59 Works

Data from: Climate-mediated hybrid zone movement revealed with genomics, museum collection and simulation modeling

Sean F. Ryan, Jillian M. Deines, J. Mark Scriber, Michael E. Pfrender, Stuart E. Jones, Scott J. Emrich & Jessica J. Hellmann
Climate-mediated changes in hybridization will dramatically alter the genetic diversity, adaptive capacity and evolutionary trajectory of interbreeding species. Our ability to predict the consequences of such changes will be key to future conservation and management decisions. Here we tested through simulations how recent warming (over a 32-year period) is affecting the geographic extent of a climate-mediated developmental threshold implicated in maintaining a butterfly hybrid zone (Papilio glaucus and Papilio canadensis; Lepidoptera: Papilionidae). These simulations predict...

Data from: Brassicales phylogeny inferred from 72 plastid genes: a reanalysis of the phylogenetic localization of two paleopolyploid events and origin of novel chemical defenses

Patrick P. Edger, Jocelyn C. Hall, Alex Harkess, Michelle Tang, Jill Coombs, Setareh Mohammadin, M. Eric Schranz, Zhiyong Xiong, James Leebens-Mack, Blake C. Meyers, Kenneth J. Systma, Marcus A. Koch, Ihsan A. Al-Shehbaz, J. Chris Pires & Kenneth J. Sytsma
PREMISE OF THE STUDY - Previous phylogenetic studies employing molecular markers have yielded various insights into the evolutionary history across Brassicales, but many relationships between families remain poorly supported or unresolved. A recent phylotranscriptomic approach utilizing 1155 nuclear markers obtained robust estimates for relationships among 14 of 17 families. Here we report a complete family‐level phylogeny estimated using the plastid genome. METHODS - We conducted phylogenetic analyses on a concatenated data set comprising 44,926 bp...

Data from: Disentangling the genetic effects of refugial isolation and range expansion in a trans-continentally distributed species

Brendan N. Reid, Jamie M. Kass, Seth Wollney, Evelyn L. Jensen, Michael A. Russello, Ella M. Viola, Jenna Pantophlet, John B. Iverson, Marcus Z. Peery, Christopher J. Raxworthy & Eugenia Naro-Maciel
In wide-ranging taxa with historically dynamic ranges, past allopatric isolation and range expansion can both influence the current structure of genetic diversity. Considering alternate historical scenarios involving expansion from either a single refugium or from multiple refugia can be useful in differentiating the effects of isolation and expansion. Here, we examined patterns of genetic variability in the trans-continentally distributed painted turtle (Chrysemys picta). We utilized an existing phylogeographic dataset for the mitochondrial control region and...

Data from: Individual-level trait variation and negative density dependence affects growth in tropical tree seedlings

Maria Natalia Umana, Elise F. Zipkin, Caicai Zhang, Min Cao, Luxiang Lin & Nathan G. Swenson
1. Individual-level interactions with neighbours and their surrounding environments are key factors influencing performance that ultimately shape and maintain diversity in tropical plant communities. Theory predicts that the strength of these interactions depends on the similarity among neighbours, the turnover in composition caused by individuals that enter as new recruits and individuals that die, and fitting to local conditions. Despite considerable phenotypic variation among individuals and high community dynamics, these three factors have rarely been...

Data from: Host cues mediate growth and establishment of oak mistletoe (Phoradendron leucarpum, Viscaceae), an aerial parasitic plant.

Christopher P. Randle, Brandi C. Cannon, Amber L. Faust, Angela K. Hawkins, Sarah E. Cabrera, Stephen Lee, Amy A. Perez, Michelle L. Lewis, James Sopas, Timothy J. Verastegui, Justin K. Williams & Sara E. Cabrera
The oak mistletoe (Phoradendron leucarpum, Viscaceae) is well-documented to exhibit preference for a few potential host species in a given locality, even when many potential host species are present. In trying to explain this distribution, we examined the mechanisms by which mistletoe seedlings recognize potentially suitable hosts in the Piney Woods ecoregion of east Texas. An initial survey of patterns of infection on the campus of Sam Houston State University revealed that water oak (Quercus...

Data from: An updated gene atlas for maize reveals organ-specific and stress-induced genes

Genevieve M. Hoopes, John P. Hamilton, Joshua C. Wood, Eddi Esteban, Asher Pasha, Brieanne Vaillancourt, Nicholas J. Provart & C. Robin Buell
Maize(Zea mays L.), a model species for genetic studies, is one of the two most important crop species worldwide.The genome sequence of the reference genotype, B73, representative of the stiff stalk heterotic group was recently updated (AGPv4) using long‐read sequencing and optical mapping technology. To facilitate the use of AGPv4 and to enable functional genomic studies and association of genotype with phenotype, we determined expression abundances for replicated mRNA‐sequencing datasets from 79 tissues and five...

