78 Works

ASHRAE global database of thermal comfort field measurements

Thomas Parkinson, Federico Tartarini, Veronika Földváry Ličina, Toby Cheung, Hui Zhang, Richard De Dear, Peixian Li, Edward Arens, Chungyoon Chun, Stefano Schiavon, Maohui Luo & Gail Brager
Recognizing the value of open-source research databases in advancing the art and science of HVAC, in 2014 the ASHRAE Global Thermal Comfort Database II project was launched under the leadership of University of California at Berkeley’s Center for the Built Environment and The University of Sydney’s Indoor Environmental Quality (IEQ) Laboratory. The ASHRAE Global Thermal Comfort Database II (as it is known) is intended to support diverse inquiries about thermal comfort in field settings. The...

Data from: Ecological specialization, variability in activity patterns, and response to environmental change

Talisin T. Hammond, Rupert Palme & Eileen A. Lacey
Differences in temporal patterns of activity can modulate the ambient conditions to which organisms are exposed, providing an important mechanism for responding to environmental change. Such differences may be particularly relevant to ecological generalists, which are expected to encounter a wider range of environmental conditions. Here, we compare temporal patterns of activity for partially sympatric populations of a generalist (the lodgepole chipmunk, Tamias speciosus) and a more specialized congener (the alpine chipmunk, T. alpinus) that...

Data from: Scale-dependent variation in nitrogen cycling and soil fungal communities along gradients of forest composition and age in regenerating tropical dry forests

Bonnie G. Waring, Rachel Adams, Sara Branco & Jennifer S. Powers
Rates of ecosystem nitrogen (N) cycling may be mediated by the presence of ectomycorrhizal fungi, which compete directly with free‐living microbes for N. In the regenerating tropical dry forests of Central America, the distribution of ectomycorrhizal trees is affected by succession and soil parent material, both of which may exert independent influence over soil N fluxes. In order to quantify these interacting controls, we used a scale‐explicit sampling strategy to examine soil N cycling at...

Videos of Etching Gold Nanocubes and Nanorhombic Dodecahedra in Graphene Liquid Cell Transmission Electron Microscopy

Matthew Hauwiller, Justin Ondry & A. Paul Alivisatos
Liquid cell Transmission Electron Microscopy (TEM) provides the opportunity to view nanocrystal dynamics in their native liquid environment with the necessary spatial resolution. In this dataset, gold nanocubes and nano-rhombic dodecahedra are etched inside graphene liquid cells while viewing using TEM. The initial gold nanocrystals are synthesized and then loaded in water pockets sandwiched between sheets of graphene. These graphene pockets protect the liquid from the vacuum of the TEM column while not preventing the...

Data from: Legume abundance along successional and rainfall gradients in neotropical forests

Maga Gei, Danaë M. A. Rozendaal, Lourens Poorter, Frans Bongers, Janet I. Sprent, Mira D. Garner, T. Mitchell Aide, José Luis Andrade, Patricia Balvanera, Justin M. Becknell, Pedro H.S. Brancalion, George A. L. Cabral, Ricardo Gomes César, Robin L. Chazdon, Rebecca J. Cole, Gabriel Dalla Colletta, Ben De Jong, Julie S. Denslow, Daisy H. Dent, Saara J. DeWalt, Juan Manuel Dupuy, Sandra M. Durán, Mário Marcos Do Espírito Santo, G. Wilson Fernandes, Yule Roberta Ferreira Nunes … & Jennifer S. Powers
The nutrient demands of regrowing tropical forests are partly satisfied by nitrogen (N)-fixing legume trees, but our understanding of the abundance of those species is biased towards wet tropical regions. Here we show how the abundance of Leguminosae is affected by both recovery from disturbance and large-scale rainfall gradients through a synthesis of forest-inventory plots from a network of 42 Neotropical forest chronosequences. During the first three decades of natural forest regeneration, legume basal area...

