21 Works

Data from: A tale of two studies: detection and attribution of the impacts of invasive plants in observational surveys

Kevin E. Mueller, Alexandra G. Lodge, Alexander M. Roth, Timothy J. S. Whitfeld, Sarah E. Hobbie & Peter B. Reich
1.Short-term experiments cannot characterize how long-lived, invasive shrubs influence ecological properties that can be slow to change, including native diversity and soil fertility. Observational studies are thus necessary, but often suffer from methodological issues. 2.To highlight ways of improving the design and interpretation of observational studies that assess the impacts of invasive plants, we compare two studies of nutrient cycling and earthworms along two separate gradients of invasive shrub abundance. By considering the divergent sampling...

Data from: A global perspective on the trophic geography of sharks

Christopher Stephen Bird, Ana Veríssimo, Sarah Magozzi, Kátya G. Abrantes, Alex Aguilar, Hassan Al-Reasi, Adam Barnett, Dana M. Bethea, Gérard Biais, Asuncion Borrell, Marc Bouchoucha, Mariah Boyle, Edward J. Brooks, Juerg Brunnschweiler, Paco Bustamante, Aaron Carlisle, Diana Catarino, Stéphane Caut, Yves Cherel, Tiphaine Chouvelon, Diana Churchill, Javier Ciancio, Julien Claes, Ana Colaço, Dean L. Courtney … & Clive N. Trueman
Sharks are a diverse group of mobile predators that forage across varied spatial scales and have the potential to influence food web dynamics. The ecological consequences of recent declines in shark biomass may extend across broader geographic ranges if shark taxa display common behavioural traits. By tracking the original site of photosynthetic fixation of carbon atoms that were ultimately assimilated into muscle tissues of 5,394 sharks from 114 species, we identify globally consistent biogeographic traits...

Data from: Process-based simulation of prairie growth

Cody J. Zilverberg, Jimmy Williams, Curtis Jones, Keith Harmoney, Jay Angerer, Loretta J. Metz & William Fox
When field research is cost- or time-prohibitive, models can inform decision-makers regarding the impact of agricultural policy on production and the environment, but process-based models that simulate animal-plant-soil interaction and ecosystem services in grazing lands are rare. In the U.S.A., APEX (Agricultural Policy/Environmental eXtender) is a model commonly used to inform policy on cropland, but its ability to simulate grazinglands was less robust. Therefore, we enhanced the APEX model’s plant growth module to improve its...

Data from: The effects of tourist and boat traffic on parrot geophagy in lowland Peru

Alan T. K. Lee, Stuart J. Marsden, Emma Tatum-Hume & Donald J. Brightsmith
Ecotourism generates important revenue in many developing economies, but poorly regulated ecotourism can threaten the long-term viability of key biological resources. We determined the effects of tourism, boat traffic, and natural disturbances on parrot geophagy (soil consumption) across seven riverine claylicks in the lowlands of Madre de Dios, Peru. Claylick use significantly decreased when visitors did not follow good practice guidelines and tourist numbers exceeded the capacity of the observation blinds. Otherwise, tourist presence and...

Data from: Soil carbon response to woody plant encroachment: Importance of spatial heterogeneity and deep soil storage

Yong Zhou, Thomas W. Boutton & X. Ben Wu
1. Recent global trends of increasing woody plant abundance in grass-dominated ecosystems may substantially enhance soil organic carbon (SOC) storage and could represent a strong carbon (C) sink in the terrestrial environment. However, few studies have quantitatively addressed the influence of spatial heterogeneity of vegetation and soil properties on SOC storage at the landscape scale. In addition, most studies assessing SOC response to woody encroachment consider only surface soils, and have not explicitly assessed the...

