69 Works

Data from: Trait plasticity and tradeoffs shape intraspecific variation in competitive response in a foundation tree species

Olivia Cope, Richard Lindroth, Andrew Helm, Ken Keefover-Ring & Eric Kruger
The ability to tolerate neighboring plants (i.e., degree of competitive response) is a key determinant of plant success in high-competition environments. Plant genotypes adjust their functional trait expression under high levels of competition, which may help explain intraspecific variation in competitive response. However, the relationships between traits and competitive response are not well understood, especially in trees. In this study, we investigated among-genotype associations between tree trait plasticity and competitive response. We manipulated competition intensity...

Connectivity and edge effects increase bee colonization in an experimentally fragmented landscape

Sean Griffin & Nick Haddad
Though landscape corridors increase dispersal of many animals and plants, it remains unknown whether increased dispersal increases colonization and establishment of new populations in connected fragments. Working in experimentally fragmented landscapes, we tested how two aspects of habitat fragments altered by corridors- connectivity and edge-to-area ratio- determine patterns of colonization by a solitary, cavity-nesting bee (Megachile rotundata). We found that though higher connectivity initially increased rates of nest-site occupation, higher edge-to-area ratio ultimately increased patch...

The genetic architecture and evolution of life history divergence among perennials in the Mimulus guttatus species complex

Jennifer Coughlan, Maya Wilson Brown & John Willis
Ecological divergence is a main source of trait divergence between closely related species. Despite its importance in generating phenotypic diversity, the genetic architecture of most ecologically relevant traits is poorly understood. Differences in elevation can impose substantial selection for phenotypic divergence of both complex, correlated suites of traits (such as life history), as well as novel adaptations. Here, we use the Mimulus guttatus species complex to assess if divergence in elevation is accompanied by trait...

Drought-driven wildfire impacts on structure and dynamics in a wet Central Amazonian forest

Aline Pontes-Lopes, Camila V. J. Silva, Jos Barlow, Lorena M. Rincón, Wesley A. Campanharo, Cássio A. Nunes, Catherine T. De Almeida, Celso H. L. Silva Junior, Henrique L. G. Cassol, Ricardo Dalagnol, Scott C. Stark, Paulo M.L.A. Graça & Luiz E. O. C. Aragão
While climate and human-induced forest degradation is increasing in the Amazon, fire impacts on forest dynamics remain understudied in the wetter regions of the basin, which are susceptible to large wildfires only during extreme droughts. To address this gap, we installed burned and unburned plots immediately after a wildfire in the northern Purus-Madeira (central Amazon) during the 2015 El-Niño. We measured all individuals ≥10cm in diameter at breast height, and conducted recensuses to track the...

Stickleback sensory morphology 2015 & 2017 measurements and analysis files

Robert Mobley
The peripheral sensory systems, whose morphological attributes help determine the acquisition of distinct types of information, provide a means to quantitatively compare multiple modalities of a species’ sensory ecology. We used morphological metrics to characterize multiple sensory modalities—the visual, olfactory, and mechanosensory lateral line sensory systems—for Gasterosteus aculeatus, the three‐spined stickleback, to compare how sensory systems vary in animals that evolve in different ecological conditions. We hypothesized that the dimensions of sensory organs and correlations...

Emergence rates of stink bugs and parasitoids under four heat wave conditions

Marianna Szucs & Olivia Simaz
Heat waves are becoming more frequent with climate change and their impact on lower and higher trophic levels can differ. Higher trophic levels, such as predators and parasitoids, are predicted to be more strongly affected by heat waves than herbivores because they may have smaller thermal windows and because of altered ecological interactions with lower trophic levels. We tested the effects of heat waves of varying intensity (36-42˚C), imposed for four hours during five consecutive...

Data from: Temporal dynamics of free‐living nitrogen fixation in the switchgrass rhizosphere

Darian Smercina, Sarah E. Evans, Maren L. Friesen & Lisa K. Tiemann
Here we present data associated with the manuscript, Temporal dyanmics of free-living nitrogen fixation in the switchgrass rhizosphere. Free-living nitrogen fixation (FLNF) represents an important terrestrial N source and is gaining interest for its potential to contribute plant available N to bioenergy cropping systems. Switchgrass, a cellulosic bioenergy crop, may be reliant on FLNF when particularly when grown on low N marginal lands. These potential contributions of FLNF to switchgrass and the controls on this...