Berkeley High Resolution (BEHR) OMI NO2 - Native pixels, monthly profiles

Joshua Laughner, Qindan Zhu & Ronald Cohen
The BEHR OMI NO2 product reprocesses tropospheric NO2 columns from the Ozone Monitoring Instrument (OMI) satellite using high resolution a priori NO2 profiles, surface reflectivity, and surface elevation data. This product uses NO2 profiles for the day retrieved, simulated by the WRF-Chem model at 12 km spatial resolution. The use of high spatial resolution NO2 profiles has been shown to better resolve urban/rural differences in NO2 column densities, and the use of day-to-day (rather than...

Detailed experimental investigation of air speed field induced by ceiling fans

Shou Liu, Aleksandra Lipczynska, Stefano Schiavon & Edward Arens
Comfort cooling by ceiling fans is cost-effective and energy-efficient compared to compressor-based cooling and fans are commonly used in tropical and subtropical countries. There are however limited data and design tools supporting the design of fan systems, especially for situations where there are multiple fans. In this study, we investigate airflow profiles induced by a single fan and multiple fans using high spatial resolution air speed measurements (5,760 and 20,160 measuring points for the two...

Data from: Scaling up DNA barcoding - primer sets for simple and cost efficient arthropod systematics by multiplex PCR and Illumina amplicon sequencing

Henrik Krehenwinkel, Susan R. Kennedy, Alexandra Rueda, Athena Lam & Rosemary G. Gillespie
1. The simplicity and cost efficiency of Illumina amplicon sequencing has greatly contributed to the advancement of DNA barcoding and metabarcoding applications. However, current amplicon sequencing based barcoding approaches are usually restricted to short, single-locus fragments, limiting their taxonomic and phylogenetic resolution. 2. Here, we establish a cost efficient and simple multiplex PCR protocol for arthropod systematics by Illumina amplicon sequencing. We introduce primer sets, including several new, generic primers, to reliably amplify nine loci...

Data for Cold adaptation does not alter ATP homeostasis during cold exposure in Drosophila melanogaster

Caroline Williams
Data and analysis scripts for Williams et al. 2018 Integrative Zoology:

Data from: Synopsis and taxonomic revision of three genera in the snake tribe Sonorini

Christian L. Cox, Alison R. Davis Rabosky, Iris A. Holmes, Jacobo Reyes-Velasco, Corey E. Roelke, Eric N. Smith, Oscar Flores-Villel, Jimmy A. McGuire & Jonathan A. Campbell
Delimiting species is a crucial goal of integrative biology, and yet can be misled by homoplasy and high levels of morphological variation. The snake tribe Sonorini contains three genera that have long confounded taxonomists: Chilomeniscus, Chionactis and Sonora. Dynamic colour evolution in this group, including rampant geographic variation in colour and colour polymorphism, has led to a chaotic taxonomy. We used mitochondrial and high-throughput nuclear data (ddRADseq) and complete taxonomic sampling of each genus to...

Data from: A genotypic trade-off between constitutive resistance to viral infection and host growth rate

Lewis J. Bartlett, Lena Wilfert & Mike Boots
Genotypic trade-offs are fundamental to the understanding of the evolution of life-history traits. In particular, the evolution of optimal host defence and the maintenance of variation in defence against infectious disease is thought to be underpinned by such evolutionary trade-offs. However, empirical demonstrations of these trade-offs that satisfy the strict assumptions made by theoretical models are rare. Additionally, none of these trade-offs have yet been shown to be robustly replicable using a variety of different...

Interview Proceedings with Delbert Anderson

Hunter Hall
The following are the proceedings of an interview between Hunter Hall (interviewer) and Delbert Anderson (interviewee). The text has been transcribed from email to this document for legibility. The interview occurred on May 3rd, 2018 and was conducted with intentions to use as primary evidence for Hall’s final paper due for the Music R1B (Spring 2018) course at the University of California, Berkeley.

