51 Works

Collaborative Research: New Approaches to New Production

Douglas Capone
Coastal marine ecosystems are seasonally dynamic and highly productive. Phytoplankton populations shift from nutrient replete conditions in the spring to nutrient poor conditions in other seasons. The San Pedro Ocean Time-series (SPOT), located 17 km offshore between Los Angeles Harbor and Catalina Island, is a representative and accessible model coastal system with regular sampling and a substantial archive of relevant observations. The SPOT program has cataloged the dynamics, diversity, and productivity of microbial populations since...

Boulder City, Nevada revenue generating analysis

Mayra A. Castro, Dolores P. Leyva, Arnetta M. Meagher & Wade Zimmerman
Boulder City (City) is unique in the State of Nevada as being a non-gaming city, maintaining a controlled growth ordinance, and steadfastly holding to its "small town" values and character. The City has been facing budgetary challenges as future expenditures are anticipated to continually exceed revenues if current services levels are maintained. Indeed, fiscal reviews indicate the City has been transferring contingency monies between funds to cover overages for the past several fiscal years. This...

Intrinsic quantized anomalous Hall effect in a moiré heterostructure

Marec Serlin, Charles Tschirhart, Hryhoriy Polshyn, Yuxuan Zhang, Jiacheng Zhu, Kenji Watanabe, Takashi Taniguchi & Andrea Young
The quantum anomalous Hall (QAH) effect combines topology and magnetism to produce precisely quantized Hall resistance at zero magnetic field. We report the observation of a QAH effect in twisted bilayer graphene aligned to hexagonal boron nitride. The effect is driven by intrinsic strong interactions, which polarize the electrons into a single spin and valley resolved moiré miniband with Chern number C = 1. In contrast to magnetically doped systems, the measured transport energy gap...

Dominance of endemics in the reef fish assemblages of the Hawaiian Archipelago

Alan Friedlander, Mary Donovan, Edward DeMartini & Brian Bowen
Aim: Species ranges provide a valuable foundation for resolving biogeographic regions, evolutionary processes, and extinction risks. To inform conservation priorities, here we develop the first bioregionalization based on reef fish abundance of the Hawaiian Archipelago, which spans nearly 10° of latitude across 2,400 km, including 8 high volcanic islands in the populated main Hawaiian Islands (MHI), and 10 low islands (atolls, shoals, and islets) in the remote northwestern Hawaiian Islands (NWHI).. Location: The Hawaiian Archipelago....

Single cell transcriptomics of of Abedinium reveals a new early-branching dinoflagellate lineage

Elizabeth Cooney, Noriko Okamoto, Anna Cho, Elisabeth Hehenberger, Thomas Richards, Alexandra Worden, Alyson Santoro, Brian Leander & Patrick Keeling
Dinoflagellates possess many unique cellular characteristics with unresolved evolutionary histories including nuclei with greatly expanded genomes and chromatin packaged using histone-like proteins and dinoflagellate-viral nucleoproteins instead of histones, highly reduced mitochondrial genomes with extensive RNA editing, a mix of photosynthetic and cryptic secondary plastids, and tertiary plastids. Resolving the evolutionary origin of these traits requires understanding their ancestral states and early intermediates. Several deep-branching dinoflagellate lineages are good candidates for such reconstruction, however they tend...

Data from: A global network of marine protected areas for food

Reniel Cabral, Darcy Bradley, Juan Mayorga, Whitney Goodell, Alan Friedlander, Enric Sala, Christopher Costello & Steven Gaines
Marine protected areas (MPAs) are conservation tools that are increasingly implemented, with growing national commitments for MPA expansion. Perhaps the greatest challenge to expanded use of MPAs is the perceived trade-off between protection and food production. Since MPAs can benefit both conservation and fisheries in areas experiencing overfishing and since overfishing is common in many coastal nations, we ask how MPAs can be designed specifically to improve fisheries yields. We assembled distribution, life history, and...

