25 Works

Data from: Neighborhood defense gene similarity effects on tree performance: a community transcriptomic approach

Jenny Zambrano, Yoshiko Iida, Robert Howe, Luxiang Lin, Maria Natalia Umana, Amy Wolf, Samantha J. Worthy & Nathan G. Swenson
The structure and dynamics of ecological communities are ultimately the outcome of the differential demographic rates of individuals. Individual growth and mortality rates largely result from the interaction between an organism's phenotype and the abiotic and biotic environment. Functional traits have been used extensively over the past decade to elucidate links among phenotypes, demography and community dynamics. A fundamental weakness of most functional trait approaches is the use of ‘soft’ traits associated with resource acquisition...

Data from: Year-round spatiotemporal distribution of harbour porpoises within and around the Maryland wind energy area

Jessica E. Wingfield, Michael O'Brien, Vyacheslav Lyubchich, Jason J. Roberts, Patrick N. Halpin, Aaron N. Rice, Helen Bailey & Michael O’Brien
Offshore windfarms provide renewable energy, but activities during the construction phase can affect marine mammals. To understand how the construction of an offshore windfarm in the Maryland Wind Energy Area (WEA) off Maryland, USA, might impact harbour porpoises (Phocoena phocoena), it is essential to determine their poorly understood year-round distribution. Although habitat-based models can help predict the occurrence of species in areas with limited or no sampling, they require validation to determine the accuracy of...

Data from: Combined effects of seed and soil quality drive seedling performance of a late-successional canopy tree in a tropical forest

Jenny Zambrano, Henry F. Howe & Miquel Gonzalez-Meler
Habitat loss and fragmentation affect the structure and functioning of forested ecosystems worldwide, yet we lack an understanding of how species respond to environmental changes. Here, we examined reproductive success and seedling performance of Poulsenia armata (Moraceae) in continuous and fragmented forests of Los Tuxtlas, southern Mexico. We further investigated how maternal habitat and soil conditions manifested in the seedling stage. We determined seed quality and seedling performance by combining isotopic analyses in seed quality...

Data from: Prey preference follows phylogeny: evolutionary dietary patterns within the marine gastropod group Cladobranchia (Gastropoda: Heterobranchia: Nudibranchia)

Jessica A. Goodheart, Adam L. Bazinet, Ángel Valdés, Allen G. Collins & Michael P. Cummings
Background: The impact of predator-prey interactions on the evolution of many marine invertebrates is poorly understood. Since barriers to genetic exchange are less obvious in the marine realm than in terrestrial or freshwater systems, non-allopatric divergence may play a fundamental role in the generation of biodiversity. In this context, shifts between major prey types could constitute important factors explaining the biodiversity of marine taxa, particularly in groups with highly specialized diets. However, the scarcity of...

Data from: Rediscovery of the enigmatic fungus-farming ant \"Mycetosoritis\" asper Mayr (Hymenoptera: Formicidae): Implications for taxonomy, phylogeny, and the evolution of agriculture in ants

Jeffrey Sosa-Calvo, Ana Ješovnik, Heraldo L. Vasconcelos, , Ted R. Schultz & Mauricio Bacci
We report the rediscovery of the exceedingly rarely collected and enigmatic fungus-farming ant species Mycetosoritis asper. Since the description of the type specimen in 1887, only four additional specimens are known to have been added to the world's insect collections. Its biology is entirely unknown and its phylogenetic position within the fungus-farming ants has remained puzzling due to its aberrant morphology. In 2014 we excavated and collected twenty-one colonies of M. asper in the Floresta...

Data from: Adult plasticity in African Cichlids: rapid changes in opsin expression in response to environmental light differences

Sri Pratima Nandamuri, Miranda R. Yourick & Karen L. Carleton
Phenotypic plasticity allows organisms to adapt quickly to local environmental conditions and could facilitate adaptive radiations. Cichlids have recently undergone an adaptive radiation in Lake Malawi where they inhabit diverse light environments and tune their visual sensitivity through differences in cone opsin expression. While cichlid opsin expression is known to be plastic over development, whether adults remain plastic is unknown. Adult plasticity in visual tuning could play a role in cichlid radiations by enabling survival...

