100 Works

Supplemental information for: Annual tropical-rainforest productivity through two decades: Complex responses to climatic factors, CO2 and storm damage

Deborah A. Clark, David B. Clark & Steven F. Oberbauer
The supplemental files in this deposition contribute additional information useful for understanding the analyses in the associated manuscript. Two files contain the annual (CARBONO Project measurement-year) data for productivity and for environmental conditions that were analyzed in the paper. The annual productivity metrics were derived from the CARBONO Project litterfall and tree-growth data that were provided and documented in prior Dryad data depositions. A third file in this deposition provides the daily data underlying the...

Oceanographic features and limited dispersal shape the population genetic structure of the vase sponge Ircinia campana in the Greater Caribbean

Sarah Griffiths, Mark Butler, Donald Behringer, Thierry Pérez & Richard Preziosi
Understanding population genetic structure can help us to infer dispersal patterns, predict population resilience and design effective management strategies. For sessile species with limited dispersal, this is especially pertinent because genetic diversity and connectivity are key aspects of their resilience to environmental stressors. Here, we describe the population structure of Ircinia campana, a common Caribbean sponge subject to mass mortalities and disease. Microsatellites were used to genotype 440 individuals from 19 sites throughout the Greater...

E-scape: consumer-specific landscapes of energetic resources derived from stable isotope analysis and remote sensing

W. Ryan James, Rolando Santos, Jennifer Rehage, Jennifer Doerr & James Nelson
Energetic resources and habitat distribution are inherently linked. Energetic resource availability is a major driver of the distribution of consumers, but estimating how much specific habitats contribute to the energetic resource needs of a consumer can be problematic. We present a new approach that combines remote sensing information and stable isotope ecology to produce maps of energetic resources (E-scapes). E-scapes project species-specific resource use information onto the landscape to classify areas based on energetic importance....

Whence came these plants most foul? Phylogenomics and biogeography of Lowiaceae (Zingiberales)

Matti Niissalo, Elliot Gardner, Gillian Khew, Otakar Šída, Axel Poulsen & Jana Leong-Škornicková
Lowiaceae (order Zingiberales) is a small family of forest herbs in Southeast Asia. All species belong to the genus Orchidantha. They are known for possessing orchid-like flowers that are smelly, apparently mimicking dead animals, feces, or mushrooms. Little is known of the biogeographic patterns or character evolution of the family. We sampled the family extensively, including many recently discovered species, and reconstructed the phylogeny of the family using HybSeq with Lowiaceae-specific RNA baits. Our phylogenetic...

Predator-based selection and the impact of edge sympatry on components of coral snake mimicry

Lauren Wilson, George Lonsdale, John David Curlis, Elizabeth Hunter & Christian L. Cox
Mimicry is a vivid example of how predator-driven selection can impact phenotypic diversity, which itself can be influenced by the presence (sympatry) or absence (allopatry) of a dangerous model. However, the impact of sympatry and allopatry on predation on mimicry systems at fine spatial scales (e.g., edge sympatry, allopatry) is not well understood. We used a clay model study in a montane tropical site in Honduras to test the impact of edge sympatry on 1)...

Data from: Temporal population-genetic structure of eastern mosquitofish in a dynamic aquatic landscape

Thomas C McElroy, Karen L Kandl & Joel C Trexler
We analyzed the effect of periodic drying in the Florida Everglades on spatio-temporal population genetic structure of eastern mosquitofish (Gambusia holbrooki). Severe periodic drying events force individuals from disparate sources to mix in dry-season relatively deep-water refuges. In 1996 (a wet year) and 1999 (a dry year), we sampled mosquitofish at 20 dry-season refuges distributed in three water-management regions and characterized genetic variation for 10 allozyme and 3 microsatellite loci. In 1996, most of the...

Data from: Ecological inferences from a deep screening of the Complex Bacterial Consortia associated with the coral, Porites astreoides

Mauricio Rodriguez-Lanetty, Camila Granados-Cifuentes, Albert Barberan, Anthony J. Bellantuono & Carolina Bastidas
The functional role of the bacterial organisms in the reef ecosystem and their contribution to the coral well-being remain largely unclear. The first step in addressing this gap of knowledge relies on in-depth characterization of the coral microbial community and its changes in diversity across coral species, space, and time. In this study, we focused on the exploration of microbial community assemblages associated with an ecologically important Caribbean scleractinian coral, Porites astreoides, using Illumina high-throughput...

