295 Works

0 ns and 75 ns configurations of glycosylated ACE2-FC and its interaction with SARS-CoV-2 binding domains

Roland Faller, Austen Bernardi, Yihan Huang, Bradley Harris, Yongao Xiong, Somen Nandi & Karen McDonald
These are initial and final (75ns) configurations in PDB format of glycosylated ACE2-FC fusion proteins which are promising targets for a COVID-19 therapeutic. Some of them are in interaction witha fragment of the receptor-binding domain (RBD) of the Spike Protein S of the SARS-CoV-2 virus. We used two glycosylation variants for ACE2-FC, variant 1 is fully glycosylated with Man8 glycans, variant 2 is fully glycosylated with GnGnXF3. The Spike RBD is glycosylated with ANaF^6.

Oral Regeneration Is the Default Pathway Triggered by Injury in Hydra

Jack Cazet & Celina Juliano
In animals capable of whole-body regeneration, a single bisection injury can trigger two different types of regeneration. Currently, it is not well understood how this adaptive response is transcriptionally regulated. We therefore comprehensively characterized transcript abundance and chromatin accessibility during two types of regeneration—oral and aboral regeneration—in the cnidarian Hydra vulgaris. We found that there was an initial generalized response to injury that was not dependent on the type of structure being regenerated. Canonical Wnt...

Delimitation of tribes in the subfamily Leptanillinae (Hymenoptera: Formicidae), with a description of the male of Protanilla lini Terayama, 2009

Zachary Griebenow
The subfamily Leptanillinae Emery, 1910 (Hymenoptera, Formicidae) is a clade of cryptic subterranean ants, which is restricted to the tropics and warm temperate regions of the Old World. Due to acquisition bias against the minute and hypogaeic workers, most known leptanilline specimens are male, with four genera described solely from males. The sexes have been associated in only two out of 68 described species, meaning that redundant naming of taxa is likely. Herein the phylogeny...

Data from: Taxonomic revision of the New World members of the Trapdoor spider genus Ummidia Thorell (Araneae,: Mygalomorphae,: Halonoproctidae )

Rebecca Godwin & Jason Bond
This study documents a comprehensive taxonomic treatment of the New World Ummidia species. At the onset of this work the genus comprised 27 species and one subspecies with a cosmopolitan distribution that includes North America, South America, Asia, Northern Africa, and Europe; of these species the majority of the nominal diversity can be attributed to the New World where 20 species have been previously described. Ummidia oaxacana (Chamberlin, 1925) is considered a nomen dubium; U....

Recent bark beetle outbreaks influence wildfire severity in mixed-conifer forests of the Sierra Nevada, California, USA

Rebecca Wayman & Hugh Safford
In temperate forests, elevated frequency of drought related disturbances will likely increase the incidence of interactions between disturbances such as bark beetle epidemics and wildfires. Our understanding of the influence of recent drought and insect-induced tree mortality on wildfire severity has largely lacked information from forests adapted to frequent fire. A recent unprecedented tree mortality event in California’s Sierra Nevada provides an opportunity to examine this disturbance interaction in historically frequent-fire forests. Using field data...

Data from: Ectothermy and the macroecology of home range scaling in snakes

Brian Todd & Aaron Nowakowski
Aim: A central question in ecology has been that of why animal home ranges scale more steeply with body size than do metabolic rates. Yet, the generality of this notion has scarcely been tested in non-model species like ectotherms, which have lower metabolic requirements than endotherms and which may therefore have different home range area requirements. Our aim was to examine how home range area scales with body size in snakes and to shed light...

Data for: Environmentally-driven escalation of host egg-rejection decimates success of an avian brood parasite

John Eadie & Bruce Lyon
The black-headed duck (Heteronetta atricapilla) of South America is the only known avian obligate brood parasite with precocial offspring. In Argentina, it relies on two species of coots as primary hosts, which typically reject 35-65% of duck eggs. We show that environmentally-driven increases in host egg-rejection behavior lead to substantial reductions in the reproductive success of the brood parasite. Episodes of flooding and vegetation loss caused dramatic shifts in host egg rejection behavior, resulting in...

Rancho Seco vernal pool community data

Julia Michaels
Disturbance often increases local-scale (α) diversity by suppressing dominant competitors. However, widespread disturbances may also reduce biotic heterogeneity (β diversity) by making the identities and abundances of species more similar among patches. Landscape-scale (γ) diversity may also decline if disturbance-sensitive species are lost. California’s vernal pool plant communities are species-rich due in part to two scales of β diversity: (1) within pools, as species composition changes with depth (referred to here as vertical β diversity),...