PiVR: an affordable and versatile closed-loop platform to study unrestrained sensorimotor behavior

David Tadres & Matthieu Louis
Tools enabling closed-loop experiments are crucial to delineate causal relationships between the activity of genetically-labeled neurons and specific behaviors. We developed the Raspberry Pi Virtual Reality system (PiVR) to conduct closed-loop optogenetic stimulation of neural functions in unrestrained animals. PiVR is an experimental platform that operates at high-temporal resolution (70 Hz) with low latencies (<30 ms), while being affordable (<$500) and easy to build (<6 hours). Through extensive documentation, this tool was designed to be...

Ancient macaw and parrot DNA from the Atacama Desert

Richard George
The feathers of tropical birds were one of the most significant symbols of economic, social, and political status in the pre-Columbian Americas. In the Andes, finely produced clothing and textiles containing multicolored feathers of tropical parrots materialized power, prestige, distinction, and were particularly appreciated by political and religious elites. Here, we report 27 complete or partial remains of macaws and amazon parrots from five archaeological sites in the Atacama Desert of northern Chile to improve...

Data from: Enzymatic degradation of liquid droplets of DNA is modulated near the phase boundary

Omar A. Saleh
Biomolecules can undergo liquid-liquid phase separation (LLPS), forming dense droplets that are increasingly understood to be important for cellular function. Analogous systems are studied as early-life compartmentalization mechanisms, for applications as protocells, or as drug-delivery vehicles. In many of these situations, interactions between the droplet and enzymatic solutes are important to achieve certain functions. To explore this, we carried out experiments in which a model LLPS system, formed from DNA `nanostar' particles, interacted with a...

Topological structure and dynamics of three-dimensional active nematics

Guillaume Duclos, Thomas Powers, Aparna Baskaran, Zvonimir Dogic, Vincenzo Vitelli, Federico Toschi, Raymond Adkins, Debarghya Banerjee, Matthew Peterson, Minu Varghese, Itamar Kolvin, Robert Pelcovits, Sebastian Streichan, Daniel Beller, Arvind Baskaran, Michael Hagan, Matthew S. E. Peterson, Robert A. Pelcovits, Thomas R. Powers, Michael F. Hagan & Sebastian J. Streichan
Topological structures are effective descriptors of the nonequilibrium dynamics of diverse many-body systems. For example, motile, point-like topological defects capture the salient features of two-dimensional active liquid crystals composed of energy-consuming anisotropic units. We dispersed force-generating microtubule bundles in a passive colloidal liquid crystal to form a three-dimensional active nematic. Light-sheet microscopy revealed the temporal evolution of the millimeter-scale structure of these active nematics with single-bundle resolution. The primary topological excitations are extended, charge-neutral disclination...

Gene content, gene expression, and physiology in mesopelagic ammonia-oxidizing archaea

Christopher Dupont
Intellectual Merit. How organisms respond to their physical and chemical and environment is a central question in marine ecology. For microbes living in the mesopelagic - the ocean's "twilight zone" - an efficient response is particularly important to capitalize on the intermittent delivery of organic and inorganic compounds sinking from the surface ocean. These organisms must have a suite of metabolic and regulatory strategies used to cope with environmental variability, but these strategies are largely...

The ProteOMZ Expedition: Investigating Life Without Oxygen in the Pacific Ocean

Mak Saito
From Schmidt Ocean Institute's ProteOMZåÊProject page: Rising temperatures, ocean acidification, and overfishing have now gained widespread notoriety as human-caused phenomena that are changing our seas. In recent years, scientists have increasingly recognized that there is yet another ingredient in that deleterious mix: a process called deoxygenation that results in less oxygen available in our seas. Large-scale ocean circulation naturally results in low-oxygen areas of the ocean called oxygen deficient zones (ODZs). The cycling of carbon...

