147 Works

Alpine wet meadows: soil properties’ effect on plant diversity

Madeline Castro, Fidel Machado-Perez & Rebecca Raven
Alpine ecosystems are a harsh environment with little nutrients and the abiotic effect that the soil has on the plant community is relatively unknown. The focus of this study is to illuminate the role that soils play in the plant diversity of alpine wet meadows. In doing so we investigated the function of clay and root content, organic matter, pH and soil moisture in determining plant diversity in three meadows in the White Mountains, California....

Data for analysis of snowmelt timing as a determinant of inflow mixing in Lake Tahoe

Derek Roberts, Shohei Watanabe & S. Geoffrey Schladow
This dataset includes data files pertinent to the manuscript, "Snowmelting timing as a determinant of inflow mixing," accepted for publication in Water Resources Research in January 2018. Included data were used for an analysis of relative stream-lake conditions as they pertain to winter climate conditions and the subsequent mixing of snowmelt inflows into the lake. Included with each of the six files listed below is a [FILENAME]_Reference.txt file with details on data collection, curation, and...

Human-wildlife interactions in Anza-Borrego Desert State Park

Ninfa Negrete, Sara Ramirez & Robert Wong
Transportation infrastructure, such as roads and highways, supports human activity but negatively affect wildlife habitat, populations, and entire ecosystems (Bennet et. al 2011). As road networks continue to expand, animals lose habitat and are confined to isolated fragments, with the possibility of being enclosed by roads. Road effects like habitat fragmentation is not well known in state parks. This study aims to examine some of the effects of road disturbance on wildlife in the Anza-Borrego...

SNRS - Yosemite Field Station

Information Manager UCNRS
MISSION STATEMENT: The UC Natural Reserve System is a network of protected natural areas throughout California. Its 39 sites include more than 756,000 acres, making it the largest university-administered reserve system in the world. Most major state ecosystems are represented, from coastal tidepools to inland deserts, and lush wetlands to Sierra Nevada forests. The reserves also serve as a gateway to more than a million acres of public lands. Founded in 1965 to provide undisturbed...

Images of individual strawberries (entire fruit, flesh and calyx) with contrasting background

Adrien Durand-Petiteville, Stavros Vougioukas, David Slaughter & Dennis Sadowski
This database contains images of 258 individual strawberries with dark background (a setting typically encountered during post-harvest operations). For each strawberry, six images are provided: 1) a color image of the entire strawberry; 2) a color image containing only the calyx of the strawberry; 3) a color image containing only the flesh of the strawberry; 4) a binary image of the entire strawberry; 5) a binary image of the calyx, and 6) a binary image...

Cutting-edge meadows: The effect of meadow edges and orientation on plant community dynamics

Julie Adriana Barrios, Mary De Aquino, Joseph Francis Di Liberto & Daniel Melnick
Ecological communities are thought to be homogenous throughout their discrete habitats however “edge effects” and the factors that influence them have been known to change species richness and composition on these border regions. In this study, we analyzed the effect of a possible driver of this variation-orientation-on species richness and composition while moving away from habitat edges. To do so, we measured richness and composition along transects in each of the four cardinal directions in...

Black-tailed deer and what they fear: vigilance responses to predator vocalizations as a window into current and historical predation pressure

Bryce Ahn, Marisol Morales, Ian Perrett, Mika Post, Francis Ulep & Yunqing Sara Ye
Predation is a potent ecological and evolutionary force, shaping the behavior of animals to minimize risk. Behavior itself can therefore provide clues into the predation pressure experienced by a population. We investigated anti-predator vigilance behavior in a California coastal population of black-tailed deer in response to vocal cues from three predator species of varying current and historical risk: grey wolf, coyote, and red-tail hawk. Vigilance was measured as the proportion of a herd alerting to...

Emerson Oaks Reserve

Information Manager UCNRS
MISSION STATEMENT: The UC Natural Reserve System is a network of protected natural areas throughout California. Its 39 sites include more than 756,000 acres, making it the largest university-administered reserve system in the world. Most major state ecosystems are represented, from coastal tidepools to inland deserts, and lush wetlands to Sierra Nevada forests. The reserves also serve as a gateway to more than a million acres of public lands. Founded in 1965 to provide undisturbed...

