32 Works

Data from: Dispersal of a near-shore marine fish connects marine reserves and adjacent fished areas along an open coast

Diana Baetscher, Eric Anderson, Elizabeth Gilbert-Horvath, Daniel Malone, Emily Saarman, Mark Carr & John Garza
Marine species with pelagic larvae typically exhibit little population structure, suggesting long distance dispersal and high gene flow. Directly quantifying dispersal of marine fishes is challenging but important, particularly for design of marine protected areas (MPAs). Here, we studied kelp rockfish (Sebastes atrovirens) sampled along ~25 km of coastline in a boundary current-driven ecosystem and used genetic parentage analysis to identify dispersal events and characterize them, since the distance between sedentary parents and their settled...

A sample of Saturn interior density profiles derived with MCMC and gravity-based likelihood.

Naor Movshovitz, Jonathan Fortney, Chris Mankovich, Daniel Thorngren & Ravit Helled
We ran a Markov-Chain Monte Carlo algorithm to derive the posterior distribution of density profiles for Saturn, where the likelihood function was a chi-squared distributed distance of each curve's gravity coefficients from the values reported for that planet by the Cassini radio science team (Iess et al., 2019). The result is a large sample of interior profiles of Saturn consistent with observation and minimally constrained by model assumptions. This sample is archived here in sufficiently...

Census data from 65 tree plots in Panama, 1994-2015

Richard Condit, Rolando Pérez, Salomón Aguilar & Suzanne Lao
These are data from 65 tree plots in Panama established over 1994-2014; 43 of the plots have been recensused, while 22 plots have just a single census. Details of census methods are described in Condit (1998) and Condit et al. (2013). The 65 plots here are mostly 1 ha in area, though several are 0.32 ha, one is 4 ha, and one is 6 ha. Those two larger censuses are the Sherman and Cocoli plots...

Supplemental material for Climate forcing by battered-and-breaded fillets and crab-flavored sticks from Alaska pollock

Brandi McKuin, Jordan Watson, Alan Haynie & J. Elliott Campbell
Detailed supplemental datasets: inputs and output information and emission factors for ingredients, non-ingredient materials, and embodied energy of pollock products.

Data from: Evolutionary shifts in mustelid (Mustelidae: Carnivora) cranial shape, body size, and body shape coincides with the Mid-Miocene Climate Transition

Chris Law
Environmental changes can lead to evolutionary shifts in phenotypic traits, which in turn facilitate exploitation of novel adaptive landscapes and lineage diversification. The global cooling, increased aridity, and expansion of open grasslands during the past 50 million years are prime examples of new adaptive landscapes that spurred lineage and ecomorphological diversity of several mammalian lineages such as rodents and large herbivorous megafauna. However, whether these environmental changes facilitated evolutionary shifts in small to mid-sized predator...

Data from: Sex and occupation time influence niche space of a recovering keystone predator

Erin U. Rechsteiner, Jane C. Watson, M. Tim Tinker, Linda M. Nichol, Matthew J. Morgan Henderson, Christie J. McMIllan, Mike DeRoos, Marie C. Fournier, Anne K. Salomon, Leah D. Honka & Chris T. Darimont
Predators exert strong effects on ecological communities, particularly when they re-occupy areas after decades of extirpation. Within species, such effects can vary over time and by sex, and cascade across trophic levels. We used a space-for-time substitution to make foraging observations of sea otters (Enhydra lutris) across a gradient of re-occupation (1–30 yrs), and nMDS analysis to ask if 1) sea otter niche space varies as a function of occupation time, and 2) if niche...

Data from: Fire history and plant community composition outweigh decadal multi‐factor global change as drivers of microbial composition in an annual grassland

Clara Qin, Kai Zhu, Nona Chiariello, Christopher Field & Kabir Peay
Soil microbial communities regulate and respond to key biogeochemical cycles and influence plant community patterns. However, microbial communities also respond to disturbance events, motivating an assessment of the relative roles of decadal multi-factor global change, disturbance, and plant community structure on microbial community responses. We used high-throughput amplicon sequencing to characterize the diversity and composition of bacterial and fungal communities in bulk soil (0–7 cm) collected in 2014 from the Jasper Ridge Global Change Experiment,...

