42 Works

Data from: Predation on feather stars by regular echinoids as evidenced by laboratory and field observations and its paleobiological implications

Angela Stevenson, Forest J. Gahn, Tomasz K. Baumiller & George D. Sevastopulo
Among extant crinoids, the feather stars are the most diverse and occupy the greatest bathymetric range, being especially common in reef environments. Feather stars possess a variety of morphological, behavioral and physiological traits that have been hypothesized to be critical to their success, especially in their ability to cope with predation. However, knowledge of their predators is exceptionally scant, consisting primarily of circumstantial evidence of attacks by fishes. In this study the question whether regular...

Data from: Disentangling endogenous versus exogenous pattern formation in spatial ecology: a case study of the ant Azteca sericeasur in southern Mexico

Kevin Li, John H. Vandermeer & Ivette Perfecto
Spatial patterns in ecology can be described as reflective of environmental heterogeneity (exogenous), or emergent from dynamic relationships between interacting species (endogenous), but few empirical studies focus on the combination. The spatial distribution of the nests of Azteca sericeasur, a keystone tropical arboreal ant, is thought to form endogenous spatial patterns among the shade trees of a coffee plantation through self-regulating interactions with controlling agents (i.e. natural enemies). Using inhomogeneous point process models, we found...

Data from: Parapatric genetic introgression and phenotypic assimilation: testing conditions for introgression between Hercules beetles (Dynastes, Dynastinae)

Jen-Pan Huang
The prevalence and consequences of genetic introgression between species have been intensively debated. I used Hercules beetles as examples to test for conditions that may be associated with the occurrence of introgression. RADseq data were used to reconstruct the species tree and history of introgression between Hercules beetles. Image data from museum specimens were used to investigate the phenotypic similarity of two adaptive traits between species from two distinct climatic realms (Nearctic vs. Neotropical). Genetic...

Data from: Utilizing RADseq data for phylogenetic analysis of challenging taxonomic groups: a case-study in Carex sect. Racemosae

Rob Massatti, Anton A. Reznicek & L. Lacey Knowles
PREMISE OF THE STUDY: Relationships among closely related and recently diverged taxa can be especially difficult to resolve. Here we use both Sanger sequencing and next-generation RADseq data sets to estimate phylogenetic relationships among species of Carex section Racemosae (Cyperaceae), a clade largely restricted to high latitudes and elevations. Interest in relationships among these taxa derives from questions about the species’ biogeographic histories and possible links between diversification and Pleistocene glaciations. METHODS: A combination of...

Data from: Coral snakes predict the evolution of mimicry across New World snakes

Alison R. Davis Rabosky, Christian L. Cox, Daniel L. Rabosky, Pascal O. Title, Iris A. Holmes, Anat Feldman & Jimmy A. McGuire
Batesian mimicry, in which harmless species (mimics) deter predators by deceitfully imitating the warning signals of noxious species (models), generates striking cases of phenotypic convergence that are classic examples of evolution by natural selection. However, mimicry of venomous coral snakes has remained controversial because of unresolved conflict between the predictions of mimicry theory and empirical patterns in the distribution and abundance of snakes. Here we integrate distributional, phenotypic and phylogenetic data across all New World...

Data from: Glacial refugia, recolonisation patterns, and diversification forces in Alpine-endemic Megabunus harvestmen

Gregor A. Wachter, Anna Papadopoulou, Christoph Muster, Wolfgang Arthofer, L. Lacey Knowles, Florian M. Steiner & Birgit C. Schlick-Steiner
The Pleistocene climatic fluctuations had a huge impact on all life-forms, and various hypotheses regarding the survival of organisms during glacial periods have been postulated. In the European Alps, evidence has been found in support of refugia outside the ice shield (massifs de refuge) acting as sources for postglacial recolonisation of inner-Alpine areas. In contrast, evidence for survival on nunataks, ice-free areas above the glacier, remains scarce. Here, we combine multivariate genetic analyses with ecological...

