55 Works

Data from: Emerging risks of non-native species escapes from aquaculture: call for policy improvements in China and other developing countries

Rui-Ting Ju, Xiao Li, Jia-Jia Jiang, Jihua Wu, Jianguo Liu, Donald R. Strong & Bo Li
1. Global aquaculture relies heavily on the farming of non-native aquatic species (hereafter, NAS). NAS escapes from aquaculture facilities can result in serious aquatic bio-invasions, which has been an important issue in the FAO Blue Growth Initiative. A regulatory quagmire regarding NAS farming and escapes, however, exists in most developing countries. 2. We discuss aquaculture expansion and NAS escapes, illustrate emerging risks, and propose recommendations for improved aquaculture management across developing countries and particularly for...

At what spatial scale(s) do mammals respond to urbanization?

Remington Moll
Spatial scale is fundamental in understanding species-landscape relationships because species’ responses to landscape characteristics typically vary across scales. Nonetheless, such scales are often unidentified or unreliably predicted by theory. Many landscapes worldwide are urbanizing, yet the spatial scaling of species’ responses to urbanization is poorly understood. We investigated the spatial scaling of urbanization effects on a community of 15 mammal species using ~ 60,000 wildlife detections collected from a constellation of 207 camera traps across...

Data from: Comparison of fish detections, community diversity, and relative abundance using environmental DNA metabarcoding and traditional gears

Nicholas M. Sard, Seth J. Herbst, Lucas Nathan, Genelle Uhrig, Jeannette Kanefsky, John D. Robinson & Kim T. Scribner
Background Detecting species at low abundance, including aquatic invasive species (AIS), is critical for making informed management decisions. Environmental DNA (eDNA) methods have become a powerful tool for rare or cryptic species detection; however, many eDNA assays offer limited utility for community‐level analyses due to their use of species‐specific (presence/absence) ‘barcodes’. Metabarcoding methods provide information on entire communities based on sequencing of all taxon‐specific barcodes within an eDNA sample. Aims Evaluate measures of fish species...

Data from: Genome-wide inference of somatic translocation events during potato dihaploid production

Gina M. Pham, Guilherme T. Braz, Megan Conway, Emily Crisovan, John P. Hamilton, F. Parker E. Laimbeer, Norma Manrique-Carpintero, Linsey Newton, David S. Douches, Jiming Jiang, Richard E. Veilleux & C. Robin Buell
Potato (Solanum tuberosum L.) breeders often use dihaploids, which are 2× progeny derived from 4× autotetraploid parents. Dihaploids can be used in diploid crosses to introduce new genetic material into breeding germplasm that can be integrated into tetraploid breeding through the use of unreduced gametes in 4× by 2× crosses. Dihaploid potatoes are usually produced via pollination by haploid inducer lines known as in vitro pollinators (IVP). In vitro pollinator chromosomes are selectively degraded from...

Data from: Phenology in a warming world: differences between native and non-native plant species

Meredith A. Zettlemoyer, Elizabeth H. Schultheis & Jennifer A. Lau
Phenology is a harbinger of climate change, with many species advancing flowering in response to rising temperatures. However, there is tremendous variation among species in phenological response to warming, and any phenological differences between native and non‐native species may influence invasion outcomes under global warming. We simulated global warming in the field and found that non‐native species flowered earlier and were more phenologically plastic to temperature than natives, which did not accelerate flowering in response...

Data from: Male-mediated prenatal loss: functions and mechanisms

Matthew Zipple, Eila K. Roberts, Susan C. Alberts & Jacinta C. Beehner
Sexually selected infanticide has been the subject of intense empirical and theoretical study for decades; a related phenomenon, male-mediated prenatal loss, has received much less attention in evolutionary studies. Male-mediated prenatal loss occurs when inseminated or pregnant females terminate reproductive effort following exposure to a non-sire male, either through implantation failure or pregnancy termination. Male-mediated prenatal loss encompasses two sub-phenomena: sexually selected feticide and the Bruce effect. In this review, we lay out a framework...