Data from: Genome-wide selection components analysis in a fish with male pregnancy

Sarah P. Flanagan & Adam G. Jones
A major goal of evolutionary biology is to identify the genome-level targets of natural and sexual selection. With the advent of next-generation sequencing, whole-genome selection components analysis provides a promising avenue in the search for loci affected by selection in nature. Here, we implement a genome-wide selection components analysis in the sex-role-reversed Gulf pipefish, Syngnathus scovelli. Our approach involves a double-digest restriction-site associated DNA sequencing (ddRAD-seq) technique, applied to adult females, non-pregnant males, pregnant males...

Data from: Constraints on the FST–heterozygosity outlier approach

Sarah P. Flanagan & Adam G. Jones
The FST-heterozygosity outlier approach has been a popular method for identifying loci under balancing and positive selection since Beaumont and Nichols first proposed it in 1996 and recommended its use for studies sampling a large number of independent populations (at least 10). Since then, their program FDIST2 and a user-friendly program optimized for large datasets, LOSITAN, have been used widely in the population genetics literature, often without the requisite number of samples. We observed empirical...

Data from: Rapid genetic and morphologic divergence between captive and wild populations of the endangered Leon Springs pupfish, Cyprinodon bovinus

Andrew Black, Heidi A. Seears, Christoper M. Hollenbeck, Paul B. Samollow, Andrew N. Black & Christopher M. Hollenbeck
The Leon Springs pupfish (Cyprinodon bovinus) is an endangered species currently restricted to a single desert spring and a separate captive habitat in southwestern North America. Following establishment of the captive population from wild stock in 1976, the wild population has undergone natural population size fluctuations, intentional culling to purge genetic contamination from an invasive congener (Cyprinodon variegatus) and augmentation/replacement of wild fish from the captive stock. A severe population decline following the most recent...

Data from: A bridge between oceans: Overland migration of marine birds in a wind energy corridor

Juliet S. Lamb, David J. Newstead, Lianne M. Koczur, Bart M. Ballard, M. Clay Green, Patrick G.R. Jodice & Patrick G. R. Jodice
Located at the shortest overland route between the Gulf of Mexico and the Pacific Ocean, Mexico's Tehuantepec Isthmus is a globally important migratory corridor for many terrestrial bird species. The Pacific coast of the Isthmus also contains a significant wetland complex that supports large multi-species aggregations of non-breeding waterbirds during the boreal winter. In recent years, extensive wind energy development has occurred in the plains bordering these wetlands, directly along the migratory flyway. Using recent...

Data from: Relationships between forest cover and fish diversity in the Amazon River floodplain

Caroline C. Arantes, Kirk O. Winemiller, Miguel Petrere, Leandro Castello, Laura L. Hess, Carlos E.C. Freitas & Carlos E. C. Freitas
1.Habitat degradation leads to biodiversity loss and concomitant changes in ecosystem processes. Tropical river floodplains are highly threatened by land cover changes and support high biodiversity and important ecosystems services, but the extent to which changes in floodplain land cover affect fish biodiversity remains unknown. 2.We combined fish and environmental data collected in situ and satellite-mapped landscape features to evaluate how fish species with different ecological strategies and assemblage structures respond to deforestation in floodplains...

Data from: Using trophic structure to reveal patterns of trait-based community assembly across niche dimensions

Daniel B. Fitzgerald, Kirk O. Winemiller, Mark H. Sabaj-Perez & Leandro M. Sousa
1. Trait-based approaches for studying community assembly have improved understanding of mechanisms; however, the challenge of interpreting process from pattern is complicated by the possibility of multiple mechanisms operating simultaneously. Different traits may influence the assembly process in different ways. Analyzing patterns of functional diversity among co-occurring species for each trait individually may aid interpretation of complex assembly processes; yet, few studies have tested whether patterns vary depending on trait function. 2. We used tropical...

Data from: Parrots consume sodium-rich palms in the sodium-deprived landscape of the Western Amazon Basin

Donald J. Brightsmith & Aimy Cáceres
Herbivorous animals face shortages of different minerals in different geographic areas. In the Amazon basin, sodium is often limiting, driving herbivores to seek supplemental sources. In the lowlands of the western Amazon basin, parrots commonly consume sodium-rich soils at clay licks but lick use varies widely among species and to date, parrots in the region have not been reported consuming other supplemental sodium sources. We document 11 species of psittacines consuming sodium-rich leaves and trunks...