Data from: Population genomics and geographical parthenogenesis in Japanese harvestmen (Opiliones, Sclerosomatidae, Leiobunum)

Mercedes Burns, Marshal Hedin & Nobuo Tsurusaki
Naturally-occurring population variation in reproductive mode presents an opportunity for researchers to test hypotheses regarding the evolution of sex. Such populations frequently assume a geographical pattern, in which parthenogenesis-dominated populations are widely dispersed, with narrowly distributed sexual populations. We evaluate the geographic distribution of genomic signatures associated with parthenogenesis using nuclear and mitochondrial DNA sequence data from two Japanese harvestman sister taxa, Leiobunum manubriatum and L. globosum. Asexual reproduction is putatively facultative in these species,...

Data from: Foraging strategies of generalist and specialist Old World nectar bats in response to temporally variable floral resources

Alyssa B. Stewart & Michele R. Dudash
Foraging theory predicts that generalist foragers should switch resources more readily, while specialist foragers should remain constant to preferred food resources. Plant-pollinator interactions provide a convenient system to test such predictions because floral resources are often temporally patchy, thus requiring long-lived pollinators to switch resources seasonally. Furthermore, flowering phenologies range from ‘steady-state’ (low-rewarding but highly reliable) to ‘big-bang’ (high-rewarding but ephemeral) plant species. We assessed how nectarivorous Old World bats respond to this temporally variable...

Data from: Contemporary evolution of a Lepidopteran species, Heliothis virescens, in response to modern agricultural practices

Megan L. Fritz, Alexandra M. DeYonke, Alexie Papanicolaou, Stephen Micinski, John Westbrook & Fred Gould
Adaptation to human-induced environmental change has the potential to profoundly influence the genomic architecture of affected species. This is particularly true in agricultural ecosystems, where anthropogenic selection pressure is strong. Heliothis virescens primarily feeds on cotton in its larval stages and US populations have been declining since the widespread planting of transgenic cotton, which endogenously expresses proteins derived from Bacillus thuringiensis (Bt). No physiological adaptation to Bt toxin has been found in the field, so...

Data from: Food-sharing vampire bats are more nepotistic under conditions of perceived risk

Gerald G. Carter, Gerald S. Wilkinson & Rachel A. Page
Cooperative behaviors exist along a spectrum of cost, from no-risk scenarios of mutual benefit to self-sacrificing altruism. Hamilton’s rule predicts that as risk increases, cooperative decisions should become increasingly kin-biased (nepotistic). To manipulate the perceived risks of regurgitated food sharing in captive vampire bats, we created a novel “rescue” condition, which required that donors leave their preferred roosting location, descend to an illuminated spot on the cage floor, and regurgitate food across cage bars to...

Data from: Contrasting patterns of X-chromosome divergence underlie multiple sex-ratio polymorphisms in stalk-eyed flies

Kimberly A. Paczolt, Josephine A. Reinhardt & Gerald S. Wilkinson
Sex-linked segregation distorters cause offspring sex ratios to differ from equality. Theory predicts that such selfish alleles may either go to fixation and cause extinction, reach a stable polymorphism, or initiate an evolutionary arms race with genetic modifiers. The extent to which a sex ratio distorter follows any of these trajectories in nature is poorly known. Here we used X-linked sequence and simple tandem repeat data for three sympatric species of stalk-eyed flies (Teleopsis whitei...

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: Determination of the genetic architecture underlying short wavelength sensitivity in Lake Malawi cichlids

Sri Pratima Nandamuri, Brian E. Dalton & Karen L. Carleton
African cichlids are an exemplary system to study organismal diversity and rapid speciation. Species differ in external morphology including jaw shape and body coloration, but also differ in sensory systems including vision. All cichlids have 7 cone opsin genes with species differing broadly in which opsins are expressed. The differential opsin expression results in closely related species with substantial differences in spectral sensitivity of their photoreceptors. In this work, we take a first step in...

Data from: Climate change, transgenic corn adoption and field-evolved resistance in corn earworm

P. Dilip Venugopal & Galen P. Dively
Increased temperature anomaly during the twenty-first century coincides with the proliferation of transgenic crops containing the bacterium Bacillus thuringiensis (Berliner) (Bt) to express insecticidal Cry proteins. Increasing temperatures profoundly affect insect life histories and agricultural pest management. However, the implications of climate change on Bt crop–pest interactions and insect resistance to Bt crops remains unexamined. We analysed the relationship of temperature anomaly and Bt adoption with field-evolved resistance to Cry1Ab Bt sweet corn in a...