Factors affecting acorn predation and infestation in three California oaks

Nicolette Balmaceda, Jovana Durovic, Sierra Montes & Kyler Plouffe
Oak woodlands are in decline due to failed oak recruitment in California. Oak recruitment is heavily impacted by vertebrate herbivory and insect infestation of acorns. Oaks have developed chemical defenses such as tannins to protect acorns from attack. Studies have explored infestation differences in red oaks but have not compared infestation between red oaks and white oaks. We explored how Cydia latiferreana (filbertworm) infestation, Curculio occidentalis (filbert weevil) infestation, and Sciurus griseus nigripes (western gray...

Catastrophes, connectivity and Allee effects in the design of marine reserve networks

Easton White, Marissa Baskett & Alan Hastings
Catastrophic events, like oil spills and hurricanes, occur in many marine systems. One potential role of marine reserves is buffering populations against disturbances, including the potential for disturbance-driven population collapses under Allee effects. This buffering capacity depends on reserves in a network providing rescue effects, setting up a trade-off where reserves need to be connected to facilitate rescue, but also distributed in space to prevent simultaneous extinction. We use a set of population models to...

Data from: A phylogeny for the Drosophila montium species group: a model clade for comparative analyses

William Conner, Emily Delaney, Michael Bronski, Paul Ginsberg, Timothy Wheeler, Kelly Richardson, Brooke Peckenpaugh, Kevin Kim, Masayoshi Watada, Ary Hoffmann, Michael Eisen, Artyom Kopp, Brandon Cooper & Michael Turelli
The Drosophila montium species group is a clade of 94 named species closely related to the model D. melanogaster species group. The montium species group is distributed over a broad geographic range throughout Asia, Africa, and Australasia. Species of this group possess a wide range of morphologies, mating behaviors, and endosymbiont associations, making this clade useful for comparative analyses. We use genomic data from 42 available species to estimate the phylogeny and relative divergence times...

Data and Supplemental Material from: A multifunction trade-off has contrasting effects on the evolution of form and function

Katherine Corn, Christopher Martinez, Edward Burress & Peter Wainwright
Trade-offs caused by the use of an anatomical apparatus for more than one function are thought to be an important constraint on evolution. However, whether multifunctionality suppresses diversification of biomechanical systems is challenged by recent literature showing that traits more closely tied to trade-offs evolve more rapidly. We contrast the evolutionary dynamics of feeding mechanics and morphology between fishes that exclusively capture prey with suction and multifunctional species that augment this mechanism with biting behaviors...

Physiology trait and growing region climate data compiled from the literature for 34 wine grape cultivars

Megan Bartlett & Gabriela Sinclair
Selection for crop cultivars has largely focused on reproductive traits, while the impacts of global change on crop productivity are expected to depend strongly on the vegetative physiology traits that drive plant resource use and stress tolerance. We evaluated relationships between physiology traits and growing season climate across winegrape cultivars to characterize trait variation across growing regions and elucidate the mechanisms that adapted grapevines to hot, dry conditions. We compiled values from the literature for...

CO2-Forced Climate and Vegetation Instability During Late Paleozoic Deglaciation

Jon Richey, Isabel Montañez, Yves Goddéris, Cindy Looy, Neil Griffis & William DiMichele
This dataset contains the primary data used as input parameters in a mechanistic stomatal CO2 model (Franks et al., 2014 (Geophysical Research Letters)) and the Paleosol Barometer Uncertainty Quantifier (i.e., PBUQ; Breecker, 2013 (Geochemistry, Geophysics, Geosystems)), as well as age-adjusted CO2 data from Montañez et al., 2016 (Nature Geoscience). The stomatal parameters were measured by Richey et al., 2020 (Climate Of The Past) and the paleosol parameters are revised from Montañez et al., 2007 (Science)....

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...

Improve Water Quality in Rural Immigrant Communities. Policy Brief Vol.3, No. 3

Lucia Kaiser Caitlin French

Family Planning Programs Lift Children out of Poverty. Policy Brief Vol. 2, No. 13

Olga Malkova Martha J. Bailey

Low-wage Work Uncertainty often Traps Low-wage Workers. Policy Brief Vo1. 2, No. 9

Brian Halpin Victoria Smith

Nearby Role Models May Lead to Poorer Health. Policy Brief Vol.1, No. 3

Elyse Kovalsky

Private Schools & Public Options Help Predict Which Families Use Vouchers. Policy Brief Vol.1, No.14

Cassandra M.D. Hart

The Supplemental Poverty Measure: A Better Measure for Poverty in America? Policy Brief Vol.1, No.6

Anupama Jacob

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...

Boyd Deep Canyon Desert Research Center

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...

Scripps Coastal 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...

James San Jacinto Mountains 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...

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