Resolution of acute cervical insufficiency after antibiotics in a case with amniotic fluid sludge

Lami Yeo, Roberto Romero, Tinnakorn Chaiworapongsa, Robert Para, Jeffrey Johnson, David Kmak, Eunjung Jung, Bo Hyun Yoon & Chaur-Dong Hsu
Cervical insufficiency generally refers to a condition in which there is mid-trimester cervical dilatation or protruding chorioamniotic membranes in the absence of uterine contractions. Such condition is a risk factor for spontaneous mid-trimester abortion or early preterm birth, and is associated with adverse neonatal outcomes. Both intra-amniotic infection and inflammation ascertained by amniocentesis have been identified in patients with cervical insufficiency, and are poor prognostic factors. A subset of patients with intra-amniotic inflammation will have...

Uncovering antiobesity-related hypertension targets and mechanisms of metformin, an antidiabetic medication

Lu Yang, Jianxin Yang, Xiao Liang, Wenjun Huang, Xiaoxi Zhang & Rong Li
Metformin, a common clinical drug used to treat diabetes mellitus, is found with potential antiobese actions as reported in increasing evidences. However, the detailed mechanisms of metformin-antiobesity-related hypertension remain unrevealed. We have utilized the bioinformatics strategy, including network pharmacology and molecular docking analyses, to uncover pharmacological targets and molecular pathways of bioactive compounds against clinical disorders, such as cancers, coronavirus disease 2019. In this report, the in-silico approaches using network pharmacology and molecular docking was...

miR-199a-3p plays an anti-tumorigenic role in lung adenocarcinoma by suppressing anterior gradient 2

Hui Liu, Yanfeng Wang, Yi Wang, Daoyuan Wu & He Zhang
Previous studies have explored the association between protein-coding genes and microRNAs (miRNAs) in lung adenocarcinoma (LUAD). However, the influence of the miR-199a-3p/anterior gradient 2 (AGR2) axis in LUAD has not yet been fully explored. Therefore, this study aimed to examine the underlying roles of AGR2 and miR-199a-3p in the development of LUAD. The expression levels of miR-199a-3p and AGR2 in LUAD tissues and cells were detected via quantitative reverse transcription-polymerase chain reaction (qRT-PCR). A luciferase...

Anti-neoplastic characteristics and potential targets of calycosin against bisphenol A-related osteosarcoma: bioinformatics analysis

Qijin Pan, Ka Wu, Jiachang Tan, Yu Li, Xiao Liang & Min Su
Environmentally, bisphenol A (BPA) is a well-known pollutant caused human health risk, including osteosarcoma (OS). OS, a deadly bone neoplasia, may occur in children and adults. However, the anti-OS pharmacotherapy prescribes limitedly in clinical practice. Interestingly, previous experimental evidences indicate calycosin-exerting potential anti-OS actions. Thus, in this report, we aimed to further characterize and detail the therapeutic targets and molecular mechanisms of calycosin-anti-BPA-related OS by using network pharmacology and molecular docking analyses. In results, the...

Inbreeding depression contributes to the maintenance of habitat segregation between closely related monkeyflower species

Katherine Toll, Eric Francis LoPresti & David Bryant Lowry
Incompletely reproductively isolated species often segregate into different microhabitats, even when they are able to survive and reproduce in both habitats. Longer term evolutionary factors may contribute to this lack of cross-habitat persistence. When reproductive interference reduces immigrant fitness, assortative mating, including self-fertilization, increases immigrants’ fitness in a single generation, but longer-term, inbreeding depression may reduce the chance of population persistence. Two California monkeyflower species repeatedly segregate into drier and wetter areas in their zone...