Data from: Prediction of cooking time for soaked and unsoaked dry beans (Phaseolus vulgaris L.) using hyperspectral imaging technology

Fernando A. Mendoza, Jason A. Wiesinger, Renfu Lu, Susan Nchimbi-Msolla, Phillip N. Miklas, James D. Kelly & Karen A. Cichy
The cooking time of dry beans varies widely by genotype and is also influenced by the growing environment, storage conditions and cooking method. Thus, high throughput phenotyping methods to assess cooking time would be useful to breeders interested in developing cultivars with desired cooking time. The objective of this study was to evaluate the performance of hyperspectral imaging technology for predicting dry bean cooking time. Fourteen dry bean (Phaseolus vulgaris L.) genotypes with a wide...

Data from: Landscape heterogeneity is key to forecasting outcomes of plant reintroduction

T. Trevor Caughlin, Ellen I. Damschen, Nick M. Haddad, Douglas J. Levey, Christopher Warneke & Lars A. Brudvig
Conservation and restoration projects often involve starting new populations by introducing individuals into portions of their native or projected range. Such efforts can help meet many related goals, including habitat creation, ecosystem service provisioning, assisted migration, and the reintroduction of imperiled species following local extirpation. The outcomes of reintroduction efforts, however, are highly variable, with results ranging from local extinction to dramatic population growth; reasons for this variation remain unclear. Here, we ask whether population...

Data from: Legacy effects of land use on soil nitrous oxide emissions in annual crop and perennial grassland ecosystems

Michael Abraha, Ilya Gelfand, Stephen K. Hamilton, Jiquan Chen & G. Philip Robertson
Land use conversions into and out of agriculture may influence soil-atmosphere greenhouse gas fluxes for many years. We tested the legacy effects of land use on cumulative soil nitrous oxide (N2O) fluxes for five years following conversion of 22 year-old Conservation Reserve Program (CRP) grasslands and conventionally tilled agricultural fields (AGR) to continuous no-till corn, switchgrass, and restored prairie. An unconverted CRP field served as a reference. We assessed the labile soil C pool of...

Data from: Trans-species predictors of tree leaf mass

Garret T. Dettmann, Dave W. MacFarlane & David W. MacFarlane
Tree leaf mass is a small, highly variable, but critical, component of forest ecosystems. Estimating leaf mass on standing trees with models is challenging because leaf mass varies both within and between tree species and at different locations and points in time. Typically, models for estimating tree leaf mass are species-specific, empirical models that predict intra-specific variation from stem diameter at breast height (DBH). Such models are highly limited in their application because there are...

Data from: Plant community responses to long-term fertilization: changes in functional group abundance drive changes in species richness

Timothy L. Dickson & Katherine L. Gross
Declines in species richness due to fertilization are typically rapid and associated with increases in aboveground production. However, in a long-term experiment examining the impacts of fertilization in an early successional community, we found it took 14 years for plant species richness to significantly decline in fertilized plots, despite fertilization causing a rapid increase in aboveground production. To determine what accounted for this lag in the species richness response, we examined several potential mechanisms. We...

Data from: Weed evolution: genetic differentiation among wild, weedy, and crop radish

Amanda Charbonneau, David Tack, Allison Lale, Josh Goldston, Mackenzie Caple, Emma Conner, Oz Barazani, Jotham Ziffer-Berger, Ian Dworkin & Jeffrey K. Conner
Approximately 200 weed species are responsible for more than 90% of crop losses and these comprise less than one percent of all named plant species, suggesting that there are only a few evolutionary routes that lead to weediness. Agricultural weeds can evolve along three main paths: they can be escaped crops, wild species, or crop-wild hybrids. We tested these three hypotheses in weedy radish, a weed of small grains and an emerging model for investigating...

Data from: Acid secretion by the boring organ of the burrowing giant clam, Tridacna crocea

Richard W. Hill, Eric J. Armstrong, Kazuo Inaba, Masaya Morita, Martin Tresguerres, Jonathon H. Stillman, Jinae N. Roa & Garfield T. Kwan
The giant clam Tridacna crocea, native to Indo-Pacific coral reefs, is noted for its unique ability to bore fully into coral rock and is a major agent of reef bioerosion. However, T. crocea’s mechanism of boring has remained a mystery despite decades of research. By exploiting a new, two-dimensional pH-sensing technology and manipulating clams to press their presumptive boring tissue (the pedal mantle) against pH-sensing foils, we show that this tissue lowers the pH of...