McLaughlin Natural Reserve

Information Manager UCNRS
MISSION STATEMENT: The UC Natural Reserve System is a network of protected natural areas throughout California. Its 39 sites include more than 756,000 acres, making it the largest university-administered reserve system in the world. Most major state ecosystems are represented, from coastal tidepools to inland deserts, and lush wetlands to Sierra Nevada forests. The reserves also serve as a gateway to more than a million acres of public lands. Founded in 1965 to provide undisturbed...

INCREASING CORAL RESILIENCE TO BLEACHING THROUGH MICROBIOME MANIPULATION

Raquel Peixoto, Phillipe Rosado, Deborah Leite, Gustavo Duarte, Ricardo Chaloub, Guillaume Jospin, Jonathan Eisen, David Bourne, Ulisses Da Rocha, João Saraiva & Francisco Dini-Andreote
Although the early coral reef-bleaching warning system (NOAA/USA) is established, there is no feasible treatment that can minimize temperature bleaching and/or disease impacts on corals in the field. Here, we present the first attempts to extrapolate the widespread and well-established use of bacterial consortia to protect or improve health in other organisms (e.g., humans and plants) to corals. Manipulation of the coral-associated microbiome was facilitated through addition of a consortium of native (isolated from Pocillopora...

Metagenome-assembled genomes (MAG's) from two thermal pools in Uzon Caldera, Kamchatka, Russia

Cassandra Ettinger, Laetitia Wilkins, Guillaume Jospin & Jonathan Eisen
In this study we focus on two hydrothermal pools, Arkashin Shurf and Zavarzin Spring, in Uzon Caldera, Kamchatka, Russia that were previously characterized using 16S ribosomal RNA sequencing and geochemical analysis undertaken in Burgess et al. 2012 (DOI: 10.1007/s00248-011-9979-4). First we produced metagenome-assembled genomes (MAGs) and then we characterized and compared them between the two pools. Raw metagenomic reads were deposited on NCBI’s GenBank under BioProject ID PRJNA419931 and BioSample IDs SAMN08105301 and SAMN08105287; i.e.,...

Benthic macroinvertebrates in Marin County streams: species richness is lower near human infrastructure

Alice Beittel, Madeline Hale, Caitlin Loeffler, Tanvi Mamtora & Natalia Mushegian
Streams and rivers represent less than 0.0001% of the planet's water, but are support up to 10% of its biological diversity and are fundamental to human life. As sources of drinking water, transportation, recreation, and energy, streams are both highly valuable and highly vulnerable to us. Humans have obvious imperative to protect stream ecosystems, but many effects are likely to be unintentional and unseen, incidental to our existing in a place. We sampled stream macroinvertebrate...

Vibrational Neutron Scattering Spectra for Undoped and Doped P3HT

Thomas Harrelson, Jun Li & Adam Moule
Doped semiconducting polymers have garnered vast research interest in photovoltaic, transistor, thermoelectric, and sensor applications. P3HT is a canonical semiconducting polymer that self-assembles into a mixture of crystalline and amorphous domains. Doping P3HT can increase the observed conductivity by several orders of magnitude. The vibrations of the polymer are sensitive to the local morphology of the film, and the morphology of the film changes upon doping. Vibrational neutron spectroscopy is a method for identifying vibrational...

Signatures of Environmental Adaptation During Range Expansion of Wild Common Bean (Phaseolus vulgaris)

Paul Gepts & Paul Gepts
Landscape genomics integrates population genetics with landscape ecology, allowing the identification of putative molecular determinants involved in environmental adaptation across the natural geographic and ecological range of populations. Wild Phaseolus vulgaris, the progenitor of common bean (P. vulgaris), has a remarkably extended distribution over 10,000 km from northern Mexico to northwestern Argentina. Earlier research has shown that this distribution represents a range expansion from Mesoamerica to the southern Andes through several discrete migration events and...

Measurement and modeling of the multi-wavelength optical properties of uncoated flame-generated soot: Data from the BC2, BC3, BC3+ and BC4 studies

Sara Forestieri & Christopher Cappa
Optical properties of flame-generated black carbon (BC) containing soot particles were quantified at multiple wavelengths during the BC2, BC3, BC3+ and BC4 campaigns. The particles were produced using two different flames, either an ethylene premixed flame (sampled at multiple heights above the flame front) or a methane diffusion flame. Measurements were made both for size-selected nascent soot particles and for particles that were coated (with either dioctyl sebacate, sulfuric acid or secondary organic aerosol) and...

