17 Works

Data from: Ancient mitochondrial DNA provides high-resolution time scale of the peopling of the Americas

Bastien Llamas, Lars Fehren-Schmitz, Guido Valverde, Julien Soubrier, Swapan Mallick, Nadin Rohland, Susanne Nordenfelt, Cristina Valdiosera, Stephen M. Richards, Adam Rohrlach, Maria Inés Barreto Romero, Isabel Flores Espinoza, Elsa Tomasto Cagigao, Lucía Watson Jiménez, Krzysztof Makowski, Ilán Santiago Leboreiro Reyna, Josefina Mansilla Lory, Julio Alejandro Ballivián Torrez, Mario A. Rivera, Richard L. Burger, Maria Constanza Ceruti, Johan Reinhard, R. Spencer Wells, Gustavo Politis, Calogero M. Santoro … & Wolfgang Haak
The exact timing, route, and process of the initial peopling of the Americas remains uncertain despite much research. Archaeological evidence indicates the presence of humans as far as southern Chile by 14.6 thousand years ago (ka), shortly after the Pleistocene ice sheets blocking access from eastern Beringia began to retreat. Genetic estimates of the timing and route of entry have been constrained by the lack of suitable calibration points and low genetic diversity of Native...

Data from: Resistance in persisting bat populations after white-nose syndrome invasion

Kate E. Langwig, Joseph R. Hoyt, Katy L. Parise, Winifred F. Frick, Jeffrey T. Foster & A. Marm Kilpatrick
Increases in anthropogenic movement have led to a rise in pathogen introductions and the emergence of infectious diseases in naive host communities worldwide. We combined empirical data and mathematical models to examine changes in disease dynamics in little brown bat (Myotis lucifugus) populations following the introduction of the emerging fungal pathogen Pseudogymnoascus destructans, which causes the disease white-nose syndrome. We found that infection intensity was much lower in persisting populations than in declining populations where...

Data from: Historical environment is reflected in modern population genetics and biogeography of an island endemic lizard (Xantusia riversiana reticulata)

Iris A. Holmes, William J. Mautz & Alison R. Davis Rabosky
The restricted distribution and isolation of island endemics often produces unique genetic and phenotypic diversity of conservation interest to management agencies. However, these isolated species, especially those with sensitive life history traits, are at high risk for the adverse effects of genetic drift and habitat degradation by non-native wildlife. Here, we study the population genetic diversity, structure, and stability of a classic “island giant” (Xantusia riversiana, the Island Night Lizard) on San Clemente Island, California...

Data from: The anti-predator role of within-nest emergence synchrony in sea turtle hatchlings

Robson G. Santos, Hudson Tercio Pinheiro, Agnaldo Silva Martins, Pablo Riul, Soraya Christina Bruno, Fredric J. Janzen & Christos C. Ioannou
Group formation is a common behaviour among prey species. In egg-laying animals, despite the various factors that promote intra-clutch variation leading to asynchronous hatching and emergence from nests, synchronous hatching and emergence occurs in many taxa. This synchrony may be adaptive by reducing predation risk, but few data are available in any natural system, even for iconic examples of the anti-predator function of group formation. Here, we show for the first time that increased group...

Data from: Ocean acidification affects fish spawning but not paternity at CO2 seeps

Marco Milazzo, Carlo Cattano, Suzanne H. Alonzo, Andrew Foggo, Michele Gristina, Riccardo Rodolfo-Metalpa, Mauro Sinopoli, Davide Spatafora, Kelly A. Stiver & Jason M. Hall-Spencer
Fish exhibit impaired sensory function and altered behaviour at levels of ocean acidification expected to occur owing to anthropogenic carbon dioxide emissions during this century. We provide the first evidence of the effects of ocean acidification on reproductive behaviour of fish in the wild. Satellite and sneaker male ocellated wrasse (Symphodus ocellatus) compete to fertilize eggs guarded by dominant nesting males. Key mating behaviours such as dominant male courtship and nest defence did not differ...

