Where Is All the Plastic? How Microplastic Partitions across Environmental Compartments within a Large Pelagic In-Lake Mesocosm.

How microplastics transit within aquatic ecosystems and partition among environmental compartments is not fully understood. To increase understanding, we added microplastic fragments ranging in buoyancy (positive: polyethylene (PE), neutral: polystyrene (PS), negative: polyethylene terephthalate (PET)) and size (∼30 to 1400 μm) to surface waters of closed-bottom, in-lake mesocosms (10 m diameter, 2 m depth). To assess residence time, we measured microplastics in surface waters and the water column over a 9-week period.

Microplastics at Environmentally Relevant Concentrations Had Minimal Impacts on Pelagic Zooplankton Communities in a Large In-Lake Mesocosm Experiment.

To assess the potential risks of contemporary levels of plastic pollution in freshwater ecosystems, a large-scale experiment was conducted over 10 weeks in a boreal lake at the IISD-Experimental Lakes Area (Ontario, Canada). Fragments of common polymers (polyethylene, polystyrene, and polyethylene terephthalate), each with distinct colors and buoyancies, were added as a single pulse to seven in-lake mesocosms in equal contributions in a range of environmentally relevant nominal concentrations (6-29,240 particles/L). Two additional mesocosms with no added microplastics were used as controls.

Informing the Exposure Landscape: The Fate of Microplastics in a Large Pelagic In-Lake Mesocosm Experiment.

Understanding microplastic exposure and effects is critical to understanding risk. Here, we used large, in-lake closed-bottom mesocosms to investigate exposure and effects on pelagic freshwater ecosystems. This article provides details about the experimental design and results on the transport of microplastics and exposure to pelagic organisms.

A Multicompartment Assessment of Microplastic Contamination in Semi-remote Boreal Lakes.

Microplastic contamination is ubiquitous across the globe, even in remote locations. Still, the sources and pathways of microplastics to such locations are largely unknown. To investigate microplastic contamination in a semi-remote location, we measured microplastic concentrations in nine oligotrophic lakes within and around the International Institute for Sustainable Development-Experimental Lakes Area in northwestern Ontario, Canada.

A City-Wide Emissions Inventory of Plastic Pollution.

A global agreement on plastic should have quantitative reduction targets for the emissions of plastic pollution and regular measurements to track success. Here, we present a framework for measuring plastic emissions, akin to greenhouse gas emissions, and demonstrate its utility by calculating a baseline measurement for the City of Toronto in Ontario, Canada. We identify relevant sources of plastic pollution in the city, calculate emissions for each source by multiplying activity data by emission factors for each source, and sum the emissions to obtain the total annual emissions of plastic pollution generated.

Reconstructing Cardiac Electrical Excitations from Optical Mapping Recordings.

The reconstruction of electrical excitation patterns through the unobserved depth of the tissue is essential to realizing the potential of computational models in cardiac medicine. We have utilized experimental optical-mapping recordings of cardiac electrical excitation on the epicardial and endocardial surfaces of a canine ventricle as observations directing a local ensemble transform Kalman Filter (LETKF) data assimilation scheme. We demonstrate that the inclusion of explicit information about the stimulation protocol can marginally improve the confidence of the ensemble reconstruction and the reliability of the assimilation over time.

A data-assimilation approach to predict population dynamics during epithelial-mesenchymal transition.

Epithelial-mesenchymal transition (EMT) is a biological process that plays a central role in embryonic development, tissue regeneration, and cancer metastasis. Transforming growth factor-β (TGFβ) is a potent inducer of this cellular transition, comprising transitions from an epithelial state to partial or hybrid EMT state(s), to a mesenchymal state. Recent experimental studies have shown that, within a population of epithelial cells, heterogeneous phenotypical profiles arise in response to different time- and TGFβ dose-dependent stimuli.

Patient Characteristics in Oral Cancer Staging.

Background: Oral cancer is a largely preventable malignancy with many modifiable risk factors, such as tobacco use and proper oral hygiene. Early detection of oral cancer is an important goal for oral healthcare providers, as survival rates for oral cancers diagnosed at an advanced stage are less than half the rates for cancers diagnosed in early stages. As many patients are asymptomatic in early stages, it is crucial for oral healthcare providers to have a high index of suspicion while treating patients at risk for late diagnosis.

mutation induces renal injury and impairs blood pressure control in female rats.

Hypertension (HTN) is a complex disease influenced by heritable genetic elements and environmental interactions. Dietary salt is among the most influential modifiable factors contributing to increased blood pressure (BP). It is well established that men and women develop BP impairment in different patterns and a recent emphasis has been placed on identifying mechanisms leading to the differences observed between the sexes in HTN development.

MOET: a web-based gene set enrichment tool at the Rat Genome Database for multiontology and multispecies analyses.

Biological interpretation of a large amount of gene or protein data is complex. Ontology analysis tools are imperative in finding functional similarities through overrepresentation or enrichment of terms associated with the input gene or protein lists. However, most tools are limited by their ability to do ontology-specific and species-limited analyses.

Incorporating terrain specific beaching within a lagrangian transport plastics model for Lake Erie.

Mass estimates of plastic pollution in the Great Lakes based on surface samples differ by orders of magnitude from what is predicted by production and input rates. It has been theorized that a potential location of this missing plastic is on beaches and in nearshore water. We incorporate a terrain dependent beaching model to an existing hydrodynamic model for Lake Erie which includes three dimensional advection, turbulent mixing, density driven sinking, and deposition into the sediment.

Projected land ice contributions to twenty-first-century sea level rise.