Data from: Imperfect pathogen detection from non-invasive skin swabs biases disease inference

Graziella V. DiRenzo, Evan H. Campbell Grant, Ana V. Longo, Christian Che-Castaldo, Kelly R. Zamudio & Karen R. Lips
1. Conservation managers rely on accurate estimates of disease parameters, such as pathogen prevalence and infection intensity, to assess disease status of a host population. However, these disease metrics may be biased if low-level infection intensities are missed by sampling methods or laboratory diagnostic tests. These false negatives underestimate pathogen prevalence and overestimate mean infection intensity of infected individuals. 2. Our objectives were two-fold. First, we quantified false negative error rates of Batrachochytrium dendrobatidis on...

Data from: Oscillatory signatures underlie growth regimes in Arabidopsis pollen tubes: computational methods to estimate tip location, periodicity and synchronization in growing cells

Daniel S.C. Damineli, Maria Teresa Portes & José A. Feijó
Oscillations in pollen tubes have been reported for many cellular processes, including growth, extracellular ion fluxes, and cytosolic ion concentrations. However, there is a shortage of quantitative methods to measure and characterize the different dynamic regimes observed. Herein, a suite of open-source computational methods and original algorithms were integrated into an automated analysis pipeline that we employed to characterize specific oscillatory signatures in pollen tubes of Arabidopsis thaliana (Col-0). Importantly, it enabled us to detect...

Data from: Centennial-scale reductions in nitrogen availability in temperate forests of the United States

K. K. McLauchlan, L. M. Gerhart, J. J. Battles, J. M. Craine, A. J. Elmore, P. E. Higuera, M. C. Mack, B. E. McNeil, D. M. Nelson, N. Pederson & S. S. Perakis
Forests cover 30% of the terrestrial Earth surface and are a major component of the global carbon (C) cycle. Humans have doubled the amount of global reactive nitrogen (N), increasing deposition of N onto forests worldwide. However, other global changes—especially climate change and elevated atmospheric carbon dioxide concentrations—are increasing demand for N, the element limiting primary productivity in temperate forests, which could be reducing N availability. To determine the long-term, integrated effects of global changes...

Data from: Transcriptomic alterations during ageing reflect the shift from cancer to degenerative diseases in the elderly

Peer Aramillo Irizar, Sascha Schäuble, Daniela Esser, Marco Groth, Christiane Frahm, Steffen Priebe, Mario Baumgart, Nils Hartmann, Shiva Marthandan, Uwe Menzel, Jule Müller, Silvio Schmidt, Volker Ast, Amke Caliebe, Rainer König, Michael Krawczak, Michael Ristow, Stefan Schuster, Alessandro Cellerino, Stephan Diekmann, Christoph Englert, Peter Hemmerich, Jürgen Sühnel, Reinhard Guthke, Otto W. Witte … & Christoph Kaleta
Disease epidemiology during ageing shows a transition from cancer to degenerative chronic disorders as dominant contributors to mortality in the old. Nevertheless, it has remained unclear to what extent molecular signatures of ageing reflect this phenomenon. Here we report on the identification of a conserved transcriptomic signature of ageing based on gene expression data from four vertebrate species across four tissues. We find that ageing-associated transcriptomic changes follow trajectories similar to the transcriptional alterations observed...

Data from: Local neighbourhood and regional climatic contexts interact to explain tree performance

Jenny Zambrano, Philippe Marchand & Nathan G. Swenson
Tree neighbourhood modelling has significantly contributed to our understanding of the mechanisms structuring communities. Investigations into the impact of neighbouring crowding on tree performance have generally been conducted at local scales, missing important regional-scale context such as the suitability of the climate for each species. Favourable climates may enhance tree performance, but this may come at the cost of increased neighbourhood crowding and competition negatively impacting survival and growth. Through the synthesis of continental-scale forest...