Data from: Habitat, predators, and hosts regulate disease in Daphnia through direct and indirect pathways

Alexander T. Strauss, Marta S. Shocket, David J. Civitello, Jessica L. Hite, Rachel M. Penczykowski, Meghan A. Duffy, Carla E. Cáceres & Spencer R. Hall
Community ecology can link habitat to disease via interactions among habitat, focal hosts, other hosts, their parasites, and predators. However, complicated food web interactions (i.e., trophic interactions among predators, and their impacts on host density and diversity) often obscure the important pathways regulating disease. Here, we disentangle community drivers in a case study of planktonic disease, using a two-step approach. In step one, we tested univariate field patterns linking community interactions to two disease metrics....

Data from: Transcriptome-based phylogeny of endemic Lake Baikal amphipod species flock: fast speciation accompanied by frequent episodes of positive selection

Sergey A. Naumenko, Maria D. Logacheva, Nina V. Popova, Anna V. Klepikova, Aleksey A. Penin, Georgii A. Bazykin, Anna E. Etingova, Nikolai S. Mugue, Alexey S. Kondrashov & Lev Y. Yampolsky
Endemic species flocks inhabiting ancient lakes, oceanic islands and other long-lived isolated habitats are often interpreted as adaptive radiations. Yet molecular evidence for directional selection during species flocks radiation is scarce. Using partial transcriptomes of 64 species of Lake Baikal (Siberia, Russia) endemic amphipods and two non-endemic outgroups, we report a revised phylogeny of this species flock, and analyze evidence for positive selection within the endemic lineages. We confirm two independent invasions of amphipods into...

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: Tests of species-specific models reveal the importance of drought in postglacial range shifts of a Mediterranean-climate tree: insights from integrative distributional, demographic and coalescent modelling and ABC model selection

Jordan B. Bemmels, Pascal O. Title, Joaquín Ortego & L. Lacey Knowles
Past climate change has caused shifts in species distributions and undoubtedly impacted patterns of genetic variation, but the biological processes mediating responses to climate change, and their genetic signatures, are often poorly understood. We test six species-specific biologically informed hypotheses about such processes in canyon live oak (Quercus chrysolepis) from the California Floristic Province. These hypotheses encompass the potential roles of climatic niche, niche multidimensionality, physiological trade-offs in functional traits, and local-scale factors (microsites and...

Data from: Herbivores control effects of algal species richness on community biomass and stability in a laboratory microcosm experiment

Chase Rakowski & Bradley J. Cardinale
Hundreds of studies that have explored how biodiversity affects the productivity and stability of ecosystems have produced a consensus that communities composed of more species tend to have higher biomass that is more stable through time. However, the majority of this work stems from studies performed using highly simplified food webs, often composed of just primary producers competing for inorganic resources in the absence of trophic interactions. When studies have incorporated trophic interactions, diversity-function relationships...

Data from: The architecture of river networks can drive the evolutionary dynamics of aquatic populations

Andrea T. Thomaz, Mark R. Christie & L. Lacey Knowles
It is widely recognized that physical landscapes can shape genetic variation within and between populations. However, it is not well understood how riverscapes, with their complex architectures, affect patterns of neutral genetic diversity. Using a spatially explicit agent-based modeling (ABM) approach, we evaluate the genetic consequences of dendritic river shapes on local population structure. We disentangle the relative contribution of specific river properties to observed patterns of genetic variation by evaluating how different branching architectures...

Data from: Do macrophylogenies yield stable macroevolutionary inferences? An example from squamate reptiles

Pascal O. Title & Daniel L. Rabosky
Advances in the generation, retrieval, and analysis of phylogenetic data have enabled researchers to create phylogenies that contain many thousands of taxa. These “macrophylogenies”—large trees that typically derive from megaphylogeny, supermatrix, or supertree approaches—provide researchers with an unprecedented ability to conduct evolutionary analyses across broad phylogenetic scales. Many studies have now used these phylogenies to explore the dynamics of speciation, extinction, and phenotypic evolution across large swaths of the tree of life. These trees are...