Data from: Multiple maize reference genomes impact the identification of variants by GWAS in a diverse inbred panel

Joseph L. Gage, Brieanne Vaillancourt, John P. Hamilton, Norma C. Manrique-Carpintero, Timothy J. Gustafson, Kerrie Barry, Anna Lipzen, William F. Tracy, Mark A. Mikel, Shawn M. Kaeppler, C. Robin Buell & Natalia De Leon
Use of a single reference genome for genome-wide association studies (GWAS) limits the gene space represented to that of a single accession. This limitation can complicate identification and characterization of genes located within presence/absence variations (PAVs). In this study, we present the draft de novo genome assembly of PHJ89, an Oh43-type inbred line. Using three separate reference genome assemblies (B73, PH207, and PHJ89) that represent the predominant germplasm groups of maize, we generated three separate...

Data from: Origin and evolution of the octoploid strawberry genome

Patrick P. Edger
Cultivated strawberry emerged from the hybridization of two wild octoploid species, both descendants from the merger of four diploid progenitor species into a single nucleus more than 1 million years ago. Here we report a near-complete chromosome-scale assembly for cultivated octoploid strawberry (Fragaria × ananassa) and uncovered the origin and evolutionary processes that shaped this complex allopolyploid. We identified the extant relatives of each diploid progenitor species and provide support for the North American origin...

MIOvPOP Version 1.1.0

Aniruddha Belsare
An ABM simulating white-tailed deer population dynamics for selected Michigan counties. The model yields pre-harvest and post-harvest realistic population snapshots that can be used to initialize the surveillance model (MIOvPOPsurveillance) and the CWD transmission dynamics model (MIOvCWD) respectively.

International Association of Hospitality Financial Management Educations (iAHFME) Academic Member 2018 Total Annual Earnings

Raymond S. Schmidgall
This study uses survey research to determine the 2018 annual earnings of hospitality financial man- agement educators. Forty-two percent of iAHFME members affiliated with educational institutions responded. Survey results show that for 2018, annual base salaries of iAHFME members ranged from $71,250 to $285,000. The lowest-paid member was an assistant professor and the highest-paid mem- ber, a full professor. Many respondents supplemented their base salaries by teaching during summer school or consulting or both. The...

Data from: Early mechanistic events induced by low molecular weight polycyclic aromatic hydrocarbons in mouse lung epithelial cells: a role for eicosanoid signaling

Katelyn J. Siegrist, Deedee Romo, Brad L. Upham, Michael Armstrong, Kevin Quinn, Lauren Vanderlinden, Ross S. Osgood, Kalpana Velmurugan, Marc Elie, Jonathan Manke, Dominik Reinhold, Nichole Reisedorph, Laura Saba & Alison K. Bauer
Low molecular weight polycyclic aromatic hydrocarbons (LMW PAHs; <206.3 g/mol) are under regulated environmental contaminants (e.g., secondhand smoke) that lead to gap junction dysregulation, p38 MAPK activation, and increased mRNA production of inflammatory mediators, such as cytokines and cyclooxygenase (COX2), in lung epithelial cells. However, the early mechanisms involving lipid signaling through the arachidonic acid pathway and subsequent eicosanoid production leading to these downstream events are not known. Common human exposures are to mixtures of...

Data from: Linking dynamical complexities from activation signals to transcription responses

Genghong Lin, Feng Jiao, Qiwen Sun, Moxun Tang, Jianshe Yu & Zhan Zhou
The transcription of inducible genes involves signaling pathways that induce DNA binding of the downstream transcription factors to form functional promoter states. How the transcription dynamics is linked to the temporal variations of activation signals is far to be fully understood. In this work, we develop a mathematical model with multiple promoter states to address this question. Each promoter state has its own activation and inactivation rates, and is selected randomly with a probability that...

Data from: Habitat type influences Danaus plexippus (Lepidoptera: Nymphalidae) oviposition and egg survival on Asclepias syriaca (Gentianales: Apocynaceae)

Andrew T. Myers, Christie A. Bahlai & Douglas A. Landis
As agricultural practices intensify, species once common in agricultural landscapes are declining in abundance. One such species is the monarch butterfly (Danaus plexippus L.), whose eastern North American population has decreased approximately 80% during the past 20 years. One hypothesis explaining the monarch’s decline is reduced breeding habitat via loss of common milkweed (Asclepias syriaca L.) from agricultural landscapes in the north central United States due to adoption of herbicide tolerant row crops. Current efforts...