Data from: Parental care and sibling competition independently increase phenotypic variation among burying beetle siblings

Matthew Schrader, Benjamin J.M. Jarrett, Rebecca M. Kilner & Benjamin J. M. Jarrett
Several recent hypotheses suggest that parental care can influence the extent of phenotypic variation within populations; however, there have been few tests of these ideas. We exploited the facultative nature of post-hatching parental care in the burying beetle, Nicrophorus vespilloides, to test whether parental care influences the expression of phenotypic variation in an important fitness trait (body size). We found that parental care and brood size (which influences sibling competition) had positive and independent effects...

Data from: Crop rotational diversity enhances belowground communities and functions in an agroecosystem

L. K. Tiemann, A. S. Grandy, E. E. Atkinson, E. Marin-Spiotta & M. D. McDaniel
Biodiversity loss, an important consequence of agricultural intensification, can lead to reductions in agroecosystem functions and services. Increasing crop diversity through rotation may alleviate these negative consequences by restoring positive aboveground–belowground interactions. Positive impacts of aboveground biodiversity on belowground communities and processes have primarily been observed in natural systems. Here, we test for the effects of increased diversity in an agroecosystem, where plant diversity is increased over time through crop rotation. As crop diversity increased...

Data from: Genetic basis of photosynthetic responses to cold in two locally adapted populations of Arabidopsis thaliana

Christopher G. Oakley, Linda Savage, Samuel Lotz, G. Rudd Larson, Michael F. Thomashow, David M. Kramer & Douglas W. Schemske
Local adaptation is common, but the traits and genes involved are often unknown. Physiological responses to cold probably contribute to local adaptation in wide-ranging species, but the genetic basis underlying natural variation in these traits has rarely been studied. Using a recombinant inbred (495 lines) mapping population from locally adapted populations of Arabidopsis thaliana from Sweden and Italy, we grew plants at low temperature and mapped quantitative trait loci (QTLs) for traits related to photosynthesis:...

Data from: Age‐dependent leaf physiology and consequences for crown‐scale carbon uptake during the dry season in an Amazon evergreen forest

Loren P. Albert, Jin Wu, Neill Prohaska, Plinio Barbosa De Camargo, Travis E. Huxman, Edgard S. Tribuzy, Valeriy Y. Ivanov, Rafael S. Oliveira, Sabrina Garcia, Marielle N. Smith, Raimundo Cosme Oliveira Junior, Natalia Restrepo-Coupe, Rodrigo Da Silva, Scott C. Stark, Giordane A. Martins, Deliane V. Penha & Scott R. Saleska
* Satellite and tower-based metrics of forest-scale photosynthesis generally increase with dry season progression across central Amazônia, but the underlying mechanisms lack consensus. * We conducted demographic surveys of leaf age composition, and measured age-dependence of leaf physiology in broadleaf canopy trees of abundant species at a central eastern Amazon site. Using a novel leaf-to-branch scaling approach, we used this data to independently test the much-debated hypothesis—arising from satellite and tower-based observations—that leaf phenology could...

Data from: Ecosystem carbon exchange on conversion of Conservation Reserve Program grasslands to annual and perennial cropping systems

Michael Abraha, Stephen K. Hamilton, Jiquan Chen & G. Philip Robertson
Land use changes into and out of agricultural production may substantially influence ecosystem carbon (C) balance for many years. We examined ecosystem C balances for eight years after the conversion of 22 year-old Conservation Reserve Program (CRP) grasslands and formerly tilled agricultural fields (AGR) to annual (continuous no-till corn) and perennial (switchgrass and restored prairie) cropland. An unconverted CRP field (CRP-Ref) was maintained as a historical reference. Ecosystem C balance was assessed using adjusted net...

Data from: Grazing effect on grasslands escalated by abnormal precipitations in Inner Mongolia

Maowei Liang, Jiquan Chen, Elise S. Gornish, Zhiyong Li, Xue Bai & Cunzhu Liang
1. Grazing effects on arid and semi-arid grasslands can be constrained by aridity. Plant functional groups (PFGs) are the most basic component of community structure (CS) and biodiversity & ecosystem function (BEF). They have been suggested as identity-dependent in quantifying the responses to grazing intensity and drought severity. Here we examine how the relationships among PFGs, CS, BEF, and grazing intensity are driven by climatic drought. 2. We conducted a manipulative experiment with three grazing...