Utilizing field collected insects for next generation sequencing: effects of sampling, storage, and DNA extraction methods

Kimberly Ballare, Nathaniel Pope, Antonio Castilla, Sarah Cusser, Richard Metz & Shalene Jha
DNA sequencing technologies continue to advance the biological sciences, expanding opportunities for genomic studies of non-model organisms for basic and applied questions. Despite these opportunities, many next-generation sequencing protocols have been developed assuming a substantial quantity of high molecular weight DNA (>100 ng), which can be difficult to obtain for many study systems. In particular, the ability to sequence field-collected specimens that exhibit varying levels of DNA degradation remains largely unexplored. In this study we...

Eco-evolutionary feedbacks link prey adaptation to predator performance

David Fryxell, David C. Fryxell, Zachary T. Wood, Rebecca Robinson, Michael T. Kinnison & Eric P. Palkovacs
Eco-evolutionary feedbacks may determine the outcome of predator-prey interactions in nature, but little work has been done to quantify the feedback effect of short-term prey adaptation on predator performance. We tested the effects of prey availability and recent (< 100 years) prey adaptation on the feeding and growth rate of largemouth bass (Micropterus salmoides), foraging on western mosquitofish (Gambusia affinis). Field surveys showed higher densities and larger average body sizes of mosquitofish in recently introduced...

Complete data from the Barro Colorado 50-ha plot: 423617 trees, 35 years

Richard Condit, Rolando Pérez, Salomón Aguilar, Suzanne Lao, Robin Foster & Stephen Hubbell
The 50-ha plot at Barro Colorado Island was initially demarcated and fully censused in 1982, and has been fully censused 7 times since, every 5 years from 1985 through 2015 (Hubbell and Foster 1983, Hubbell et al. 1990, Condit et al. 2012, Condit et al. 2017). Every measurement of every stem over 8 censuses is included in this archive. Most users will need only the 8 R Analytical Tables in the format tree, which come...

Data for Drought-Net rainfall shelters did not cause non-drought effects on photosynthesis for California central coast plants.

Michael Loik
Rainfall interception shelters are frequently used to study the ecological consequences of drought. One common shelter design employs V-shaped plastic troughs spaced on a supporting frame to intercept rainfall. Shading, reflection, and infrared radiation may alter the radiative environment under shelters in ways independent of their intended effect on soil moisture. We measured microclimate and several photosynthetic variables for watered potted plants under rain-out shelters and in open-air, unsheltered plots. We tested whether the shelter...

Data from: Water availability and temperature induce changes in oxidative status during pregnancy in a viviparous lizard

Andréaz Dupoué, Pauline Blaimont, David Rozen-Rechels, Murielle Richard, Sandrine Meylan, Jean Clobert, Donald Miles, Rémi Martin, Beatriz Decencière, Simon Agostini & Jean-François Le Galliard
Reproduction involves considerable reorganization in an organism’s physiology that incurs potential toxicity for cells (e.g., oxidative stress) and decrease in fitness. This framework has been the cornerstone of the so-called ‘oxidative cost of reproduction’, a theory that remains controversial and relatively overlooked in non-model ectotherms. Here, we used two complementary approaches in natural and controlled conditions to test whether altered access to climate conditions (water and temperature resources) alters oxidative status and mediates reproductive trade-offs...

The effect of influenza vaccination for the elderly on hospitalization and mortality: an observational study with a regression-discontinuity design

, Carlos Dobkin & Devon Gorry
Replication files for "The Effect of Influenza Vaccination for the Elderly on Hospitalization and Mortality: An Observational Study with a Regression-Discontinuity Design", published in the Annals of Internal Medicine.

Interspecific and intra-shell stable isotope variation among the Red Sea giant clams

Daniel Killam, Ryan Thomas, Matthew Clapham & Tariq Al-Najjar
The Gulf of Aqaba is home to three giant clam species with differing ecological niches and levels of photosymbiotic activity. Giant clams grow a two-layered shell where the outer layer is precipitated in close association with photosymbiont-bearing siphonal mantle, and the inner layer is grown in association with the light-starved inner mantle. We collected 38 shells of the three species (the cosmopolitan Tridacna maxima and T. squamosa, as well as the rare endemic T. squamosina),...

