp tissue

Nicholas Burnett & M.A.R. Koehl
Premise: The resistance of macroalgae to hydrodynamic forces imposed by ambient water motion depends in part on the mechanical properties of their tissues. In wave-swept habitats, tissues are stretched (strained) at different rates as hydrodynamic forces constantly change. Kelp have tissues of different ages, and mechanical properties of kelp tissue change with age. However, the effects of age on the strain-rate dependence of the mechanical behavior of kelp tissues is unknown. Methods: Using the kelp...

Retention of green leaves not brown leaves increases spring cynipid diversity on large valley oaks

Vincent Pan, Adam Pepi, Jake Goidell & Richard Karban
Plants can retain either physiologically active green leaves or inactive brown leaves over winter. Research has suggested that leaf retention incurs a cost due to higher herbivore load in the following year; however, no distinction has, thus, far been made between retention of green and brown leaves. We surveyed the over-winter retention of physiologically active green and inactive brown leaves of valley oaks (Quercus lobata) and examined their relationship with the diversity and density of...

Dispersal of nectar microbes in California flowering communities

Rachel Vannette, Griffin Hall, Ivan Munkres, Marshall McMunn, Douglas Perry & Tobias Mueller
Variation in dispersal ability among taxa affects community assembly and biodiversity maintenance within metacommunities. Although fungi and bacteria frequently coexist, their relative dispersal abilities are poorly understood. Nectar-inhabiting microbial communities affect plant reproduction and pollinator behavior, and are excellent models for studying dispersal of bacteria and fungi in a metacommunity framework. Here, we assay dispersal ability of common nectar bacteria and fungi in an insect-based dispersal experiment. We then compare these results to the incidence...

Transgenerational plasticity and the capacity to adapt to low salinity in the eastern oyster, Crassostrea virginica

Joanna Griffiths, Kevin Johnson, Kyle Sirovy, Mark Yeats, Francis Pan, Jerome La Peyre & Morgan Kelly
Salinity conditions in oyster breeding grounds in the Gulf of Mexico are expected to drastically change due to increased precipitation from climate change and anthropogenic changes to local hydrology. We determined the capacity of the eastern oyster, Crassostrea virginica, to adapt via standing genetic variation or acclimate through transgenerational plasticity. We outplanted oysters to either a low or medium salinity site in Louisiana for two years. We then crossed adult parents using a North Carolina...

Environmental metadata for: 2019/2020 biomineral sampling of drainpipes from California public rest areas

Kahui Lim, Harold Leverenz, Cara Wademan & Samantha Barnum
Clogging and odor is strongly associated with ureolytic biomineralization in waterless and low-flow urinal drainage systems in high usage settings. These blockages continue to hinder widespread waterless and low-flow urinal adoption due to subsequent high maintenance requirements and hygiene concerns. Through field observations, hypothesis testing, and multiple regression analysis, this study attempts to characterize, for the first time, the ureolytic activity of the biomineralization found in alternative cated at 9 State-owned restrooms. Multiple regression analysis...

Data from: Expiratory aerosol particle escape from surgical masks due to imperfect sealing

Christopher Cappa, Sima Asadi, Anthony Wexler, Santiago Barreda & Nicole Bouvier
The dataset provided here is associated with the work "Expiratory aerosol particle escape from surgical masks due to imperfect sealing," by Cappa et al, currently available as a preprint at https://doi.org/10.21203/rs.3.rs-142138/v1. This includes measurements made of the influence of surgical masks and leakage flows out the mask sides on the emission of micron-scale aerosols from various expiratory activities (coughing, speaking). The dataset provided here includes *.txt files exported from an Aerodynamic Particle Sizer that contain...

Data and analysis scripts for: Asymmetrical reproductive barriers in sympatric Jewelflowers: are floral isolation, genetic incompatibilities, and floral trait displacement connected?

Kyle Christie
Floral visitors influence reproductive interactions among sympatric plant species, either by facilitating assortative mating and contributing to reproductive isolation, or by promoting heterospecific pollen transfer, potentially leading to reproductive interference or hybridization. We assessed preference and constancy of floral visitors on two co-occurring Jewelflowers (Streptanthus breweri and S. hesperidis, Brassicaceae) using field arrays, and quantified two floral rewards potentially important to foraging choice – pollen production and nectar sugar concentration – in a greenhouse common...

Optical maps refine the bread wheat Triticum aestivum cv Chinese Spring genome assembly

Tingting Zhu, Le Wang, Hélène Rimbert, Juan Rodriguez, Karin Deal, Romain De Oliveira, Frédéric Choulet, Gabriel Keeble-Gagnère, Josquin Tibbits, Jane Rogers, Kellye Eversole, Rudi Appels, Yong Gu, Martin Mascher, Jan Dvorak, Ming-Cheng Luo, Juan C. Rodriguez, Karin R. Deal, Gabriel Keeble‐Gagnère, Yong Q. Gu & Ming‐Cheng Luo
This dataset contains a single whole-genome optical map file (.CMAP) for bread wheat (Triticum aestivum) cv Chinese Spring (CS). The methods for constructing this optical map and the properties of this map are described below. The definition of the CMAP format is documented in https://bionanogenomics.com/wp-content/uploads/2017/03/30039-CMAP-File-Format-Specification-Sheet.pdf. The extracted ultra-high-molecular weight DNA molecules of CS were labeled with the DLE-1 enzyme (Bionano Genomics, San Diego, CA, USA) and were then stained with the Bionano PrepTM DLS Kit...

