63 Works

Data from: Isolation with asymmetric gene flow during the nonsynchronous divergence of dry forest birds

Jessica A. Oswald, Isaac Overcast, Mauck III, William M., Michael J. Andersen & Brian Tilston Smith
Dry forest bird communities in South America are often fragmented by intervening mountains and rainforests, generating high local endemism. The historical assembly of dry forest communities likely results from dynamic processes linked to numerous population histories among codistributed species. Nevertheless, species may diversify in the same way through time if landscape and environmental features, or species ecologies, similarly structure populations. Here we tested whether six co-distributed taxon pairs that occur in the dry forests of...

Data from: A persistent lack of international representation on editorial boards in environmental biology

Johanna Espin, Sebastian Palmas, Farah Carrasco-Rueda, Kristina Riemer, Pablo E. Allen, Nathan Berkebile, Kirsten A. Hecht, Kay Kastner-Wilcox, Mauricio M. Núñez-Regueiro, Candice Prince, Constanza Rios, Erica Ross, Bhagatveer Sangha, Tia Tyler, Judit Ungvari-Martin, Mariana Villegas, Tara Cataldo, Emilio M. Bruna & Tara T. Cataldo
The scholars comprising journal editorial boards play a critical role in defining the trajectory of knowledge in their field. Nevertheless, studies of editorial board composition remain rare, especially those focusing on journals publishing research in the increasingly globalized fields of science, technology, engineering, and math (STEM). Using metrics for quantifying the diversity of ecological communities, we quantified international representation on the 1985–2014 editorial boards of 24 environmental biology journals. Over the course of 3 decades,...

Data from: Reconstructing ecological niche evolution when niches are incompletely characterized

Erin E. Saupe, Narayani Barve, Hannah L. Owens, Jacob C. Cooper, Peter A. Hosner, A. Townsend Peterson, Jacob C Cooper, Erin E Saupe, Peter A Hosner, Hannah L Owens & A Townsend Peterson
Evolutionary dynamics of abiotic ecological niches across phylogenetic history can shed light on large-scale biogeographic patterns, macroevolutionary rate shifts, and the relative ability of lineages to respond to global change. An unresolved question is how best to represent and reconstruct evolution of these complex traits at coarse spatial scales through time. Studies have approached this question by integrating phylogenetic comparative methods with niche estimates inferred from correlative and other models. However, methods for estimating niches...

Data from: Unmanned aerial systems measure structural habitat features for wildlife across multiple scales

Peter J. Olsoy, Lisa A. Shipley, Janet L. Rachlow, Jennifer S. Forbey, Nancy F. Glenn, Matthew A. Burgess & Daniel H. Thornton
1.Assessing habitat quality is a primary goal of ecologists. However, evaluating habitat features that relate strongly to habitat quality at fine-scale resolutions across broad-scale extents is challenging. Unmanned aerial systems (UAS) provide an avenue for bridging the gap between relatively high spatial resolution, low spatial extent field-based habitat quality measurements and lower spatial resolution, higher spatial extent satellite-based remote sensing. Our goal in this study was to evaluate the potential for UAS structure from motion...

Data from: Testing support for the northern and southern dispersal routes out of Africa: an analysis of Levantine and southern Arabian populations

Deven N. Vyas, Ali Al-Meeri & Connie J. Mulligan
Objectives: The Northern Dispersal Route (NDR) and Southern Dispersal Route (SDR) are hypothesized to have been used by modern humans in the dispersal out of Africa. The NDR follows the Nile into Northeast Africa and crosses the Red Sea into the Levant. The SDR emerges from the Horn of Africa and crosses the Bab el-Mandeb into southern Arabia. In this study, we analyze genetic data from populations living along the NDR and SDR to test...