Data from: Taxonomic revision of the flavopalliata species group of Signiphora (Hymenoptera: Signiphoridae)

James B. Woolley & Anamaria Dal Molin
The flavopalliata species group of Signiphora Ashmead (Hymenoptera: Signiphoridae) is revised. Twelve species are redescribed: Signiphora aleyrodis Ashmead, S. aspidioti Ashmead, S. borinquensis Quezada et al., S. coquilletti Ashmead, S. fax Girault, S. flavella Girault, S. flavopalliata Ashmead, S. lutea Rust, S. maculata Girault, S. merceti Malenotti, S. perpauca Girault and S. xanthographa Blanchard. Signiphora townsendi Ashmead is synonymized under S. aleyrodis n. syn.; Thysanus insularis Dozier and S. flavopalliata desantisi De Santis are synonymized...

Data from: Colony-level behavioral variation correlates with differences in expression of the foraging gene in red imported fire ants

Alison A. Bockoven, Craig J. Coates & Micky D. Eubanks
Among social insects, colony-level variation is likely to be widespread and have significant ecological consequences. Very few studies, however, have documented how genetic factors relate to behavior at the colony level. Differences in expression of the foraging gene have been associated with differences in foraging and activity of a wide variety of organisms. We quantified expression of the red imported fire ant foraging gene (sifor) in workers from 21 colonies collected across the natural range...

Data from: New insights into floral morph variation in Passiflora incarnata L. (Passifloraceae) in Tennessee, U.S.A.

Shawn E. Krosnick, Joshuah S. Perkin, Tim S. Schroeder, Lesley G. Campbell, Elizabeth B. Jackson, Silas C. Maynord, Christopher G. Waters & Jeffrey S. Mitchell
Passiflora incarnata is a functionally andromonoecious clonal wildflower, native to the southeastern United States, whose primary pollinator is the carpenter bee, Xylocopa virginica. While recent studies looking at reproductive ecology in P. incarnata have classified flowers as one of two morphs (male or hermaphroditic) based on stylar deflexion, preliminary field studies conducted in Tennessee indicated there were five distinct morphs present (three male, two hermaphroditic), supported by stylar deflexion, floral size, and pistil development. The...

Data from: Phenotypic and genetic integration of personality and growth under competition in the sheepshead swordtail, Xiphophorus birchmanni

Kay Boulton, Craig A. Walling, Andrew J. Grimmer, Gil G. Rosenthal, Alastair Wilson & Alastair J. Wilson
Competition for resources including food, physical space, and potential mates is a fundamental ecological process shaping variation in individual phenotype and fitness. The evolution of competitive ability, in particular social dominance, depends on genetic (co)variation among traits causal (e.g., behavior) or consequent (e.g., growth) to competitive outcomes. If dominance is heritable, it will generate both direct and indirect genetic effects (IGE) on resource-dependent traits. The latter are expected to impose evolutionary constraint because winners necessarily...

Data from: Repeated losses of PRDM9-directed recombination despite the conservation of PRDM9 across vertebrates

Zachary Baker, Molly Schumer, Yuki Haba, Lisa Bashkirova, Chris Holland, Gil G Rosenthal & Molly Przeworski
Studies of highly diverged species have revealed two mechanisms by which meiotic recombination is directed to the genome—through PRDM9 binding or by targeting promoter-like features—that lead to dramatically different evolutionary dynamics of hotspots. Here, we identify PRDM9 orthologs from genome and transcriptome data in 225 species. We find the complete PRDM9 ortholog across distantly related vertebrates but, despite this broad conservation, infer a minimum of six partial and three complete losses. Strikingly, taxa carrying the...