Data from: Rare instances of haploid inducer DNA in potato dihaploids and ploidy-dependent genome instability

Kirk Amundson
In cultivated tetraploid potato, reduction to diploidy (dihaploidy) allows hybridization to diploid germplasm, introgression breeding, and may facilitate the production of inbreds. Pollination with haploid inducers yields maternal dihaploids, as well as triploid and tetraploid hybrids. It is not known if dihaploids result from parthenogenesis, entailing development of embryos from unfertilized eggs, or genome elimination, entailing missegregation and loss of paternal chromosomes. A sign of genome elimination is the occasional persistence of haploid inducer DNA...

Fighting for curb space: Micro-simulation

Miguel Jaller, Caroline Rodier, Michael Zhang, Huachao Lin & Kathryn Lewis
This study conducted a comprehensive literature review on several topics related to curb space management, discussing various users (e.g., pedestrians, bicycles, transit, taxis, and commercial freight vehicles), summarizing different experiences, and focusing the discussion on Complete Street strategies. Moreover, the authors reviewed the academic literature on curbside and parking data collection, and simulation and optimization techniques. Considering a case study around the downtown area in San Francisco, the authors evaluated the performance of the system...

Stable social groups foster conformity and among-group differences

Marcus Michelangeli, Amelia Munson & Andrew Sih
The social niche hypothesis theorizes that repeated social interactions between group members is an important mechanism for generating consistent individual differences in behaviour. However, such frequent interactions also have the potential to mask or suppress behavioural differences if individuals conform towards a group behavioural norm (i.e. the social conformity) by either synchronizing their behaviour or shifting their behaviour towards that of influential group members. Both of these predictions hinge on the notion that social feedback...

Scaling up experimental stress responses of grass invasion to predictions of continental-level range suitability

Bo Zhang, Yingdan Yuan, Lele Shu, Edwin Grosholz, Yuxi Guo, James Cuda, Jinchi Zhang, Lu Zhai & Jiangxiao Qiu
Understanding how the biological invasion is driven by environmental factors will improve model prediction and advance early detection, especially in the context of accelerating anthropogenic ecological changes. Although a large body of studies has examined how favorable environments promote biological invasions, a more comprehensive and mechanistic understanding of invasive species response to unfavorable/stressful conditions is still developing. Grass invasion has been problematic across the globe; in particular, C4 grass invaders, with high drought tolerance, adaptations...

Scaling up experimental stress responses of grass invasion to predictions of continental-level range suitability

Bo Zhang
Understanding how the biological invasion is driven by environmental factors will improve model prediction and advance early detection, especially in the context of accelerating anthropogenic ecological changes. Although a large body of studies has examined how favorable environments promote biological invasions, a more comprehensive and mechanistic understanding of invasive species response to unfavorable/stressful conditions is still developing. Grass invasion has been problematic across the globe; in particular, C4 grass invaders, with high drought tolerance, adaptations...

N-Glycosylation effects on T cell receptor kinetics

Zachary Rollins, Bradley Harris, Steven George & Roland Faller
This methodology is an atomic-level investigation of the physiochemical effects of glycosylation on TCR dissociation kinetics. The force-dependent bond lifetime and bond strength of the DMF5 T Cell Receptor (TCR) to the MART1 peptide-Major Histocompatibility Complexes (pMHCs) were simulated using Steered Molecular Dynamics. N-glycsoylated and aglycosylated configurations were compared in triplicate. This data set contains atomic structure of the TCR and pMHC (.gro files), atomic interactions between the TCR and pMHC (hmap & cmap .csv...

Thermal tolerance and routine oxygen consumption of convict cichlid, Archocentrus nigrofasciatus, acclimated to constant temperatures (20 °C and 30 °C) and a daily temperature cycle (20 °C → 30 °C)

Cassidy Cooper, John Eme & William Kristan
Organismal temperature tolerance and metabolic responses are correlated to recent thermal history, but responses to thermal variability are less frequently assessed. There is great interest in whether organisms that experience greater thermal variability can gain metabolic or tolerance advantages through phenotypic plasticity. We compared thermal tolerance and routine aerobic metabolism of Convict cichlid acclimated for 2 weeks to constant 20°C, constant 30°C, or a daily cycle of 20→30°C (1.7°C/hr). Acute routine mass-specific oxygen consumption (Ṁo...