Multiple metrics of latitudinal patterns in insect pollination and herbivory for a tropical-temperate congener pair

Carina Baskett, Lucy Schroeder, Marjorie Weber & Douglas Schemske
The biotic interactions hypothesis posits that biotic interactions are more important drivers of adaptation closer to the equator, evidenced by “stronger” contemporary interactions (e.g. greater interaction rates) and/or patterns of trait evolution consistent with a history of stronger interactions. Support for the hypothesis is mixed, but few studies span tropical and temperate regions while experimentally controlling for evolutionary history. Here, we integrate field observations and common garden experiments to quantify the relative importance of pollination...

Rapid and predictable evolution of admixed populations between two Drosophila species pairs

Daniel Matute, Aaron Comeault, Eric Earley, Antonio Serrato-Capuchina, David Peede, Anaïs Monroy-Eklund, Wen Huang, Corbin Jones, Trudy Mackay & Jerry Coyne
The consequences of hybridization are varied, ranging from the origin of new lineages, introgression of some genes between species, to the extinction of one of the hybridizing species. We generated replicate admixed populations between two pairs of sister species of Drosophila: D. simulans and D. mauritiana; and D. yakuba and D. santomea. Each pair consisted of a continental species and an island endemic. The admixed populations were maintained by random mating in discrete generations for...

Data from: Impacts of climate variability and adaptation strategies on crop yields and soil organic carbon in the US Midwest

Lin Liu & Bruno Basso
Climate change is likely to increase the frequency of drought and more extreme precipitation events. The objectives of this study were i) to assess the impact of extended drought followed by heavy precipitation events on yield and soil organic carbon (SOC) under historical and future climate, and ii) to evaluate the effectiveness of climate adaptation strategies (no-tillage and new cultivars) in mitigating impacts of increased frequencies of extreme events and warming. We used the validated...

Data from: Transcriptional profiling of the murine airway response to acute ozone exposure

Adelaide Tovar, Gregory J. Smith, Joseph M. Thomas, Wesley L. Crouse, Jack R. Harkema & Samir N. P. Kelada
Ambient ozone (O3) exposure has serious consequences on respiratory health, including airway inflammation and injury. Decades of research have yielded thorough descriptions of these outcomes; however, less is known about the molecular processes that drive them. The aim of this study was to further describe the cellular and molecular responses to O3 exposure in murine airways, with a particular focus on transcriptional responses in two critical compartments: conducting airways (CA) and airway macrophages (AM). After...

Utilizing field collected insects for next generation sequencing: effects of sampling, storage, and DNA extraction methods

Kimberly Ballare, Nathaniel Pope, Antonio Castilla, Sarah Cusser, Richard Metz & Shalene Jha
DNA sequencing technologies continue to advance the biological sciences, expanding opportunities for genomic studies of non-model organisms for basic and applied questions. Despite these opportunities, many next-generation sequencing protocols have been developed assuming a substantial quantity of high molecular weight DNA (>100 ng), which can be difficult to obtain for many study systems. In particular, the ability to sequence field-collected specimens that exhibit varying levels of DNA degradation remains largely unexplored. In this study we...

Long-term evapotranspiration rates for rainfed corn vs. perennial bioenergy crops in a mesic landscape

Michael Abraha, Jiquan Chen, Stephen K. Hamilton & G. Philip Robertson
Hydrologic implications of the conversion of agricultural or conservation lands for annual vs. perennial bioenergy crop production are scarce. We converted three 22 year-old Conservation Reserve Program (CRP) grasslands and three 50+ year-old conventionally tilled corn-soybean rotation agricultural (AGR) lands to no-till corn, switchgrass (Panicum virgatum L.) or restored prairie. A seventh site was maintained in the preexisting CRP grassland dominated by smooth brome grass (Bromus inermis L.). We measured evapotranspiration (ET) using the eddy...

Benchmarking parametric and machine learning models for genomic prediction of complex traits

Christina B Azodi, Andrew McCarren, Mark Roantree, Gustavo De Los Campos, Shin-Han Shiu & Emily Bolger
The usefulness of genomic prediction in crop and livestock breeding programs has prompted efforts to develop new and improved genomic prediction algorithms, such as artificial neural networks and gradient tree boosting. However, the performance of these algorithms has not been compared in a systematic manner using a wide range of datasets and models. Using data of 18 traits across six plant species with different marker densities and training population sizes, we compared the performance of...