Data from: A genome-wide phylogeny of jumping spiders (Araneae, Salticidae), using anchored hybrid enrichment

Wayne P. Maddison, Samuel C. Evans, Chris A. Hamilton, Jason E. Bond, Alan R. Lemmon & Emily Moriarty Lemmon
We present the first genome-wide molecular phylogeny of jumping spiders (Araneae: Salticidae), inferred from Anchored Hybrid Enrichment (AHE) sequence data. From 12 outgroups plus 34 salticid taxa representing all but one subfamily and most major groups recognized in previous work, we obtained 447 loci totalling 96,946 aligned nucleotide sites. Our analyses using concatenated likelihood, parsimony, and coalescent methods (ASTRAL and SVDQuartets) strongly confirm most previous results, resolving as monophyletic the Spartaeinae, Salticinae (with the hisponines...

Data from: Phylogenetic evidence from freshwater crayfishes that cave adaptation is not an evolutionary dead-end

David Ben Stern, Jesse Breinholt, Carlos Pedraza-Lara, Marilú López-Mejía, Christopher L. Owen, Heather Bracken-Grissom, Fetzner Jr., James W., Keith A. Crandall, David B. Stern & James W. Fetzner
Caves are perceived as isolated, extreme habitats with a set of uniquely specialized biota, which long ago led to the idea that caves are ‘evolutionary dead-ends.’ This suggests that cave-adapted taxa may be doomed for extinction before they can diversify or transition to a more stable state. However, this hypothesis has not been explicitly tested in a phylogenetic framework with multiple independent cave-dwelling groups. Here we use the freshwater crayfish, a group with dozens of...

Data from: Idiosyncratic responses to climate-driven forest fragmentation and marine incursions in reed frogs from Central Africa and the Gulf of Guinea Islands

Rayna C. Bell, Juan L. Parra, Gabriel Badjedjea, Michael F. Barej, David C. Blackburn, Marius Burger, Alan Channing, J. Maximilian Dehling, Eli Greenbaum, Václav Gvoždík, Jos Kielgast, Chifundera Kusamba, Stefan Lötters, Patrick J. McLaughlin, Zoltán T. Nagy, Mark-Oliver Rödel, Daniel M. Portik, Bryan L. Stuart, Jeremy VanDerWal, Ange-Ghislain Zassi Boulou & Kelly R. Zamudio
Organismal traits interact with environmental variation to mediate how species respond to shared landscapes. Thus, differences in traits related to dispersal ability or physiological tolerance may result in phylogeographic discordance among co-distributed taxa, even when they are responding to common barriers. We quantified climatic suitability and stability, and phylogeographic divergence within three reed frog species complexes across the Guineo-Congolian forests and Gulf of Guinea archipelago of Central Africa to investigate how they responded to a...

Data from: Comparative experimental taphonomy of eight marine arthropods indicates distinct differences in preservation potential

Adiël A. Klompmaker, Roger W. Portell & Michael G. Frick
Global biodiversity patterns in deep time can only be understood fully when the relative preservation potential of each clade is known. The relative preservation potential of marine arthropod clades, a diverse and ecologically important component of modern and past ecosystems, is poorly known. We tackled this issue by carrying out a 205-day long comprehensive, comparative, taphonomic experiment in a laboratory by scoring up to ten taphonomic characters for multiple specimens of seven crustacean and one...

Data from: Nitrogen-fixing tree abundance in higher-latitude North America is not constrained by diversity

Duncan N. L. Menge, Sarah A. Batterman, Wenying Liao, Benton N. Taylor, Jeremy W. Lichstein & Gregorio Ángeles-Pérez
The rarity of nitrogen (N)-fixing trees in frequently N-limited higher-latitude (here, > 35°) forests is a central biogeochemical paradox. One hypothesis for their rarity is that evolutionary constraints limit N-fixing tree diversity, preventing N-fixing species from filling available niches in higher-latitude forests. Here, we test this hypothesis using data from the USA and Mexico. N-fixing trees comprise only a slightly smaller fraction of taxa at higher vs. lower latitudes (8% vs. 11% of genera), despite...