Data from: Population genomic analyses reveal a history of range expansion and trait evolution across the native and invaded range of yellow starthistle (Centaurea solstitialis)

Brittany S. Barker, Krikor Andonian, Sarah M. Swope, Doug G. Luster & Katrina M. Dlugosch
Identifying sources of genetic variation and reconstructing invasion routes for non-native introduced species is central to understanding the circumstances under which they may evolve increased invasiveness. In this study, we used genome-wide single nucleotide polymorphisms to study the colonization history of Centaurea solstitialis in its native range in Eurasia and invasions into the Americas. We leveraged this information to pinpoint key evolutionary shifts in plant size, a focal trait associated with invasiveness in this species....

Monitoring data from a managed aquifer recharge system that collects stormwater runoff in central coastal California. Precipitation, runoff, infiltration, sediment, survey

Sarah Beganskas & Andrew Fisher
Groundwater is increasingly important for satisfying California’s growing fresh water demand. Strategies like managed aquifer recharge (MAR) can improve groundwater supplies, mitigating the negative consequences of persistent groundwater overdraft. Distributed stormwater collection (DSC) MAR projects collect and infiltrate excess hillslope runoff before it reaches a stream, focusing on 40–400 ha drainage areas (100–1000 ac). We present results from six years of DSC–MAR operation—including high resolution analyses of precipitation, runoff generation, infiltration, and sediment transport—and discuss...

Data from: Body shape transformation along a shared axis of anatomical evolution in labyrinth fishes (Anabantoidei)

David C. Collar, Michelle Quintero, Bernardo Buttler, Andrea B. Ward & Rita S. Mehta
Major morphological transformations, such as the evolution of elongate body shape in vertebrates, punctuate evolutionary history. A fundamental step in understanding the processes that give rise to such transformations is identification of the underlying anatomical changes. But as we demonstrate in this study, important insights can also be gained by comparing these changes to those that occur in ancestral and closely related lineages. In labyrinth fishes (Anabantoidei), rapid evolution of a highly derived torpedo-shaped body...

Data from: Efficacy of a probiotic bacterium to treat bats affected by the disease white-nose syndrome

Tina L. Cheng, Heather Mayberry, Liam P. McGuire, Joseph R. Hoyt, Kate E. Langwig, Hung Nguyen, Katy L. Parise, Jeffrey T. Foster, Craig K. R. Willis, Auston Marm Kilpatrick & Winifred F. Frick
The management of infectious diseases is an important conservation concern for a growing number of wildlife species. However, effective disease control in wildlife is challenging because feasible management options are often lacking. White-nose syndrome (WNS) is an infectious disease of hibernating bats that currently threatens several North American species with extinction. Currently, no effective treatments exist for WNS. We conducted a laboratory experiment to test the efficacy of treatment with Pseudomonas fluorescens, a bacterium that...

The WeAllWalk Data Set

German Flores & Roberto Manduchi
This data set contains time series from inertial sensors carried by blind subjects walking through pre-determined routes In two buildings in the UCSC campus. The sensors include two MetaWear CPRO (obtaining a tri-axial accelerometer and gyroscope) and two iPhone 6 containing try-axial accelerometer, gyroscopes, and magnetometers. This data set is described in the paper: Flores, German, and Roberto Manduchi. "WeAllWalk: An Annotated Data Set of Inertial Sensor Time Series from Blind Walkers", Proceedings of the...

Data from: Spatial patterns of self-recruitment of a coral reef fish in relation to island-scale retention mechanisms

Ricardo Beldade, Sally J. Holbrook, Russell J. Schmitt, Serge Planes & Giacomo Bernardi
Oceanographic features influence the transport and delivery of marine larvae, and physical retention mechanisms, such as eddies, can enhance self-recruitment (i.e. the return of larvae to their natal population). Knowledge of exact locations of hatching (origin) and settlement (arrival) of larvae of reef animals provides a means to compare observed patterns of self-recruitment ‘connectivity’ with those expected from water circulation patterns. Using parentage inference based on multiple sampling years in Moorea, French Polynesia, we describe...