Collaborative Research: Diatoms, Food Webs and Carbon Export - Leveraging NASA EXPORTS to Test the Role of Diatom Physiology in the Biological Carbon Pump

Janice Jones
This project focuses on a group of microscopic single-celled photosynthetic organisms in the ocean called diatoms. Diatoms float in the surface ocean as part of a group of organisms collectively called phytoplankton. There are thousands of different species of diatoms distributed across the global ocean. A famous oceanographer Henry Bigelow once said "All fish is diatoms" reflecting the importance of diatoms as the base of the food chain that supports the world's largest fisheries. Despite...

Adaptations of fish and fishing communities to rapid climate change

Doug McCauley
Climate change presents a profound challenge to the sustainability of coastal systems. Most research has overlooked the important coupling between human responses to climate effects and the cumulative impacts of these responses on ecosystems. Fisheries are a prime example of this feedback: climate changes cause shifts in species distributions and abundances, and fisheries adapt to these shifts. However, changes in the location and intensity of fishing also have major ecosystem impacts. This project's goal is...

Proactive conservation to prevent habitat losses to agricultural expansion

David Williams, Michael Clark, Graeme M. Buchanan, G. Francesco Ficetola, Carlo Rondinini & David Tilman
The projected loss of millions of square kilometres of natural ecosystems to meet future demand for food, animal feed, fibre, and bioenergy crops is likely to massively escalate threats to biodiversity. Reducing these threats requires a detailed knowledge of how and where they are likely to be most severe. We developed a geographically explicit model of future agricultural land clearance based on observed historic changes and combine the outputs with species-specific habitat preferences for 19,859...

Effects of social structure and management on risk of disease establishment in wild pigs

Anni Yang, Peter Schlichting, Bethany Wight, Wesley Anderson, Sarah Chinn, Mark Wilber, Ryan Miller, James Beasley, Raoul Boughton, Kurt VerCauteren, George Wittemyer & Kim Pepin
1. Contact heterogeneity among hosts determines invasion and spreading dynamics of infectious disease, thus its characterization is essential for identifying effective disease control strategies. Yet, little is known about the factors shaping contact networks in many wildlife species and how wildlife management actions might affect contact networks. 2. Wild pigs in North America are an invasive, socially-structured species that pose a health concern for domestic swine given their ability to transmit numerous devastating diseases such...

Data from: Mother's social status is associated with child health in a horticulturalist population

Sarah Alami, Christopher Von Rueden, Edmond Seabright, Thomas S. Kraft, Aaron D. Blackwell, Jonathan Stieglitz, Hillard Kaplan & Michael Gurven
High social status is often associated with greater mating opportunities and fertility for men, but do women also obtain fitness benefits of high status? Greater resource access and child survivorship may be principal pathways through which social status increases women’s fitness. Here we examine whether peer-rankings of women’s social status (indicated by political influence, project leadership and respect) positively covaries with child nutritional status and health in a community of Amazonian horticulturalists. We find that...

Resource-related variables drive individual variation in flowering phenology and mediate population-level flowering responses to climate in an asynchronously reproducing palm

Tadeo Ramirez-Parada, Jordan Karubian, Luke Browne & Zoe Diaz-Martin
Many tropical plant species show wide intra-population variation in reproductive timing, resulting in the protracted presence of flowering and fruiting individuals. Various eco-evolutionary drivers have been proposed as ultimate causes for asynchronous phenology, yet little is known about the proximate factors that control reproductive onset among individuals, or that influence the proportion of trees producing new inflorescences within a population. We employed a nine-year phenological record from 178 individuals of the hyperdominant, asynchronously flowering canopy...

Disease's hidden death toll: Using parasite aggregation patterns to quantify landscape-level host mortality in a wildlife system

Mark Wilber, Cheryl Briggs & Pieter Johnson
Worldwide, infectious diseases represent a major source of mortality in humans and livestock. For wildlife populations, disease-induced mortality is likely even greater, but remains notoriously difficult to estimate -- especially for endemic infections. Approaches for quantifying wildlife mortality due to endemic infections have historically been limited by an inability to directly observe wildlife mortality in nature. Here, we address a question that can rarely be answered for endemic pathogens of wildlife: what are the population-...