BCI 50-ha Plot Taxonomy

Richard Condit, Rolando Pérez, Salomón Aguilar, Suzanne Lao, Robin Foster & Hubbell Stephen
BCI 50-ha Plot Taxonomy The 50-ha plot at Barro Colorado Island was initially demarcated and fully censused in 1982, and has been fully censused 7 times since, every 5 years from 1985 through 2015 (Hubbell and Foster 1983, Hubbell et al. 1990, Condit et al. 2012, Condit et al. 2017). The taxonomic component required repeated collecting and sorting so that every individual could be matched to a previously described species from Croat (1978). Over 300...

Data from: Comparative phylogeography of three host sea anemones in the Indo-Pacific

Pablo Saenz-Agudelo, Madeleine Emms, Emily Giles, Remy Gatins, Gerrit Nanninga, Anna Scott, Jean Paul Hobbs, Ashley Frisch, Suzanne Mills, Ricardo Beldade & Michael Berumen
Aim The mutualistic relationship between anemones and anemonefishes is one of the most iconic examples of symbiosis. However, while anemonefishes have been extensively studied in terms of genetic connectivity, such information is lacking entirely for host sea anemones. Here, we provide the first information on the broad-scale population structure and phylogeographic patterns of three species of host sea anemone, Heteractis magnifica, Stichodactyla mertensii, and Entacmaea quadricolor. We evaluate if there is concordance in genetic structure...

Urbanization reduces genetic connectivity in bobcats (Lynx rufus) at both intra- and inter-population spatial scales

Christopher P Kozakiewicz, Christopher Burridge, W. Chris Funk, Patricia E Salerno, Daryl R Trumbo, Roderick B Gagne, Erin E Boydston, Robert N Fisher, Lisa M Lyren, Megan K Jennings, Seth P D Riley, Laurel E K Serieys, Sue VandeWoude, Kevin R Crooks & Scott Carver
Urbanization is a major factor driving habitat fragmentation and connectivity loss in wildlife. However, the impacts of urbanization on connectivity can vary among species and even populations due to differences in local landscape characteristics, and our ability to detect these relationships may depend on the spatial scale at which they are measured. Bobcats (Lynx rufus) are relatively sensitive to urbanization and the status of bobcat populations is an important indicator of connectivity in urban coastal...

Sperm morphology and count vary with fine-scale changes in local density in a wild lizard population

Matthew C Kustra, Ariel F Kahrl, Aaron M Reedy, Daniel A Warner & Robert M Cox
Given that sperm production can be costly, theory predicts that males should optimally adjust the quantity and/or quality of their sperm in response to their social environment to maximize their paternity success. Although experiments demonstrate that males can alter their ejaculates in response to manipulations of the social environment and studies show that ejaculate traits covary with social environment across populations, it is unknown whether individual variation in sperm traits corresponds to natural variation found...

Understanding forest dynamics by integrating age and environmental change

Kai Zhu
How much carbon a forest ecosystem can sequester is determined by both post-disturbance regrowth and environmentally modified growth. Disturbance causes sharp declines in the short term and is followed by regrowth in the long term. Environmental change may alter carbon accumulation through increasing CO2, nitrogen deposition, and climate change. Regrowth and modified growth occur simultaneously, yet they are usually studied separately and assessed using an additive approach. Alternatively, an interactive approach using hierarchical models can...

Data from: Shared extremes by ectotherms and endotherms: body elongation in mustelids is associated with small size and reduced limbs

Chris J. Law, Graham J. Slater & Rita S. Mehta
An elongate body with reduced or absent limbs has evolved independently in many ectothermic vertebrate lineages. While much effort has been spent examining the morphological pathways to elongation in these clades, quantitative investigations into the evolution of elongation in endothermic clades are lacking. We quantified body shape in 61 musteloid mammals (red panda, skunks, raccoons, and weasels) using the head-body elongation ratio. We also examined the morphological changes that may underlie the evolution towards more...