Data from: Limited genetic evidence for host plant-related differentiation in the Western cherry fruit fly Rhagoletis indifferens (Diptera: Tephritidae)

Gilbert Saint Jean, Glen R. Hood, Scott P. Egan, Thomas H.Q. Powell, Hannes Schuler, Meredith M. Doellman, Mary M. Glover, James J. Smith, Wee L. Yee, Robert B. Goughnour, Howard M.A. Thistlewood, Sheri A. Maxwell, Nusha Keyghobadi, Juan Rull, Martin Aluja, Jeffrey L. Feder & Thomas H. Q. Powell
The shift of the fruit fly Rhagoletis pomonella (Walsh) in the mid-1800s from downy hawthorn, Crataegus mollis (Torrey & Asa Gray) Scheele, to introduced domesticated apple, Malus domestica (Borkhausen), in the eastern USA is a model for ecological divergence with gene flow. A similar system may exist in the northwestern USA and British Columbia, Canada, where Rhagoletis indifferens Curran (Diptera: Tephritidae) attacks the native bitter cherry Prunus emarginata (Douglas ex Hooker) Eaton (Rosaceae). Populations of...

Data from: Soil microbial communities alter conspecific and congeneric competition consistent with patterns of field coexistence in three Trifolium congeners

Andrew Siefert, Kenneth W. Zillig, Maren L. Friesen & Sharon Y. Strauss
1. Coexistence and diversity in plant communities depend upon outcomes of plant competition. Competition and coexistence can be mediated by abiotic soil nutrient differences as well as by soil microbial communities. The latter effects occur through various mechanisms including negative plant-soil feedbacks, when plants foster the build-up of specialized pathogenic microbes, which ultimately reduce conspecific, but not heterospecific, densities. Microbial mutualists can have generalized associations with host plants, and by associating with multiple species might...

Data from: Harvesting effects on wild bee communities in bioenergy grasslands depend on nesting guild

Brian J. Spiesman, Ashley Bennett, Rufus Isaacs & Claudio Gratton
Conversion of annual crops to native perennial grasslands for bioenergy production may help conserve wild bees by enhancing nest and food resources. However, bee response to the disturbance of biomass harvesting may depend on their nesting location, thus their vulnerability to nest destruction, and the response of the forb community on which they forage. Moreover, because bees have long foraging ranges, effects of local harvesting may depend on the amount of natural habitat in the...

Data from: Connectivity increases trophic subsidies in fragmented landscapes

Christine L. Hawn, John D. Herrmann, Sean R. Griffin & Nick M. Haddad
Landscape corridors mitigate the negative effects of habitat fragmentation by increasing dispersal. Corridors also increase biodiversity in connected habitat fragments, suggestive of metacommunity dynamics. What is unknown in this case is the mechanisms through which metacommunity dynamics act. Working in a large-scale fragmentation experiment, we tested the effect of corridors on the movement of prey species and subsequent effects on predator nutrition (which we call trophic subsidies). We enriched plants of central patches with 15N,...

Data from: Boreal tree growth exhibits decadal-scale ecological memory to drought and insect defoliation, but no negative response to their interaction

Malcolm S. Itter, L D'Orangeville, Andria Dawson, Daniel Kneeshaw, Louis Duchesne & Andrew O. Finley
1. Interactions between drought and insect defoliation may dramatically alter forest function under novel climate and disturbance regimes, but remain poorly understood. We empirically tested two important hypotheses regarding tree responses to drought and insect defoliation: 1) trees exhibit delayed, persistent, and cumulative growth responses to these stressors; 2) physiological feedbacks in tree responses to these stressors exacerbate their impacts on tree growth. These hypotheses remain largely untested at a landscape scale, yet are critical...

Data from: Eco-evolutionary rescue promotes host-pathogen coexistence

Graziella V. DiRenzo, Elise F. Zipkin, Evan H. Campbell Grant, J. Andrew Royle, Ana V. Longo, Kelly R. Zamudio & Karen R. Lips
Emerging infectious pathogens are responsible for some of the most severe host mass-mortality events in wild populations. Yet, effective pathogen control strategies are notoriously difficult to identify, in part because quantifying and forecasting pathogen spread and disease dynamics is challenging. Following an outbreak, hosts must cope with the presence of the pathogen, leading to host-pathogen coexistence or extirpation. Despite decades of research, little is known about host-pathogen coexistence post-outbreak when low host abundances and cryptic...

Registration Year

  • 2018

Resource Types

  • Dataset


  • Michigan State University
  • University of Wisconsin-Madison
  • Cornell University
  • University of Michigan-Ann Arbor
  • University of Notre Dame
  • University of Vermont
  • United States Department of Agriculture
  • University of Florida
  • Great Lakes Science Center
  • California State University, Northridge