Data from: Habitat filtering determines the functional niche occupancy of plant communities worldwide

Yuanzhi Li, Bill Shipley, Jodi N. Price, Vinícius De L. Dantas, Riin Tamme, Mark Westoby, Andrew Siefert, Brandon S. Schamp, Marko J. Spasojevic, Vincent Jung, Daniel C. Laughlin, Sarah J. Richardson, Yoann Le Bagousse-Pinguet, Christian Schöb, Antonio Gazol, Honor C. Prentice, Nicolas Gross, Jacob Overton, Marcus V. Cianciaruso, Frédérique Louault, Chiho Kamiyama, Tohru Nakashizuka, Kouki Hikosaka, Takehiro Sasaki, Masatoshi Katabuchi … & Yoann Le Bagousse-Pinguet
How the patterns of niche occupancy vary from species-poor to species-rich communities is a fundamental question in ecology that has a central bearing on the processes that drive patterns of biodiversity. As species richness increases, habitat filtering should constrain the expansion of total niche volume, while limiting similarity should restrict the degree of niche overlap between species. Here, by explicitly incorporating intraspecific trait variability, we investigate the relationship between functional niche occupancy and species richness...

Data from: Aquatic microfauna alter larval food resources and affect development and biomass of West Nile and Saint Louis encephalitis vector Culex nigripalpus (Diptera: Culicidae)

Dagne Duguma, Michael G. Kaufman & Arthur B. Simas Domingos
Ciliate protists and rotifers are ubiquitous in aquatic habitats and can comprise a significant portion of the microbial food resources available to larval mosquitoes, often showing substantial declines in abundance in the presence of mosquito larvae. This top-down regulation of protists is reported to be strong for mosquitoes inhabiting small aquatic containers such as pitcher plants or tree holes, but the nature of these interactions with larval mosquitoes developing in other aquatic habitats is poorly...

Data from: Non-random patterns of invasion and extinction reduce phylogenetic diversity in island bird assemblages

Benjamin Baiser, Dennis Valle, Zoe Zelazny & J. Gordon Burleigh
Anthropogenically driven changes in bird communities on oceanic islands exemplify the biotic upheaval experienced by island floras and faunas. While the influence of invasions and extinctions on species richness and beta-diversity of island bird assemblages have been explored, little is known about the impact of these invasions and extinctions on phylogenetic diversity. Here we quantify phylogenetic diversity of island bird assemblages resulting from extinctions alone, invasions alone, and the combination of extinctions and invasions in...

Data from: Biological factors contributing to bark and ambrosia beetle species diversification

Jostein Gohli, Lawrence R. Kirkendall, Sarah M. Smith, Anthony I. Cognato, Jiri Hulcr & Bjarte H. Jordal
The study of species diversification can identify the processes that shape patterns of species richness across the tree of life. Here we perform comparative analyses of species diversification using a large dataset of bark beetles. Three examined covariates – permanent inbreeding (sibling mating), fungus farming, and major host type – represent a range of factors that may be important for speciation. We studied the association of these covariates with species diversification while controlling for evolutionary...

Data from: Testing the association of phenotypes with polyploidy: An example using herbaceous and woody eudicots

Rosana Zenil-Ferguson, José M. Ponciano & J. Gordon Burleigh
Although numerous studies have surveyed the frequency with which different plant characters are associated with polyploidy, few statistical tools are available to identify the factors that potentially facilitate polyploidy. We describe a new probabilistic model, BiChroM, designed to associate the frequency of polyploidy and chromosomal change with a binary phenotypic character in a phylogeny. BiChroM provides a robust statistical framework for testing differences in rates of polyploidy associated with phenotypic characters along a phylogeny while...

Data from: Embracing discordance: phylogenomic analyses provide evidence for allopolyploidy leading to cryptic diversity in a Mediterranean Campanula (Campanulaceae) clade

Andrew A. Crowl, Cody Myers & Nico Cellinese
The Mediterranean Basin harbors a remarkable amount of biodiversity, a high proportion of which is endemic to this region. Here, we present an in-depth study of an angiosperm species complex, in which cryptic taxonomic diversity has been hypothesized. Specifically, we focus on four currently recognized species in the Roucela complex, a well-supported clade in the Campanulaceae/Campanuloideae: Campanula creutzburgii, C. drabifolia, C. erinus, and C. simulans. This study takes a phylogenomic approach, utilizing near-complete plastomes and...