Data from: Phenomenological vs. biophysical models of thermal stress in aquatic eggs

Benjamin T. Martin, Andrew Pike, Sara N. John, Natnael Hamda, Jason Roberts, Steven T. Lindley & Eric M. Danner
Oxygen consumption before hatching of fish embryos as a function of egg sizeThis dataset contains information on the size (radius and volume), experimental temperature, and oxygen consumption rate (micrograms O2/hr) of embryos of 14 species of fish measure before hatching.NfuncRdatabaseFinalTableDRYAD.csv

Data from: Coralline algae in a naturally acidified ecosystem persist by maintaining control of skeletal mineralogy and size

Nicholas A. Kamenos, Gabriela Perna, Maria Cristina Gambi, Fiorenza Micheli & Kristy J. Kroeker
To understand the effects of ocean acidification (OA) on marine calcifiers, the trade-offs among different sublethal responses within individual species and the emergent effects of these trade-offs must be determined in an ecosystem setting. Crustose coralline algae (CCA) provide a model to test the ecological consequences of such sublethal effects as they are important in ecosystem functioning, service provision, carbon cycling and use dissolved inorganic carbon to calcify and photosynthesize. Settlement tiles were placed in...

Data from: Integral Projection Models for host-parasite systems with an application to amphibian chytrid fungus

Mark Q. Wilber, Kate E. Langwig, Auston Marm Kilpatrick, Hamish I. McCallum & Cheryl J. Briggs
Host–parasite models are typically constructed under either a microparasite or macroparasite paradigm. However, this has long been recognized as a false dichotomy because many infectious disease agents, including most fungal pathogens, have attributes of both microparasites and macroparasites. We illustrate how Integral Projection Models (IPMs) provide a novel modelling framework to represent both types of pathogens. We build a simple host–parasite IPM that tracks both the number of susceptible and infected hosts and the distribution...

Data from: Cross-habitat effects shape the ecosystem consequences of co-invasion by a pelagic and a benthic consumer

David C. Fryxell, Amber R. Diluzio, Maya A. Friedman, Nicklaus A. Menge & Eric P. Palkovacs
Invasive species can have major impacts on ecosystems, yet little work has addressed the combined effects of multiple invaders that exploit different habitats. Two common invaders in aquatic systems are pelagic fishes and crayfishes. Pelagic-oriented fish effects are typically strong on the pelagic food web, whereas crayfish effects are strong on the benthic food web. Thus, co-invasion may generate strong ecological responses in both habitats. We tested the effects of co-invasion on experimental pond ecosystems...

Data from: Lineage tracing of human B cells reveals the in vivo landscape of human antibody class switching

Felix Horns, Christopher Vollmers, Derek Croote, Sally F. Mackey, Gary E. Swan, Cornelia L. Dekker, Mark M. Davis & Stephen R. Quake
Antibody class switching is a feature of the adaptive immune system which enables diversification of the effector properties of antibodies. Even though class switching is essential for mounting a protective response to pathogens, the in vivo patterns and lineage characteristics of antibody class switching have remained uncharacterized in living humans. Here we comprehensively measured the landscape of antibody class switching in human adult twins using antibody repertoire sequencing. The map identifies how antibodies of every...

Data from: Ovarian fluid allows directional cryptic female choice despite external fertilization

Susan E. Marsh-Rollo, Suzanne H. Alonzo & Kelly A. Stiver
In species with internal fertilization, females can favour certain males over others, not only before mating but also within the female’s reproductive tract after mating. Here, we ask whether such directional post-mating (that is, cryptic) female mate choice can also occur in species with external fertilization. Using an in vitro sperm competition experiment, we demonstrate that female ovarian fluid (ovarian fluid) changes the outcome of sperm competition by decreasing the importance of sperm number thereby...

Registration Year

  • 2016

Resource Types

  • Dataset
  • Collection


  • University of California, Santa Cruz
  • Stanford University
  • University of California, Santa Barbara
  • Pontifical Catholic University of Peru
  • University of Adelaide
  • Plymouth University
  • Federal University of Alagoas
  • University of Michigan-Ann Arbor
  • Christopher Newport University
  • Federal University of Paraíba