Data from: Moving like a model: mimicry of hymenopteran flight trajectories by clearwing moths of Southeast Asian rainforests

Marta A. Skowron Volponi, Donald James McLean, Paolo Volponi & Robert Dudley
Clearwing moths are known for their physical resemblance to hymenopterans, but the extent of their behavioural mimicry is unknown. We describe zigzag flights of sesiid bee mimics which are nearly indistinguishable from those of sympatric bees, whereas sesiid wasp mimics display faster, straighter flights more akin to those of wasps. In particular, the flight of the sesiids Heterosphecia pahangensis, Aschistophleps argentifasciata and Pyrophleps cruentata resembles both Tetragonilla collina and T. atripes stingless bees and, to...

Data from: Opening the file drawer: Unexpected insights from a chytrid infection experiment

Allison Q. Byrne, Thomas J. Poorten, Jamie Voyles, Craig K.R. Willis, Erica Bree Rosenblum & Craig K. R. Willis
Infection experiments are critical for understanding wildlife disease dynamics. Although infection experiments are typically designed to reduce complexity, disease outcomes still result from complex interactions between host, pathogen, and environmental factors. Cryptic variation across factors can lead to decreased repeatability of infection experiments within and between research groups and hinder research progress. Furthermore, studies with unexpected results are often relegated to the “file drawer” and potential insights gained from these experimental outcomes are lost. Here,...

Berkeley High Resolution (BEHR) OMI NO2 - Gridded pixels, monthly profiles

Joshua Laughner, Qindan Zhu & Ronald Cohen
The BEHR OMI NO2 product reprocesses tropospheric NO2 columns from the Ozone Monitoring Instrument (OMI) satellite using high resolution a priori NO2 profiles, surface reflectivity, and surface elevation data. This product uses NO2 profiles for the day retrieved, simulated by the WRF-Chem model at 12 km spatial resolution. The use of high spatial resolution NO2 profiles has been shown to better resolve urban/rural differences in NO2 column densities, and the use of day-to-day (rather than...

Data from: Pleistocene diversification in an ancient lineage: a role for glacial cycles in the evolutionary history of Dioon Lindl. (Zamiaceae).

Brian L. Dorsey, Timothy J Gregory, Chodon Sass & Chelsea D. Specht
Premise of the study: Recent estimates of crown ages for cycad genera (Late Miocene) challenge us to consider what processes have produced the extant diversity of this ancient group in such relatively little time. Pleistocene climate change has driven major shifts in species distributions in Mexico and may have led to speciation in the genus Dioon by forcing populations to migrate up in elevation thereby becoming separated by topography. Methods: We inferred orthologs from transcriptomes...

Climate, snow, and soil moisture data set for the Tuolumne and Merced River watersheds, California, USA

James Roche, Robert Rice, Xiande Meng, Daniel Cayan, Mike Dettinger, Douglas Alden, Sarina Patel, Megan Mason, Martha Conklin & Roger Bales
UCM sites. Snow depth, soil moisture and soil temperature are measured near the Merced Grove, Gin Flat, Smoky Jack Creek, and Olmsted Quarry with a distributed array of 6-7 sensor nodes at each location. Snow depth is measured in the open, at the drip edge and under canopies, as well as 3-4 other sites representative of an area of 1-2 hectares. Soil moisture and temperature are measured at 10, 30, 60 and 90 cm depths...

Web Scale Discovery and Resource Usage at the University of California, Berkeley

Lisa Ngo, Ian Knabe & Cody Hennesy
Dataset contains monthly usage data for select ejournal platforms, ebook platforms, and abstract & indexing databases at UC Berkeley from July 2013 through June 2017.

Data from: Dense infraspecific sampling reveals rapid and independent trajectories of plastome degradation in a heterotrophic orchid complex

Craig F. Barrett, Susann Wicke & Chodon Sass
Heterotrophic plants provide excellent opportunities to study the effects of altered selective regimes on genome evolution. Plastid genome (plastome) studies in heterotrophic plants are often based on one or a few highly divergent species or sequences as representatives of an entire lineage, thus missing important evolutionary-transitory events. Here we present the first infraspecific analysis of plastome evolution in any heterotrophic plant. By combining genome skimming and targeted sequence capture, we address hypotheses on the degree...