Data from: Contrasting support for alternative models of genomic variation based on microhabitat preference: species-specific effects of climate change in alpine sedges

Rob Massatti & L. Lacey Knowles
Deterministic processes may uniquely affect codistributed species’ phylogeographic patterns such that discordant genetic variation among taxa is predicted. Yet, explicitly testing expectations of genomic discordance in a statistical framework remains challenging. Here, we construct spatially and temporally dynamic models to investigate the hypothesized effect of microhabitat preferences on the permeability of glaciated regions to gene flow in two closely related montane species. Utilizing environmental niche models from the Last Glacial Maximum and the present to...

Data from: Preoperative falls predict postoperative falls and other adverse patient-reported outcomes

Vanessa L. Kronzer, Michelle R. Jerry, Arbi Ben Abdallah, Troy S. Wildes, Susan L. Stark, Sherry L. McKinnon, Daniel L. Helsten, Anshuman Sharma & Michael S. Avidan
BACKGROUND: Falls are common and linked to morbidity. Our objectives were to characterize postoperative falls, and determine whether preoperative falls independently predicted postoperative falls (primary outcome), functional dependence, quality of life, complications, and readmission. METHODS: This prospective cohort study included 7982 unselected patients undergoing elective surgery. Data were collected from the medical record, a baseline survey, and follow-up surveys approximately 30days and one year after surgery. RESULTS: Fall rates (per 100 person-years) peaked at 175...

Data from: Assembling a species–area curve through colonization, speciation and human-mediated introduction

Evan P. Economo, Milan Janda, Benoit Guénard & Eli Sarnat
Aim: The fundamental biogeographical processes of colonization, speciation and extinction shape island biotas in space–time. On oceanic islands, area and isolation affect these processes and resulting biodiversity patterns. In the Anthropocene, a new human-mediated colonization dynamic is altering insular ecosystems world-wide. Here, we test predictions about the roles of archipelago area and isolation in structuring ant diversity patterns through effects on both natural and anthropogenic biogeographical processes. Location: Tropical Pacific islands. Methods: We compiled a...

Data from: Fitness costs of herbicide resistance across natural populations of the common morning glory, Ipomoea purpurea

Megan L. Van Etten, Adam Kuester, Shu-Mei Chang & Regina S. Baucom
Although fitness costs associated with plant defensive traits are widely expected, they are not universally detected, calling into question their generality. Here we examine the potential for life history trade-offs associated with herbicide resistance by examining seed germination, root growth, and above-ground growth across 43 naturally occurring populations of Ipomoea purpurea that vary in their resistance to RoundUp®, the most commonly used herbicide worldwide. We find evidence for life history trade-offs associated with all three...

Data from: Mechanical conflict system: a novel operant method for the assessment of nociceptive behavior

Steven Harte, Jessica B. Meyers, Renee R. Donahue, Bradley K. Taylor, Thomas J. Morrow & Steven E. Harte
A new operant test for preclinical pain research, termed the Mechanical Conflict System (MCS), is presented. Rats were given a choice either to remain in a brightly lit compartment or to escape to a dark compartment by crossing an array of height-adjustable nociceptive probes. Latency to escape the light compartment was evaluated with varying probe heights (0, .5, 1, 2, 3, and 4 mm above compartment floor) in rats with neuropathic pain induced by constriction...

Data from: Bayesian model selection with BAMM: effects of the model prior on the inferred number of diversification shifts

Jonathan S. Mitchell & Daniel L. Rabosky
1. Understanding variation in rates of speciation and extinction -- both among lineages and through time -- is critical to the testing of many hypotheses about macroevolutionary processes. BAMM is a flexible Bayesian framework for inferring the number and location of shifts in macroevolutionary rate across phylogenetic trees and has been widely used in empirical studies. BAMM requires that researchers specify a prior probability distribution on the number of diversification rate shifts before conducting an...