Data for: Social behavior, ovary size, and population of origin influence cuticular hydrocarbons in the orchid bee, Euglossa dilemma

Nicholas Saleh
Cuticular hydrocarbons (CHCs) are waxy compounds on the surface of insects that prevent desiccation and frequently serve as chemical signals mediating social and mating behaviors. Although their function in eusocial species has been heavily investigated, little is known about the evolution of CHC-based communication in species with simpler forms of social organization lacking specialized castes. Here, we investigate factors shaping CHC variation in the orchid bee Euglossa dilemma, which forms casteless social groups of 2-3...

Data from: The role of spatial averaging scale in leaf-to-canopy scaling of non-linear processes in homogeneous canopies

Eric R. Kent & Brian N. Bailey
Canopy biophysical models require averaging fluxes over some spatial scale (sub-leaf, leaf, sub-crown, crown, whole-canopy, etc.). Choice of averaging scale can be important when modeling processes like stomatal conductance and photosynthesis that have a non-linear response to environmental variables such as light interception. The model results archived here were used to quantify errors in canopy-level flux simulations due to averaging scale choice. A detailed leaf-resolving model was used to simulate light interception for a series...

Ridehailing, uncertainty and sustainable transportation

Susan Pike
This study investigates how stakeholders throughout the state of California view the potential impacts of ridehailing services such as Uber or Lyft, to transportation systems, and how to address such impacts. Ridehailing is one of several emerging shared use mobility alternatives, poised to impact transportation systems, for better or worse. For better if these new services catalyze the development and maturation of well-integrated multi-model transportation systems that serve all travelers and reduce vehicle miles travelled...

Data for project: Discontinuance among California’s electric vehicle buyers: Why are some consumers abandoning their electric vehicles?

Scott Hardman
For the market introduction of electric vehicles to be successful first-time adopters need to make continual purchases of the vehicles. Discontinuance, the act of abandoning a new technology after once being an adopter, has implications for market growth and could prevent electric vehicles ever reaching 100% market share. In December 2019 we resurveyed PEV owning housholds who we have prfeviously surveyed in 4 seperate cohort surveys. The data is from 5 survyes. The 5 questionnaire...

Early resources lead to persistent benefits for bumble bee colony dynamics

Neal M Williams, Rosemary Malfi, & Elizabeth Crone
Conditions experienced early in development can affect the future performance of individuals and populations. Demographic theories predict persistent population impacts of past resources, but few studies have experimentally tested such carry-over effects across generations or cohorts. We used bumble bees to test whether resource timing had persistent effects on within-colony dynamics over sequential cohorts of workers. We simulated a resource pulse for field colonies either early or late in their development and estimated colony growth...

Rad21l1 cohesin subunit is dispensable for spermatogenesis but not oogenesis in zebrafish

Sean Burgess, Yana Blokhina, Michelle Frees, An Nguyen, Daniel Chu & Bruce Draper
During meiosis I, ring-shaped cohesin complexes play important roles in aiding the proper segregation of homologous chromosomes. RAD21L is a meiosis-specific vertebrate cohesin that is required for spermatogenesis in mice but is dispensable for oogenesis in young animals. The role of this cohesin in other vertebrate models has not been explored. Here, we tested if the zebrafish homolog Rad21l1 is required for meiotic chromosome dynamics during spermatogenesis and oogenesis. We found that Rad21l1 localizes to...

A case study for the implementation of an integrated variable speed limit (VSL) control strategy in a freeway section of I-80 based on SUMO simulations

Hang Gao & Michael Zhang
This project aims at reducing fuel consumption and greenhouse gas emission by applying variable speed control (VSL) strategies to the traffic corridors with multi-segment and multi-bottleneck. The dataset is composed of inputs and outputs of the SUMO simulation model via TraCI API. SUMO is a microscopic traffic simulation platform which allows to simulate a given traffic demand through a given network. Namely, the inputs consist of the vehicle trip data obtained from the PeMS database...

Eco-correlates of coloration in primates

Tim Caro & Theodore Stankowich
Primates are noted for their varied and complex pelage and bare skin coloration but the significance of this diverse coloration remains opaque. Using new updated information, novel scoring of coat and skin coloration, and controlling for shared ancestry, we reexamined and extended findings from previous studies across the whole order and the five major clades within it. Across primates we found (i) direct and indirect evidence for pelage coloration being driven by protective coloration strategies...

Control failures following insecticide applications in commercial agriculture: How often do they occur? A case study of Lygus hesperus control in cotton

Jay Rosenheim
Although surveys of pest populations documenting evolved insecticide resistance often suggest abundant potential for insecticide control failures, studies documenting the actual occurrence of such failures in commercial agriculture are rare. If farmers currently practice adaptive management, abandoning the use of insecticides once resistance emerges, actual control failures could be rare. Here I use data gathered by independent pest management consultants to describe a case study of the realized efficacy of commercial field applications of insecticides,...

Registration Year

  • 2021

Resource Types

  • Dataset


  • University of California, Davis
  • San Diego State University
  • George Mason University
  • Wittenberg University
  • Centre d'Etudes Biologiques de Chizé
  • Oklahoma State University
  • University of Nevada Reno
  • Agricultural Research Service
  • Colorado State University
  • University of California, Irvine