Maintaining historic disturbance regimes increases species’ resilience to catastrophic hurricanes

Erica H Henry, Martha O Burford Reiskind, Aerin Land & Nick M Haddad
As habitat loss and fragmentation, urbanization, and global climate change accelerate, conservation of rare ecosystems increasingly relies on human intervention. However, any conservation strategy is vulnerable to unpredictable, catastrophic events. Whether active management increases or decreases a system’s resilience to these events remains unknown. Following Hurricane Irma’s landfall in our habitat restoration study sites, we found that rare ecosystems with active, human-imposed management suffered less damage in a hurricane’s path than unmanaged systems. At the...

Fusarium virguliforme transcriptional plasticity is revealed by host colonization of corn vs. soybean

Amy Baetsen-Young, Jennifer Wai, Robert VanDuren & Brad Day
We exploited the broad host range of Fusarium virguliforme to identify differential fungal responses leading to either an endophytic or a pathogenic lifestyle during colonization of corn (Zea mays) and soybean (Glycine max), respectively. To provide a foundation to survey the transcriptomic landscape, we produced an improved de novo genome assembly and annotation of F. virguliforme using PacBio sequencing. Next, we conducted a high-resolution time course of F. virguliforme colonization and infection of both soybean,...

Data from: Functional traits, not productivity, predict openness to seedling recruitment in alpine plant communities under climatic warming

Eric Meineri, Kari Klanderud, John Guittar, Deborah Goldberg & Vigdis Vandvik
Understanding the degree to which plant communities are open to seedling recruitment is key to predicting how they will be impacted by climate change. We experimentally assessed whether communities assembled under colder climates were inherently more open to recruitment than warmer-climate communities, after controlling for differences in the current climate under which the communities were growing. We then tested whether variation in openness to recruitment could be explained by community biomass or by the plant...

Reciprocal cybrids reveal how organellar genomes affect plant phenotypes

Tom Theeuwen, Pádraic Flood, Korbinian Schneeberger, Paul Keizer, Willem Kruijer, Edouard Severing, Evangelos Kouklas, Jos Hageman, Raúl Wijfjes, Vanessa Calvo-Baltanas, Frank Becker, Sabine Schnabel, Leo Willems, Wilco Ligterink, Jeroen Van Arkel, Roland Mumm, José Gualberto, Linda Savage, David Kramer, Joost Keurentjes, Fred Van Eeuwijk, Maarten Koornneef, Jeremy Harbinson, Mark Aarts & Erik Wijnker
Assessing the impact of variation in chloroplast and mitochondrial DNA (collectively termed the plasmotype) on plant phenotypes is challenging due to the difficulty in separating their effect from nuclear derived variation (the nucleotype). Haploid inducer lines can be used as efficient plasmotype donors to generate new plasmotype-nucleotype combinations (cybrids). We generated a panel comprising all possible cybrids of seven Arabidopsis thaliana accessions and extensively phenotyped these lines for 1859 phenotypes under stable and fluctuating conditions....

Data from: Meta-analysis of yield response of foliar fungicide-treated hybrid corn in the United States and Ontario, Canada

Kiersten A. Wise, Damon L. Smith, Anna Freije, Daren S. Mueller, Yuba Kandel, Tom Allen, Carl A. Bradley, Emmanuel Byamukama, Martin Chilvers, Travis Faske, Andrew Friskop, Clayton Hollier, Tamra A. Jackson-Ziems, Heather Kelly, Bob Kemerait, Paul Price, Alison Robertson & Albert Tenuta
Background: Foliar fungicide applications to corn (Zea mays) occur at one or more application timings ranging from early vegetative growth stages to mid-reproductive stages. Previous studies indicated that fungicide applications are profitable under high disease pressure when applied during the tasseling to silking growth stages. Few comprehensive studies in corn have examined the impact of fungicide applications at an early vegetative growth stage (V6) compared to late application timings (VT) for yield response and return...

Registration Year

  • 2019

Resource Types

  • Dataset
  • Text
  • Software


  • Michigan State University
  • United States Department of Agriculture
  • University of Wisconsin-Madison
  • The University of Texas at Austin
  • University of Michigan–Ann Arbor
  • Duke University
  • Michigan Department of Natural Resources
  • University of North Carolina at Chapel Hill
  • University of Minnesota
  • Purdue University