Data from: Land use history and seed dispersal drive divergent plant community assembly patterns in urban vacant lots

Anna L. Johnson, Dorothy Borowy & Christopher M. Swan
1. Despite high levels of disturbance and habitat modification, urban ecosystems still host substantial levels of biodiversity. The processes that maintain existing levels of diversity, however, remain understudied. Identifying the links between urban ecological processes and patterns has, therefore, become a fundamental research goal to support urban biodiversity and ecosystem functioning. 2. We conducted a study to determine how the diversity and composition of urban plant communities is affected by spatially and temporally variable land...

Data from: Ecological interactions and coexistence are predicted by gene expression similarity in freshwater green algae

Anita Narwani, Bastian Bentlage, Markos A. Alexandrou, Keith J. Fritschie, Charles Delwiche, Todd H. Oakley & Bradley J. Cardinale
Phenotypic variation controls the species interactions which determine whether or not species coexist. Long-standing hypotheses in ecology and evolution posit that phenotypic differentiation enables coexistence by increasing the size of niche differentiation. This hypothesis has only been tested using macroscopic traits to date, but niche differentiation, particularly of microscopic organisms, also occurs at the molecular and metabolic level. We examined how phenotypic variation that arises at the level of gene expression over evolutionary time affects...

Data from: The role of transcriptomes linked with responses to light environment on seedling mortality in a subtropical forest, China

Baocai Han, Maria Natalia Umana, Xiangcheng Mi, Xiaojuan Liu, Lei Chen, Yunquan Wang, Yu Liang, Wei Wei & Keping Ma
Differences in seedling survival in trees have a lasting imprint on seedling, juvenile and adult community structure. Identifying the drivers of these differences, therefore, is a critical research objective that ultimately requires knowledge regarding how organismal function interacts with the local environment to influence survival rates. In tree communities, differences in light use strategies are frequently invoked to explain differences in seedling demographic performance through growth and survival trade-offs. For example, shade-tolerant species grow slowly...

Data from: Applying landscape genomic tools to forest management and restoration of Hawaiian koa (Acacia koa) in a changing environment

Paul F. Gugger, Christina T. Liang, Victoria L. Sork, Paul Hodgskiss & Jessica W. Wright
Identifying and quantifying the importance of environmental variables in structuring population genetic variation can help inform management decisions for conservation, restoration, or reforestation purposes, both in current and future environmental conditions. Landscape genomics offers a powerful approach for understanding the environmental factors that currently associate with genetic variation, and given those associations, where populations may be most vulnerable under future environmental change. Here, we applied genotyping by sequencing to generate over 11,000 single-nucleotide polymorphisms from...

Data from: Multiresponse algorithms for community-level modeling: review of theory, applications, and comparison to species distribution models

Diego Nieto-Lugilde, Katlin C. Maguire, Jessica L. Blois, John W. Williams, Matthew C. Fitzpatrick & Kaitlin C. Maguire
1.Community-level models (CLMs) consider multiple, co-occurring species in model fitting and are lesser known alternatives to species distribution models (SDMs) for analyzing and predicting biodiversity patterns. CLMs simultaneously model multiple species, including rare species, while reducing overfitting and implicitly considering drivers of co-occurrence. Many CLMs are direct extensions of well-known SDMs and therefore should be familiar to ecologists. However, CLMs remain underutilized, and there have been few tests of their potential benefits and no systematic...

Data from: Movements of four native Hawaiian birds across a naturally fragmented landscape

Jessie L. Knowlton, David J. Flaspohler, Eben H. Paxton, Tadashi Fukami, Christian P. Giardina, Daniel S. Gruner & Erin E. Wilson Rankin
Animals often increase their fitness by moving across space in response to temporal variation in habitat quality and resource availability, and as a result of intra and inter-specific interactions. The long-term persistence of populations and even whole species depends on the collective patterns of individual movements, yet animal movements have been poorly studied at the landscape level. We quantified movement behavior within four native species of Hawaiian forest birds in a complex lava-fragmented landscape: Hawai‛i...

Registration Year

  • 2017

Resource Types

  • Dataset


  • University of Maryland, College Park
  • United States Geological Survey
  • United States Department of Agriculture
  • Chinese Academy of Sciences
  • National Socio-Environmental Synthesis Center
  • Cornell University
  • Kansas State University
  • California Polytechnic State University
  • Michigan Technological University
  • University of Guam