Data from: Anthropogenic ecosystem fragmentation drives shared and unique patterns of sexual signal divergence among three species of Bahamian mosquitofish

Sean T. Giery, Craig A. Layman & R. Brian Langerhans
When confronted with similar environmental challenges, different organisms can exhibit dissimilar phenotypic responses. Therefore, understanding patterns of phenotypic divergence for closely related species requires considering distinct evolutionary histories. Here, we investigated how a common form of human-induced environmental alteration, habitat fragmentation, may drive phenotypic divergence among three closely related species of Bahamian mosquitofish (Gambusia spp.). Focusing on one phenotypic trait (male coloration), having a priori predictions of divergence, we tested whether populations persisting in fragmented...

Data from: To keep on track during flight, fruitflies discount the skyward view

Chantell Mazo & Jamie C. Theobald
When small flying insects go off their intended course, they use the resulting pattern of motion on their eye, or optic flow, to guide corrective steering. A change in heading generates a unique, rotational motion pattern and a change in position generates a translational motion pattern, and each produces corrective responses in the wingbeats. Any image in the flow field can signal rotation, but owing to parallax, only the images of nearby objects can signal...

Data from: Taxonomic and functional composition of arthropod assemblages across contrasting Amazonian forests

P. A. Greg Lamarre, Bruno Hérault, Paul V. A. Fine, Vincent Vedel, Roland Lupoli, Italo Mesones, Christopher Baraloto & Greg P. A. Lamarre
Arthropods represent most of global biodiversity, with the highest diversity found in tropical rainforests. Nevertheless, we have a very incomplete understanding of how tropical arthropod communities are assembled. We conducted a comprehensive mass-sampling of arthropod communities within three major habitat types of lowland Amazonian rainforest, including terra firme clay, white-sand, and seasonally-flooded forests in Peru and French Guiana. We examined how taxonomic and functional composition (at the family level) differed across these habitat types in...

Data from: The impact of salinity on mycorrhizal colonization of a rare legume in south Florida pine rocklands

Klara Scharnagl, Vanessa Sanchez & Eric Von Wettberg
Objectives: The success of restoration plantings depends on the capacity of transplanted individuals or seeds to establish and reproduce. It is increasingly recognized that restoration success depends quite heavily upon biotic interactions and belowground processes. Under stressful abiotic conditions, such as soils salinized by storm surge and sea level rise, symbiotic interactions with soil microbes such as mycorrhizae may be critically important. In this study, we investigate the impact of salinity on percent colonization of...

Data from: Universal target-enrichment baits for anthozoan (Cnidaria) phylogenomics: new approaches to long-standing problems

Andrea M. Quattrini, Brant C. Faircloth, Luisa F. Dueñas, Thomas C.L. Bridge, Mercer R. Brügler, Ivan F. Calixto-Botía, Danielle M. DeLeo, Sylvain Foret, Santiago Herrera, Simon M.Y. Lee, David J. Miller, Carlos Prada, Gandhi Rádis-Baptista, Catalina Ramírez-Portilla, Juan A. Sánchez, Estefania Rodriguez, Catherine S. McFadden, Tom C. L. Bridge & Simon M. Y. Lee
Anthozoans (e.g., corals, anemones) are an ecologically important and diverse group of marine metazoans that occur from shallow to deep waters worldwide. However, our understanding of the evolutionary relationships among the ~7500 species within this class is hindered by the lack of phylogenetically informative markers that can be reliably sequenced across a diversity of taxa. We designed and tested 16,308 RNA baits to capture 720 Ultraconserved Element loci and 1,071 exon loci. Library preparation and...

Data from: Light environment drives evolution of color vision genes in butterflies and moths

Yash Sondhi, Emily Elis, Seth Bybee, Jamie Theobald & Akito Kawahara
Opsins, combined with a chromophore, are the primary light-sensing molecules in animals and are crucial for color vision. Throughout animal evolution duplications and losses of opsin proteins are common, but it is unclear what is driving these gains and losses. Light availability is implicated, and dim environments are often associated with low opsin diversity and loss. Correlations between high opsin diversity and bright environments, however, are tenuous. To test if increased light availability is associated...