Data from: Allometric scaling of metabolism is linked to colony aggressiveness in ants

Krista Kraskura, Thomas Lenihan, James Lichtenstein, Kirsten Sheehy, Grant Doering, Alexander Little, Jonathan Pruitt & Erika Eliason
These data are supplementary to a study entitled: "Allometric scaling of metabolism is linked to colony aggressiveness in ants". These data describe metabolic rates and behavior (aggressiveness) in ant colonies across size. The majority of scaling relationships are established on solitary organisms, but metabolism also scales allometrically with colony size in eusocial insect societies. One possible parameter that may affect metabolism in social insect colonies, is a colony’s collective behavioral phenotype. These data were collected...

Tsimane physiological dysregulation data

Thomas Kraft, Jonathan Stieglitz, Benjamin Trumble, Angela Garcia, Hillard Kaplan & Michael Gurven
Humans have the longest post-reproductive lifespans and lowest rates of actuarial aging among primates. Understanding the links between slow actuarial aging and physiological change is critical for improving the human “healthspan”. Physiological dysregulation may be a key feature of aging in industrialized populations with high burdens of chronic “diseases of civilization”, but little is known about age trajectories of physiological condition in subsistence populations with limited access to public health infrastructure. To better characterize human...

Robot Control Gestures (RoCoG)

Celso De Melo, Brandon Rothrock, Prudhvi Gurram, Oytun Ulutan & B.S. Manjunath
Building successful collaboration between humans and robots requires efficient, effective, and natural communication. This dataset supports the study of RGB-based deep learning models for controlling robots through gestures (e.g., “follow me”). To address the challenge of collecting high-quality annotated data from human subjects, synthetic data was considered for this domain. This dataset of gestures includes real videos with human subjects and synthetic videos from our custom simulator. This dataset can be used as a benchmark...

Depth dependent azimuthal anisotropy beneath the Juan de Fuca plate system

Zachary Eilon & Donald Forsyth
We use surface wave measurements to reveal anisotropy as a function of depth within the Juan de Fuca and Gorda plate system. Using a two-plane wave method, we measure phase velocity and azimuthal anisotropy of fundamental mode Rayleigh waves, solving for anisotropic shear velocity. These surface wave measurements are jointly inverted with constraints from shear wave splitting studies using a Markov chain approach.

Land use change in California, 2001-2100

Keith Clarke & Michael Johnson
The SLEUTH urbanization and land use change model was used to produce century-long forecasts of California’s land uses to the year 2100. We describe how data were assembled and conflated for the model, how the model was applied to the very large and high resolution dataset, and how calibration of the model was performed using a genetic algorithm. The calibration results showed that the model accuracy was high, and suitable for simulations, which used Monte...

Data from: Hypoxia tolerance is unrelated to swimming metabolism of wild, juvenile striped bass (Morone saxatilis)

Krista Kraskura & Jay Nelson
Juvenile striped bass reside in the Chesapeake Bay where they are likely to encounter hypoxia that could affect their metabolism and performance. The ecological success of this economically valuable species may depend on their ability to tolerate hypoxia and perform fitness-dependent activities in hypoxic waters. We tested whether there is a link between hypoxia tolerance (HT) and oxygen consumption rate (MO2) of juvenile striped bass measured while swimming in normoxic and hypoxic water, and to...

Registration Year

  • 2020

Resource Types

  • Dataset
  • Output Management Plan
  • Text


  • University of California, Santa Barbara
  • University of California, Santa Cruz
  • University of Hawaii at Manoa
  • California State University Los Angeles
  • Chapman University
  • Washington State University
  • Stanford University
  • Oregon State University
  • University of California, San Diego
  • University of Florida