Data from: Valuable habitat and low deforestation can reduce biodiversity gains from development rights markets

Kate J. Helmstedt & Matthew D. Potts
1. Illegal private land deforestation threatens global biodiversity, even in areas with native habitat requirements stipulated by law. Compliance can be improved by allowing landholders to meet legal reserve requirements by buying and selling the rights to have deforested land through a Tradeable Development Rights system (TDR). While this policy mechanism may prevent native habitat area loss, the spatial pattern of reserved areas will shift, creating novel landscape patterns. The resulting altered fragmentation and connectivity...

Data from: Consumption of carotenoids not increased by bacterial infection in brown trout embryos (Salmo trutta)

Lucas Marques Da Cunha, Laetitia G.E. Wilkins, Laure Menin, Daniel Ortitz, Véronique Vocat-Mottier, Claus Wedekind & Laetitia G. E. Wilkins
Carotenoids are organic pigment molecules that play important roles in signalling, control of oxidative stress, and immunity. Fish allocate carotenoids to their eggs, which gives them the typical yellow to red colouration and supports their resistance against microbial infections. However, it is still unclear whether carotenoids act mainly as a shield against infection or are used up during the embryos' immune defence. We investigated this question with experimental families produced from wild-caught brown trout (Salmo...

Data from: Origins of East Asian Summer Monsoon Seasonality

John Chiang, Wenwen Kong, Chi-Hua Wu & David Battisti
Climatological model output used in Chiang et al. (2019), "Origins of East Asian Summer Monsoon Seasonality".

3D attenuation model of Long Valley Caldera (CA)

Janire Prudencio & Michael Manga
Unrest at Long Valley caldera, California has been attributed to magma recharge or the ascent of hydrothermal fluids. The difference is critical for assessing volcanic hazard. To better constrain subsurface structures in the upper crust and to help distinguish between these two competing hypotheses for the origin of unrest, we model the 3D seismic attenuation structure by analyzing more than 47000 vertical waveforms with the coda normalization method. We identify high attenuation anomalies in the...

Directed Evolution of AAV for Efficient Gene Delivery to Canine and Primate Retina - Raw counts of variants from deep sequencing

Leah Byrne, Timothy Day, Meike Visel, Deniz Dalkara, Valerie Dufour, Felipe Pompeo Marinho, William Merigan, Gustavo Aguirre, William Beltran, David Schaffer & John Flannery
Efficient AAV-mediated gene delivery remains a significant obstacle to effective retinal gene therapies. Here, we apply the process of directed evolution – guided by deep sequencing and followed by direct in vivo secondary selection of high-performing vectors with a GFP-barcoded library – to create AAV viral capsids with new capabilities to deliver genes to the outer retina in large animals. The resulting vectors resulted in efficient targeting of photoreceptors, bipolar cells, and RPE cells in...

Data from: Collective behavior and colony persistence of social spiders depends on their physical environment

Ambika Kamath, Skylar D. Primavera, Colin M. Wright, Grant N. Doering, Kirsten A. Sheehy, Noa Pinter-Wollman & Jonathan N. Pruitt
The physical environment occupied by group-living animals can profoundly affect their cooperative social interactions and therefore their collective behavior and success. These effects can be especially apparent in human-modified habitats, which often harbor substantial variation in the physical environments available within them. For nest-building animal societies, this influence of the physical environment on collective behavior can be mediated by the construction of nests—nests could either buffer animal behavior from changes in the physical environment or...

Registration Year

  • 2018

Resource Types

  • Dataset


  • University of California, Berkeley
  • University of Minnesota
  • University of Washington
  • Columbia University
  • University of California System
  • Museum of Vertebrate Zoology
  • Dayton Foundation
  • Cornell University
  • Stanford University
  • University of California, San Diego