Data from: Evaluating mechanisms of diversification in a Guineo-Congolian tropical forest frog using demographic model selection

Daniel M. Portik, Adam D. Leaché, Danielle Rivera, Michael F. Barej, Marius Burger, Mareike Hirschfeld, Mark-Oliver Rödel, David C. Blackburn & Matthew K. Fujita
The accumulation of biodiversity in tropical forests can occur through multiple allopatric and parapatric models of diversification, including forest refugia, riverine barriers and ecological gradients. Considerable debate surrounds the major diversification process, particularly in the West African Lower Guinea forests, which contain a complex geographic arrangement of topographic features and historical refugia. We used genomic data to investigate alternative mechanisms of diversification in the Gaboon forest frog, Scotobleps gabonicus, by first identifying population structure and...

Data from: Oxidative stress-mediated NFκB phosphorylation upregulates p62/SQSTM1 and promotes retinal pigmented epithelial cell survival through increased autophagy

Chunjuan Song, Sayak K. Mitter, Xiaoping Qi, Eleni Beli, Haripriya V. Rao, Jindong Ding, Colin S. Ip, Hongmei Gu, D. Akin, William A. Dunn, Catherine Bowes Rickman, Alfred S. Lewin, Maria B. Grant, Michael E. Boulton & Debra Akin
p62 is a scaffolding adaptor implicated in the clearance of protein aggregates by autophagy. Reactive oxygen species (ROS) can either stimulate or inhibit NFκB-mediated gene expression influencing cellular fate. We studied the effect of hydrogen peroxide (H2O2)-mediated oxidative stress and NFκB signaling on p62 expression in the retinal pigment epithelium (RPE) and investigated its role in regulation of autophagy and RPE survival against oxidative damage. Cultured human RPE cell line ARPE-19 and primary human adult...

Data from: A test of genomic modularity among life-history adaptations promoting speciation with gene flow

Gregory Ragland, Meredith M. Doellman, Peter J. Meyers, Glen R. Hood, Scott P. Egan, Thomas H. Q. Powell, Daniel A. Hahn, Patrik Nosil, Jeffrey L. Feder & Gregory J. Ragland
Speciation with gene flow may require adaptive divergence of multiple traits to generate strong ecologically based reproductive isolation. Extensive negative pleiotropy or physical linkage of genes in the wrong phase affecting these diverging traits may therefore hinder speciation, while genetic independence or “modularity” among phenotypic traits may reduce constraints and facilitate divergence. Here, we test whether the genetics underlying two components of diapause life history, initial diapause intensity and diapause termination timing, constrain differentiation between...

Data from: A novel molecular toolkit for rapid detection of the pathogen and primary vector of thousand cankers disease

Emel Oren, William Klingeman, Romina Gazis, John Moulton, Paris Lambdin, Mark Coggeshall, Jiri Hulcr, Steven J. Seybold & Denita Hadziabdic
Thousand Cankers Disease (TCD) of Juglans and Pterocarya (Juglandaceae) involves a fungal pathogen, Geosmithia morbida, and a primary insect vector, Pityophthorus juglandis. TCD was described originally from dying Juglans nigra trees in the western United States (USA), but it was reported subsequently from the eastern USA and northern Italy. The disease is often difficult to diagnose due to the absence of symptoms or signs on the bark surface of the host. Furthermore, disease symptoms can...