Data from: Fine with heat, problems with water: microclimate alters water loss in a thermally adapted insular lizard

Anat Belasen, Kinsey Brock, Binbin Li, Dimitra Chremou, Efstratios Valakos, Panayiotis Pafilis, Barry Sinervo & Johannes Foufopoulos
Global change, including habitat isolation and climate change, has both short- and long-term impacts on wildlife populations. For example, genetic drift and inbreeding result in genetic impoverishment in small, isolated populations, while species undergo range shifts or adaptive phenotypic change in response to shifts in environmental temperatures. In this study, we utilize a model system in which Holocene landscape changes have occurred to examine long-term effects of population isolation. To examine how isolation may constrain...

Data from: Foliar damage beyond species distributions is partly explained by distance dependent interactions with natural enemies

Daniel S. W. Katz & Inés Ibáñez
Plant distributions are expected to shift in response to climate change, and range expansion dynamics will be shaped by the performance of individuals at the colonizing front. These plants will encounter new biotic communities beyond their range edges, and the net outcome of these encounters could profoundly affect colonization success. However, little is known about how biotic interactions vary across range edges and this has hindered efforts to predict changes in species distributions in response...

Data from: Convergent evolution in social swallows (Aves: Hirundinidae)

Allison E. Johnson, Jonathan S. Mitchell & Mary Bomberger Brown
Behavioral shifts can initiate morphological evolution by pushing lineages into new adaptive zones. This has primarily been examined in ecological behaviors, such as foraging, but social behaviors may also alter morphology. Swallows and martins (Hirundinidae) are aerial insectivores that exhibit a range of social behaviors, from solitary to colonial breeding and foraging. Using a well-resolved phylogenetic tree, a database of social behaviors, and morphological measurements, we ask how shifts from solitary to social breeding and...

Data from: Genetic basis of octanoic acid resistance in Drosophila sechellia: functional analysis of a fine-mapped region

Jose M. Andrade López, Stephen M. Lanno, Jeremy M. Auerbach, Eva C. Moskowitz, Laura A. Sligar, Patricia J. Wittkopp & Joseph D. Coolon
Drosophila sechellia is a species of fruit fly endemic to the Seychelles islands. Unlike its generalist sister species, D. sechellia has evolved to be a specialist on the host plant Morinda citrifolia. This specialization is interesting because the plant's fruit contains secondary defense compounds, primarily octanoic acid (OA), that are lethal to most other Drosophilids. Although ecological and behavioral adaptations to this toxic fruit are known, the genetic basis for evolutionary changes in OA resistance...

Data from: A resurrection experiment finds evidence of both reduced genetic diversity and potential adaptive evolution in the agricultural weed Ipomoea purpurea

Adam Kuester, Ariana Wilson, Shu-Mei Chang & Regina S. Baucom
Despite the negative economic and ecological impact of weeds, relatively little is known about the evolutionary mechanisms that influence their persistence in agricultural fields. Here, we use a resurrection approach to examine the potential for genotypic and phenotypic evolution in Ipomoea purpurea, an agricultural weed that is resistant to glyphosate, the most widely used herbicide in current-day agriculture. We found striking reductions in allelic diversity between cohorts sampled nine years apart (2003 vs. 2012), suggesting...

Data from: Assessing the effects of a sequestered germline on interdomain lateral gene transfer in Metazoa

Lindy M Jensen, Jessica R Grant, , Laura A. Katz & Lindy Jensen
A sequestered germline in Metazoa has been argued to be an obstacle to lateral gene transfer (LGT), though few studies have specifically assessed this claim. Here we test the hypothesis that the origin of a sequestered germline reduced LGT events in Bilateria (i.e. triploblast lineages) as compared to early-diverging Metazoa (i.e. Ctenophora, Cnidaria, Porifera, and Placozoa). We analyze single-gene phylogenies generated with over 900 species, sampled from among Bacteria, Archaea and Eukaryota to identify well-supported...

Registration Year

  • 2016

Resource Types

  • Dataset


  • University of Michigan-Ann Arbor
  • University of Georgia
  • Okinawa Institute of Science and Technology
  • Purdue University
  • Indiana University Bloomington
  • University of Hong Kong
  • Georgia Southern University
  • University of the Basque Country
  • University of Massachusetts Amherst
  • Field Museum of Natural History