Heterotrophic N2-fixation contributes to nitrogen economy of a common wetland sedge, Schoenoplectus californicus

Eliska Rejmankova, Dagmara Sirova, Stephanie Castle, Jiri Barta & Heather Carpenter
These data sets document environmental characteristics of sampling locations of Schoenoplectus californicus, california bulrush, throughout its range in the Americas. In addition, the data on nif gene in rhizomes and roots of Schoenoplectus are provided.

Temperature-Dependent Dynamics of Molecular Dopant in Conjugated Polymer

Jun Li, Tucker Murrey, Souleymane Diallo & Adam Moule
Understanding the nature of dopant dynamics in the solid state is critical for improving the longevity and stability of organic electronic devices and for optimizing the dopinginduced solubility control (DISC) patterning method. In this work, we use quasi-elastic neutron scattering (QENS) to study the dynamics of the soluble p-type molecular dopant tetrafluoromethyloxycarbonyltricyanoquinodimethane (F4MCTCNQ) in the semiconductive polymer poly(3-hexylthiophene-2,5-diyl) (P3HT). Specifically, fast dynamics (ps−ns) of the dopant, such as the methyl and the methoxycarbonyl group rotations,...

San Joaquin Marsh Reserve

Information Manager UCNRS
MISSION STATEMENT: The UC Natural Reserve System is a network of protected natural areas throughout California. Its 39 sites include more than 756,000 acres, making it the largest university-administered reserve system in the world. Most major state ecosystems are represented, from coastal tidepools to inland deserts, and lush wetlands to Sierra Nevada forests. The reserves also serve as a gateway to more than a million acres of public lands. Founded in 1965 to provide undisturbed...

Defining hydrogel properties to instruct lineage- and cell-specific mesenchymal differentiation

Kent Leach
The maintenance and direction of stem cell lineage after implantation remains challenging for clinical translation. Aggregation and encapsulation into instructive biomaterials after preconditioning can bolster retention of differentiated phenotypes. Since these procedures do not depend on cell type or lineage, we hypothesized we could use a common, tunable platform to engineer formulations that retain and enhance multiple lineages from different cell populations. To test this, we varied alginate stiffness and adhesive ligand content, then encapsulated...

Falk et al Plot Data

Adele Igel, Nicholas Falk & Matthew Igel
Plot data for Falk et al 2019. Falk, N. M., A. L. Igel and M. R. Igel, 2019: The Relative Impact of Ice Fall Speeds and Microphysics Parameterization Complexity on Supercell Evolution. Monthly Weather Review https://doi.org/10.1175/MWR-D-18-0417.1

Bacteria isolated from bengal cat (Felis catus × Prionailurus bengalensis) anal sac secretions produce volatile compounds associated with animal signaling

Mei Yamaguchi, Guillaume Jospin, Holly Ganz, David Coil, Jonathan Eisen, Adrienne Cho, Thant Zaw, Mitchell McCartney & Cristina Davis
Anal sacs are an important odor producing organ found across the mammalian Order Carnivora. Secretions from the anal sac may be used as chemical signals by animals for behaviors ranging from defense to species recognition to signaling reproductive status. In addition, a recent study suggests that domestic cats utilize short-chain free fatty acids in anal sac secretions for individual recognition. The fermentation hypothesis is the idea that symbiotic microorganisms living in association with animals contribute...

Genetic Patterns of Common-Bean Seed Acquisition and Early-stage Adoption among Farmer Groups in Western Uganda

Paul Gepts, Erin Wilkus, Jorge Carlos Berny Mier Y Teran, Clare Mukankusi, Saarah Kuzaay & Paige Hamilton-Conaty
Widespread adoption of new varieties can be valuable, especially in developing countries, which tend to lack access to improved agricultural production technologies. However, as farmers adopt new varieties, in situ population structure and genetic diversity of their seed holdings can change drastically. Consequences of adoption are still poorly understood due to a lack of crop genetic diversity assessments and detailed surveys of farmers’ seed management practices. Common bean (Phaseolus vulgaris) is an excellent model for...

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