Data from: Ectomycorrhizas and tree seedling establishment are strongly influenced by forest edge proximity but not soil inoculum

Sara Grove, Norah P. Saarman, Gregory S. Gilbert, Brant Faircloth, Karen A. Haubensak & Ingrid M. Parker
Reforestation is challenging when timber harvested areas have been degraded, invaded by non-native species, or are of marginal suitability to begin with. Conifers form mutualistic partnerships with ectomycorrhizal fungi (EMF) to obtain greater access to soil resources, and these partnerships may be especially important in degraded areas. However, timber harvest can impact mycorrhizal fungi by removing or compacting topsoil, removing host plants, and warming and drying the soil. We used a field experiment to evaluate...

Growth rate assays reveal fitness consequences of β-lactamases

Fabian Santiago, Evin Doscher, Jay Kim, Manel Camps, Juan Meza, Suzanne Sindi & Miriam Barlow
Clinical resistance determination is critical for monitoring the spread of antibiotic resistance. However, clinical methods of detecting resistance lack the sensitivity necessary to make strong conclusions about fitness. Growth rates are a far more sensitive method of measuring resistance, but they differ from clinical methods in that a single concentration of antibiotic is used for the assay. Here we show that in spite of this key difference, the results of growth rates correlate well with...

Data from: RADseq analyses reveal concordant Indian Ocean biogeographic and phylogeographic boundaries in the reef fish Dascyllus trimaculatus

Eva M. Salas, Giacomo Bernardi, Michael L. Berumen, Michelle Gaither & Luiz A. Rocha
Population genetic analysis is an important tool for estimating the degree of evolutionary connectivity in marine organisms. Here, we investigate the population structure of the three-spot damselfish Dascyllus trimaculatus in the Red Sea, Arabian Sea and Western Indian Ocean, using 1,174 single nucleotide polymorphisms (SNPs). Neutral loci revealed a signature of weak genetic differentiation between the Northwestern (Red Sea and Arabian Sea) and Western Indian Ocean biogeographic provinces. Loci potentially under selection (outlier loci) revealed...

Data from: Behavioral responses of individual blue whales (Balaenoptera musculus) to mid-frequency military sonar

Brandon L. Southall, Stacy L. DeRuiter, Ari Friedlaender, Alison K. Stimpert, Jeremy A. Goldbogen, Elliott Hazen, Caroline Casey, Selene Fregosi, David E. Cade, Ann N. Allen, Catriona M. Harris, Greg Schorr, David Moretti, Shane Guan & John Calambokidis
This study measured the degree of behavioral responses in blue whales (Balaenoptera musculus) to controlled noise exposure off the southern California coast. High-resolution movement and passive acoustic data were obtained from non-invasive archival tags (n=42) while surface positions were obtained with visual focal follows. Controlled exposure experiments (CEEs) were used to obtain direct behavioral measurements before, during, and after simulated and operational military mid-frequency active sonar (MFAS), pseudorandom noise (PRN), and controls (no noise exposure)....

Data from: Phenotypic and community consequences of captive propagation in mosquitofish

Zachary T. Wood, David C. Fryxell, Rebecca R. Robinson, Eric P. Palkovacs & Michael T. Kinnison
1. Captive propagation can lead to phenotypic change in fish populations, but the broader community-level consequences of captive phenotypes remain largely unknown. 2. Here we investigate the degree to which captive propagation alters the phenotypes and ecological roles of fish stocked into wild communities. We focus on captive propagation of western mosquitofish (Gambusia affinis) for biocontrol, which represents one of the largest-scale production efforts for any fish released into the wild. 3. Captive propagation in...

Registration Year

  • 2019
    32

Resource Types

  • Dataset
    32

Affiliations

  • University of California, Santa Cruz
    32
  • Smithsonian Tropical Research Institute
    4
  • University of California, Merced
    2
  • Stanford University
    2
  • Field Museum of Natural History
    2
  • King Abdullah University of Science and Technology
    2
  • National Marine Fisheries Service
    2
  • Yale University
    2
  • University of California Los Angeles
    2
  • Southern Cross University
    1