The land ice contribution to global mean sea level rise has not yet been predicted using ice sheet and glacier models for the latest set of socio-economic scenarios, nor using coordinated exploration of uncertainties arising from the various computer models involved. Two recent international projects generated a large suite of projections using multiple models, but primarily used previous-generation scenarios and climate models, and could not fully explore known uncertainties. Here we estimate probability distributions for these projections under the new scenarios using statistical emulation of the ice sheet and glacier models.

Robust data assimilation with noise: Applications to cardiac dynamics.

Reconstructions of excitation patterns in cardiac tissue must contend with uncertainties due to model error, observation error, and hidden state variables. The accuracy of these state reconstructions may be improved by efforts to account for each of these sources of uncertainty, in particular, through the incorporation of uncertainty in model specification and model dynamics. To this end, we introduce stochastic modeling methods in the context of ensemble-based data assimilation and state reconstruction for cardiac dynamics in one- and three-dimensional cardiac systems.

Sensitivity of a data-assimilation system for reconstructing three-dimensional cardiac electrical dynamics.

Modelling of cardiac electrical behaviour has led to important mechanistic insights, but important challenges, including uncertainty in model formulations and parameter values, make it difficult to obtain quantitatively accurate results. An alternative approach is combining models with observations from experiments to produce a data-informed reconstruction of system states over time. Here, we extend our earlier data-assimilation studies using an ensemble Kalman filter to reconstruct a three-dimensional time series of states with complex spatio-temporal dynamics using only surface observations of voltage.

Modeling the three-dimensional transport and distribution of multiple microplastic polymer types in Lake Erie.

We model three-dimensional motion of plastic pollution in Lake Erie due to advection, density-driven sinking, and turbulent mixing using a Lagrangian transport model to explore the distribution of plastic in the water column and sediment. Nine polymer types that make up over 75% of predicted worldwide plastic waste were modeled, and the model keeps track of particles that hit the bottom to represent deposition. Modeled spatial distributions are compared with samples from the surface to calibrate the model and derive estimates for the mass of plastic in the lake volume and the flux of plastic into the sediment.

Cell Fate Forecasting: A Data-Assimilation Approach to Predict Epithelial-Mesenchymal Transition.

Epithelial-mesenchymal transition (EMT) is a fundamental biological process that plays a central role in embryonic development, tissue regeneration, and cancer metastasis. Transforming growth factor-β (TGFβ) is a potent inducer of this cellular transition, which is composed of transitions from an epithelial state to intermediate or partial EMT state(s) to a mesenchymal state. Using computational models to predict cell state transitions in a specific experiment is inherently difficult for reasons including model parameter uncertainty and error associated with experimental observations.

The Year of the Rat: The Rat Genome Database at 20: a multi-species knowledgebase and analysis platform.

Formed in late 1999, the Rat Genome Database (RGD, https://rgd.mcw.edu) will be 20 in 2020, the Year of the Rat.

Rat Genome Databases, Repositories, and Tools.

Resources for rat researchers are extensive, including strain repositories and databases all around the world. The Rat Genome Database (RGD) serves as the primary rat data repository, providing both manual and computationally collected data from other databases.

Integrated curation and data mining for disease and phenotype models at the Rat Genome Database.

Rats have been used as research models in biomedical research for over 150 years. These disease models arise from naturally occurring mutations, selective breeding and, more recently, genome manipulation. Through the innovation of genome-editing technologies, genome-modified rats provide precision models of disease by disrupting or complementing targeted genes.

A Low-Rate Video Approach to Hyperspectral Imaging of Dynamic Scenes.

The increased sensitivity of modern hyperspectral line-scanning systems has led to the development of imaging systems that can acquire each line of hyperspectral pixels at very high data rates (in the 200-400 Hz range). These data acquisition rates present an opportunity to acquire full hyperspectral scenes at rapid rates, enabling the use of traditional push-broom imaging systems as low-rate video hyperspectral imaging systems. This paper provides an overview of the design of an integrated system that produces low-rate video hyperspectral image sequences by merging a hyperspectral line scanner, operating in the visible and near infra-red, with a high-speed pan-tilt system and an integrated IMU-GPS that provides system pointing.

A Primer for the Rat Genome Database (RGD).

The laboratory rat, Rattus norvegicus, is an important model of human health and disease, and experimental findings in the rat have relevance to human physiology and disease. The Rat Genome Database (RGD, http://rgd.mcw.

Effects of model error on cardiac electrical wave state reconstruction using data assimilation.

Reentrant electrical scroll waves have been shown to underlie many cardiac arrhythmias, but the inability to observe locations away from the heart surfaces and the restriction of observations to only one or two state variables have made understanding arrhythmia mechanisms challenging. Recently, we showed that data assimilation from spatiotemporally sparse surrogate observations could be used to reconstruct a reliable time series of state estimates of reentrant cardiac electrical waves including unobserved variables in one and three spatial dimensions. However, real cardiac tissue is unlikely to be described accurately by mathematical models because of errors in model formulation and parameterization as well as intrinsic but poorly described spatial heterogeneity of electrophysiological properties in the heart.

An ice sheet model validation framework for the Greenland ice sheet.

We propose a new ice sheet model validation framework - the Cryospheric Model Comparison Tool (CmCt) - that takes advantage of ice sheet altimetry and gravimetry observations collected over the past several decades and is applied here to modeling of the Greenland ice sheet. We use realistic simulations performed with the Community Ice Sheet Model (CISM) along with two idealized, non-dynamic models to demonstrate the framework and its use. Dynamic simulations with CISM are forced from 1991 to 2013 using combinations of reanalysis-based surface mass balance and observations of outlet glacier flux change.