Data from: Splicing factor SF3B1K700E mutant dysregulates erythroid differentiation via aberrant alternative splicing of transcription factor TAL1

Shuiling Jin, Hairui Su, Ngoc-Tung Tran, Jing Song, Sydney S. Lu, Ying Li, Suming Huang, Omar Abdel-Wahab, Yanyan Liu & Xinyang Zhao
More than 60% of myeloid dysplasia syndrome (MDS) contains mutations in genes encoding for splicing factors such as SF3B1, U2AF, SRSF2 and ZRSR2. Mutations in SF3B1 are associated with 80% cases of refractory anemia with ring sideroblast (RARS), a subtype of MDS. SF3B1K700E is the most frequently mutated site among mutations on SF3B1. Yet the molecular mechanisms on how mutations of splicing factors lead to defective erythropoiesis are not clear. SF3B1K700E mutant binds to an...

Data from: Specialists and generalists coexist within a population of spider-hunting mud dauber wasps

Erin C. Powell & Lisa A. Taylor
Individual foraging specialization describes the phenomenon where conspecifics within a population of generalists exhibit differences in foraging behavior, each specializing on different prey types. Individual specialization is widespread in animals, yet is understudied in invertebrates, despite potential impacts to food web and population dynamics. Sceliphron caementarium (Hymenoptera: Sphecidae) is an excellent system to examine individual specialization. Females of these mud-dauber wasps capture and paralyze spiders which they store in mud nests to provision their offspring....

Data from: Resolving the Northern Hemisphere source region for the long-distance dispersal event that gave rise to the South American endemic dung moss Tetraplodon fuegianus

Lily Lewis, Elisabeth M. Biersma, Sarah B. Carey, Kent Holsinger, Stuart F. McDaniel, Ricardo Rozzi, Bernard Goffinet & Lily R. Lewis
Premise of the study—American bipolar plant distributions characterize taxa at various taxonomic ranks but are most common in the bryophytes at infraspecific and infrageneric levels. A previous study on the bipolar disjunction in the dung moss genus Tetraplodon found that direct long-distance dispersal from North to South in the Miocene - Pleistocene accounted for the origin of the Southern American endemic Tetraplodon fuegianus, congruent with other molecular studies on bipolar bryophytes. The previous study, however,...

Data from: Cut your losses: self-amputation of injured limbs increases survival

Zachary Emberts, Christine W. Miller, Daniel Kiehl, Colette M. St. Mary, Christine W Miller & Colette M St. Mary
Autotomy, self-induced limb loss, is an extreme trait observed throughout the animal kingdom; lizards drop their tails, crickets release their legs, and crabs drop their claws. These repeated evolutionary origins suggest that autotomy is adaptive. Yet, we do not have a firm understanding of the selective pressures that promote and maintain this extreme trait. Although multiple adaptive hypotheses exist, research has generally focused on autotomy’s adaptive value as a form of predator escape. However, autotomy...

Data from: Interacting effects of wildlife loss and climate on ticks and tick-borne disease

Georgia Titcomb, Brian F. Allan, Tyler Ainsworth, Henson Lauren, Tyler Hedlund, Robert M. Pringle, Todd M. Palmer, Laban Njoroge, Michael G. Campana, Robert C. Fleischer, John N. Mantas, Hillary S. Young, Lauren Henson & John Naisikie Mantas
Both large-wildlife loss and climatic changes can independently influence the prevalence and distribution of zoonotic disease. Given growing evidence that wildlife loss often has stronger community-level effects in low-productivity areas, we hypothesized that these perturbations would have interactive effects on disease risk. We experimentally tested this hypothesis by measuring tick abundance and the prevalence of tick-borne pathogens (Coxiella burnetii and Rickettsia spp.) within long-term, size-selective, large-herbivore exclosures replicated across a precipitation gradient in East Africa....

Registration Year

  • 2017

Resource Types

  • Dataset


  • University of Florida
  • Princeton University
  • Mpala Research Center and Wildlife Foundation
  • Michigan State University
  • Helmholtz Centre for Environmental Research
  • Stanford University
  • University of Notre Dame
  • Duke University
  • North-West University
  • University of Wyoming
  • University of California, Berkeley
  • Smithsonian Institution
  • Macquarie University
  • Florida International University
  • Indiana University Bloomington