Data from: Signatures of north-eastern expansion and multiple refugia: Genomic phylogeography of the Pine Barrens Treefrog, Hyla andersonii (Anura: Hylidae)

Alexa Warwick, Lisa Barrow, Megan Smith, D. Bruce Means, Alan Lemmon & Emily Lemmon
Range fragmentation poses challenges for species persistence over time and may be caused by both historical and contemporary processes. We combined genomic data, phylogeographic model testing, and paleoclimate niche modeling to infer the evolutionary history of the Pine Barrens Treefrog (Hyla andersonii), a seepage bog specialist, in eastern North America to better understand the historical context of its fragmented distribution. We sampled H. andersonii populations across the three disjunct regions of the species’ range: Alabama/Florida...

10-year trends reveal declining quality of seeded pollinator habitat on reclaimed mines regardless of seed mix diversity

Andrew Lybbert, Sarah Cusser, Keng-Lou Hung & Karen Goodell
Plant-pollinator interactions represent a crucial ecosystem function threatened by anthropogenic landscape alterations. Disturbances that reduce plant diversity are associated with floral resource and pollinator declines. Establishing wildflower plantings is a major conservation strategy targeting pollinators, the success of which depends on long-term persistence of seeded floral communities. However, most pollinator-oriented seeding projects are monitored for a few years, making it difficult to evaluate the longevity of such interventions. Selecting plant species to provide pollinators diverse...

Plant-soil feedback and crop rotation

Akihiro Koyama, Pedro Antunes & Teresa Dias
Plant-soil feedback (PSF) can be a major driver of plant performance in communities, and this concept can be used in selecting crop rotation sequences to maximize agricultural yields. Potential benefits of using PSF in this context include nutrient use optimization, pathogen reduction and enhancement of mutualisms between crops and microbes. Yet, the contributions of these combined mechanisms are poorly understood. Here we investigated the relative contributions of these mechanisms using five major crops commonly cultivated...

Spatial allocation without spatial recruitment in bumblebees

Darren Incorvaia, Arend Hintze & Fred Dyer
Any foraging animal is expected to allocate its efforts among resource patches that vary in quality across time and space. For social insects, this problem is shifted to the colony level: the task of allocating foraging workers to the best patches currently available. To deal with this task, honeybees rely upon differential recruitment via the dance language, while some ants use differential recruitment on odor trails. Bumblebees, close relatives of honeybees, should also benefit from...

MicroRNA miR-188-5p as a mediator of long non-coding RNA MALAT1 regulates cell proliferation and apoptosis in multiple myeloma

Hui Liu, Zuofei Chi, Hong Jin & Wei Yang
Multiple myeloma (MM), a malignancy of plasma cells mainly derived from the bone marrow, has remained incurable generally. LncRNA MALAT1 has been reported to be upregulated in the MM cells and knockdown of MALAT1 inhibited MM cell cycle progression and enhanced cell apoptosis. Online target prediction showed that two target sites for MALAT1 existed in miR-188-5p, which has been identified as a tumor suppressor in other types of cancers. However, the role of miR-188-5p in...

miR-199a-3p plays an anti-tumorigenic role in lung adenocarcinoma by suppressing anterior gradient 2

Hui Liu, Yanfeng Wang, Yi Wang, Daoyuan Wu & He Zhang
Previous studies have explored the association between protein-coding genes and microRNAs (miRNAs) in lung adenocarcinoma (LUAD). However, the influence of the miR-199a-3p/anterior gradient 2 (AGR2) axis in LUAD has not yet been fully explored. Therefore, this study aimed to examine the underlying roles of AGR2 and miR-199a-3p in the development of LUAD. The expression levels of miR-199a-3p and AGR2 in LUAD tissues and cells were detected via quantitative reverse transcription-polymerase chain reaction (qRT-PCR). A luciferase...

Data from: Quantifying and correcting for pre-assay CO2 loss in short-term carbon mineralization assays

Matthew Belanger, Carmella Vizza, G. Philip Robertson & Sarah Roley
Abstract. The active fraction of soil organic carbon is an important component of soil health and often is quickly assessed as the pulse of CO2 released by re-wetting dried soils in short-term (24–72 h) assays. However, soils can lose carbon (C) as they dry and, if soil samples vary in moisture content at sampling, differential C loss during the pre-assay dry-down period may complicate the assay's interpretations. We examined the impact of pre-assay CO2 loss...