Data from: A century of genetic variation inferred from a persistent soil-stored seed bank

Jennifer L. Summers, Brittany Bernik, Colin J. Saunders, Jason S. McLachlan & Michael J. Blum
Stratigraphic accretion of dormant propagules in soil can result in natural archives useful for studying ecological and evolutionary responses to environmental change. Few attempts have been made, however, to use soil-stored seed banks as natural archives, in part because of concerns over non-random attrition and mixed stratification. Here we examine the persistent seed bank of Schoenoplectus americanus, a foundational brackish marsh sedge, to determine whether it can serve as a resource for reconstructing historical records...

Disparities of HIV risk and PrEP use among transgender women of color in South Florida.

Hector R. Perez-Gilbe, Cheryl L. Holder, Francisco J. Fajardo, Stephanie Garcia & Elena Cyrus
Background: The majority of the transgender female population in South Florida are Latina and Black, and are at greatest risk for acquiring HIV, yet there is limited research focused on South Florida transgender women of color. The study objective was to describe the disparities among racial/ethnic minority transgender women regarding HIV screening, pre exposure prophylaxis (PrEP) knowledge and PrEP utilization. Methods: Sixty transgender women, recruited from South Florida community-based organizations, completed a questionnaire on HIV...

Guidelines for including bamboos in tropical ecosystem monitoring

Belen Fadrique, Joseph Veldman, James Dalling, Lynn Clark, Lia Montti, Eduardo Ruiz-Sanchez, Debora Rother, Francisca Ely, William Farfan-Rios, Paul Gagnon, Juan Carlos Camargo Garcia, Sonali Saha, Thomas Veblen, Ximena Londoño, Kenneth Feeley & Cara Rockwell
Bamboos are a diverse and ecologically important group of plants that have the potential to modulate the structure, composition and function of forests. With the aim of increasing the visibility and representation of bamboo in forest surveys, and to standardize techniques across ecosystems, we present a protocol for bamboo monitoring in permanent research plots. A bamboo protocol is necessary because measurements and sampling schemes that are well-suited to trees are inadequate for monitoring most bamboo...

Ventral motion parallax enhances fruit fly steering to visual sideslip

Carlos Ruiz & Jamie Theobald
Flies and other insects use incoherent motion (parallax) to the front and sides to measure distances and identify obstacles during translation. Although additional depth information could be drawn from below, there is no experimental proof that they use it. The finding that blowflies encode motion disparities in their ventral visual fields suggests this may be an important region for depth information. We used a virtual flight arena to measure fruit fly responses to optic flow....

Free‐living and symbiotic lifestyles of a thermotolerant coral endosymbiont display profoundly distinct transcriptomes under both stable and heat stress conditions

Anthony J. Bellantuono, Katherine E. Dougan, Camila Granados‐Cifuentes & Mauricio Rodriguez‐Lanetty
Reef-building corals depend upon a nutritional endosymbiosis with photosynthetic dinoflagellates of the family Symbiodiniaceae for the majority of their energetic needs. While this mutualistic relationship is impacted by numerous stressors, warming oceans are a predominant threat to coral reefs, placing the future of the world’s reefs in peril. Some Symbiodiniaceae species exhibit tolerance to thermal stress, but the in hospite symbiont response to thermal stress is underexplored. To describe the underpinnings of symbiosis and heat...

Match and mismatch: Integrating consumptive effects of predators, prey traits, and habitat selection in colonizing aquatic insects

Matthew R. Pintar & William J. Resetarits
Predators are a particularly critical component of habitat quality, as they affect survival, morphology, behavior, population size, and community structure through both consumptive and non-consumptive effects. Non-consumptive effects can often exceed consumptive effects, but their relative importance is undetermined in many systems. Our objective was to determine the consumptive and non-consumptive effects of a predaceous aquatic insect, Notonecta irrorata, on colonizing aquatic beetles. We tested how N. irrorata affected survival and habitat selection of colonizing...