Data from: Three-dimensional self-gated cardiac MR imaging for the evaluation of myocardial infarction in mouse model on a 3T clinical MR system

Xiaoyong Zhang, Bensheng Qiu, Zijun Wei, Fei Yan, Caiyun Shi, Shi Su, Xin Liu, Jim X. Ji & Guoxi Xie
Purpose: To develop and assess a three-dimensional (3D) self-gated technique for the evaluation of myocardial infarction (MI) in mouse model without the use of external electrocardiogram (ECG) trigger and respiratory motion sensor on a 3T clinical MR system. Methods: A 3D T1-weighted GRE sequence with stack-of-stars sampling trajectories was developed and performed on six mice with MIs that were injected with a gadolinium-based contrast agent at a 3T clinical MR system. Respiratory and cardiac self-gating...

Data from: Range-wide snow leopard phylogeography supports three subspecies

Jan E. Janecka, Yu-Quang Zhang, Di-Qiang Li, Munkhtsog Bariushaa, Bayaraa Munkhtsog, Galsandorj Naranbaatar, Wangchuk R. Tshewang, Karmacharya Dibesh, McCarthy Thomas, Li Juan, Zhi Lu, Zhumabai Uulu Kubanychbek, Gaur Ajay, Kumar Satish, B. Kumar Kesav, Hussain Shafqat, Muhammad Ghulam, Jevit Matthew, Hacker Charlotte, Burger Pamela, Wultsch Claudia, Janecka J. Mary, Helgen Kristofer, Murphy J. William & Jackson Rodney
The snow leopard, Panthera uncia, is an elusive high-altitude specialist that inhabits vast, inaccessible habitat across Asia. We conducted the first range-wide genetic assessment of snow leopards based on noninvasive scat surveys. Thirty-three microsatellites were genotyped and a total of 683-bp of mitochondrial DNA sequenced in 70 individuals. Snow leopards exhibited low genetic diversity at microsatellites (AN = 5.8, HO = 0.433, HE = 0.568), virtually no mtDNA variation, and underwent a bottleneck in the...

Data from: Day/night upper thermal limits differ within Ectatomma ruidum ant colonies

Annika S. Nelson, Trey Scott, Maciej Barczyk, Terrence P. McGlynn, Arian Avalos, Elizabeth Clifton, Amlan Das, Andreia Figueiredo, Laura L. Figueroa, Mark Janowiecki, Sarah Pahlke, Jignasha D. Rana & Sean O'Donnell
In the tropics, daily temperature fluctuations can pose physiological challenges for ectothermic organisms, and upper thermal limits may affect foraging activity over the course of the day. Variation in upper thermal limits can occur among and within species, and for social insects such as ants, within colonies. Within colonies, upper thermal limits may differ among individuals or change for an individual throughout the day. Daytime foragers of the Neotropical ant Ectatomma ruidum have higher critical...

Data from: A redescription and phylogenetic analysis based on new material of the fossil newts Taricha oligocenica Van Frank, 1955 and Taricha lindoei Naylor, 1979 (Amphibia, Salamandridae) from the Oligocene of Oregon.

John J. Jacisin & Samantha S.B. Hopkins
Complete body fossils of salamanders are relatively rare, but provide critical information on the evolutionary roots of extant urodele clades. We describe new specimens of the fossil salamandrids Taricha oligocenica Van Frank, 1955, and Taricha lindoei Naylor, 1979, from the Oligocene Mehama and John Day Formations of Oregon that illustrate aspects of skeletal morphology previously unseen in these taxa, and contribute to our understanding of population-level variation. Morphological analysis of these specimens supports the classification...

Registration Year

  • 2017

Resource Types

  • Dataset


  • Texas A&M University
  • University of Cape Town
  • Drexel University
  • Cleveland State University
  • National Oceanography Centre
  • University of Adelaide
  • Plymouth University
  • University of Newcastle Australia
  • Spanish Institute of Oceanography
  • Stanford University