Fall Creek Reservoir Water Quality Dataset

Stephen Hamilton, Christina Murphy, Sherri Johnson & Amanda Pollock
Water chemistry measurements taken at or downstream of Fall Creek Reservoir, OR (43.9459714, -122.755765). Fall Creek is a tributary of the Middle Fork Willamette River, located approximately 20 miles SE of Eugene, Oregon, USA. Water chemistry measurements included water samples collected from the reservoir outflow (during autumn drawdown) and within Fall Creek Reservoir (during August). These water samples were analyzed to determine concentrations of dissolved organic carbon, suspended sediment, and nutrients. A sonde was used...

Capture data for American Robins (Turdus migratorius) at a fall migration banding station in Mid-Michigan from 2012 - 2019

Jennifer Owen
At the Burke Lake Banding Station in Bath, Michigan we captured American robins (Turdus migratorius) during fall migration from 2011 to 2019. The data shared consists of capture date and age. The data are used only for looking at the relative ratio of hatching year (HY) to after-hatching year (AHY) robins captured during fall migration.

eDNA metabarcoding in lakes to quantify influences of landscape features and human activity on aquatic invasive species prevalence and fish community diversity

Lilian Pukk, Jeannette Kanefsky, Amanda Heathman, Ellen Weise, Lucas Nathan, Seth Herbst, Nicholas Sard, Kim Scribner & John Robinson
Aim: Our goal was to use eDNA metabarcoding to characterize fish community diversity, detect aquatic invasive species (AIS), and assess how measures of community (or AIS) diversity are influenced by lake physical and environmental covariates, measures of hydrological connectivity, and human accessibility. Location: Michigan, USA. Methods: eDNA samples collected from 22 lakes were sequenced using two mitochondrial gene regions (12S and 16S rRNA). Metabarcoding data were compared to traditional fisheries survey data for a subset...

Genomic and immunogenic changes of Piscine novirhabdovirus (Viral hemorrhagic septicemia virus) over its evolutionary history in the Laurentian Great Lakes

Carol Stepien, Megan Niner, Carol Stepien, Douglas W. Leaman & Bartolomeo Gorgoglione
A unique and highly virulent subgenogroup (VHSV-IVb) of Piscine novirhabdovirus, also known as Viral Hemorrhagic Septicemia Virus (VHSV), suddenly appeared in the Laurentian Great Lakes, causing large mortality outbreaks in 2005 and 2006, and affecting >32 freshwater fish species to date. Periods of apparent dormancy have punctuated smaller and more geographically-restricted outbreaks in 2007, 2008, and 2017. In this study, we conduct the largest whole genome sequencing analysis of VHSV-IVb to date, evaluating its evolutionary...

Heating Arrays Aboveground Biomass Data

Louis Jochems, Jennifer Lau, Lars Brudvig & Emily Grman
Restoration in this era of climate change comes with a new challenge: anticipating how best to restore populations to persist under future climate conditions. Specifically, it remains unknown whether locally-adapted or warm-adapted seeds best promote native plant community restoration in the warmer conditions predicted in the future and whether local or warm-adapted soil microbial communities could mitigate plant responses to warming. This may be especially relevant for biomes spanning large climatic gradients, such as the...

Evolution of conserved noncoding sequences in Arabidopsis thaliana

Alan Yocca, Zefu Lu, Robert Schmitz, Michael Freeling & Patrick Edger
Recent pangenome studies have revealed that a large fraction (>20%) of the gene content within a species exhibits presence-absence variation (PAV). However, coding regions alone provide an incomplete assessment of functional genomic sequence variation at the species level. Little to no attention has been paid to noncoding regulatory regions in pangenome studies, though these sequences directly modulate gene expression and phenotype. To uncover regulatory genetic variation, we generated chromosome-scale genome assemblies for thirty Arabidopsis thaliana...

Registration Year

  • 2021

Resource Types

  • Dataset


  • Michigan State University
  • Zhejiang University
  • Huazhong University of Science and Technology
  • Capital Medical University
  • Hong Kong Baptist University
  • Shanghai Jiao Tong University
  • Central South University
  • Chinese Academy of Sciences
  • Stanford University
  • Johns Hopkins University