Endothermy makes fishes faster but does not expand their thermal niche

Lucy Harding, Andrew Jackson, Adam Barnett, Ian Donohue, Lewis Halsey, Charlie Huveneers, Carl Meyer, Yannis Papastamatiou, Jayson Semmens, Erin Spencer, Yuuki Watanabe & Nicholas Payne
1. Regional endothermy has evolved several times in marine fishes, and two competing hypotheses are generally proposed to explain the evolutionary drivers behind this trait: thermal niche expansion and elevated cruising speeds. Evidence to support either hypothesis is equivocal, and the ecological advantages conferred by endothermy in fishes remain debated. 2. By compiling published biologging data and collecting precise speed measurements from free-swimming fishes in the wild, we directly test whether endothermic fishes encounter broader...

Genetic mechanisms and correlational selection structure trait variation in a coral snake mimic

John David Curlis, Alison Davis Rabosky, Iris Holmes, Timothy Renney & Christian Cox
Covariation among traits shapes both phenotypic evolution and ecological interactions across space and time. However, rampant geographic variation in the strength and direction of such correlations can be particularly difficult to explain through generalized mechanisms. By integrating population genomics, surveys of natural history collections, and spatially-explicit analyses, we tested multiple drivers of trait correlations in a coral snake mimic that exhibits remarkable polymorphism in mimetic and non-mimetic color traits. We found that although such traits...

Data from: Resolving the mesoscopic missing link: biophysical modeling of EEG from cortical columns in primates

Jacob Westerberg, Beatriz Herrera, Michelle Schall, Alexander Maier, Geoffrey Woodman, Jeffrey Schall & Jorge Riera
Event-related potentials (ERP) are among the most widely measured indices for studying human cognition. While their timing and magnitude provide valuable insights, their usefulness is limited by our understanding of their neural generators at the circuit level. Inverse source localization offers insights into such generators, but their solutions are not unique. To address this problem, scientists have assumed the source space generating such signals comprises a set of discrete equivalent current dipoles, representing the activity...

Carbon dioxide and blood-feeding shift visual cue tracking during navigation in Aedes aegypti mosquitoes

Elina Barredo, Joshua Raji, Michael Ramon, Matthew DeGennaro & Jamie Theobald
Hematophagous mosquitoes need a blood meal to complete their reproductive cycle. To accomplish this, female mosquitoes seek vertebrate hosts, land on them, and bite. As their eggs mature, they shift attention away from hosts and towards finding sites to lay eggs. We asked whether females were more tuned to visual cues when a host-related signal, carbon dioxide, was present, and further examined the effect of a blood meal, which shifts behavior to ovipositing. Using a...

A taxonomic revision of the Lathberry Clade of Eugenia (Myrtaceae)

Jonathan A. Flickinger, Eugenio Santiago-Valentín, José A. Sustache-Sustache & Omar A. Monsegur-Rivera
The Lathberry Clade includes seven species of Eugenia sect. Umbellatae (Myrtaceae) distributed from Puerto Rico through the Lesser Antilles. Members of the Lathberry Clade are trees and shrubs distinguished from other Antillean species by a combination of dull twigs, glabrous leaves with a raised midvein, glomerate or fasciculate inflorescences predominantly borne below the leaves on old wood, closely spaced and ascending inflorescence bracts, spheroidal fruits turning red or purple at maturity, the calyx lobes erect...

Using the Area of Habitat to assess the extent of protection of India's birds

Ashwin Warudkar, Naman Goyal, Varun Kher, Vinay KL, Ritobroto Chanda, Raja Bandi, Clinton Jenkins, & Stuart Pimm
India hosts multiple global biodiversity hotspots while being one of the most populous countries in the world. Here, we examine how well India has protected its avifauna, based on the fraction of their ranges falling within “protected areas.” India has protected 5% of its land this way. The issue is whether India has done better than expected in protecting its threatened species. To this end, we assessed 99 Near Threatened, Threatened, and small-ranged species by...

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  • Florida International University
  • University of Miami
  • University of Florida
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  • George Washington University
  • Smithsonian Institution
  • North West Agriculture and Forestry University
  • Sun Yat-sen University
  • West China Hospital of Sichuan University
  • Zhejiang University