1,614 research outputs found

    GrameneMart: the BioMart data portal for the Gramene project

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    Gramene is a well-established resource for plant comparative genome analysis. Data are generated through automated and curated analyses and made available through web interfaces such as GrameneMart. The Gramene project was an early adopter of the BioMart software, which remains an integral and well-used component of the Gramene website. BioMart accessible data sets include plant gene annotations, plant variation catalogues, genetic markers, physical mapping entities, public DNA/mRNA sequences of various types and curated quantitative trait loci for various species. Database URL: http://www.gramene.org/biomart/martview

    The Effectiveness of an Artificial Floating Wetland to Remove Nutrients in an Urban Stream: A Pilot-Study in the Chicago River, Chicago, IL USA

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    Ever expanding urbanized landscapes are increasingly impacting streams that run through them. Among other stressors, urban streams often are host to elevated concentrations of nutrients, salts, and heavy metals. The pollutants, coupled with high temperatures, are drivers of ecosystem degradation in urban streams. The installation of artificial floating wetlands (AFWs) has been successful in mitigating the effects of urbanization in lakes and wastewater treatment ponds, but rarely have they been tested in streams. This pilot-study examined the ability of an AFW to improve water quality in an urban stream. The small, 90 m2 AFW was installed to improve the aquatic habitat and aesthetics of a small section of the Chicago River, Chicago, IL USA.Water samples and in-situ measurements were collected from the surface and at 0.3 m depth of upstream and downstream of the AFW. Samples were analyzed for nitrate-as-nitrogen, phosphate, chloride, and heavy metals. Comparison of upstream and downstream waters showed that the AFW lowered the concentrations of nitrate-as-nitrogen and phosphate during the growing season by 6.9% and 6.0%, respectively. Nitrate was also removed during the dormant season; however, phosphate was not removed during that time. Plant or microbial uptake of the nutrients are believed to be the dominant mechanisms in the growing season with denitrification serving as the primary pathway in the dormant season. Despite not having a measurable effect on the water temperature, the AFW was an effective means to reduce concentrations of nitrate and phosphorus, decreasing the potential for eutrophication

    ThermoParser:Streamlined Analysis of Thermoelectric Properties

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    Thermoelectric materials, which convert heat into electricity, could be an important renewable energy source to help slow the encroaching climate crisis, not only by displacing fossil fuels, but by recycling waste heat, which makes up around 50 % of generated energy. With the growing computational capacity and development of several codes to calculate the key properties of thermoelectrics, they have become an increasingly popular area of computational materials research in recent years. Thermal transport packages include Phonopy, Phono3py, ShengBTE/ almaBTE, ALAMODE, TDEP and HiPhive; and electronic transport packages include BoltzTraP, BoltzTraP2, EPW, EPA, EPIC STAR, AMSET, Perturbo, TOSSPB and ElecTra. While separate packages are required for such different calculations, this makes data analysis complex, needing to load in different file formats, account for different data arrangements (e.g. array shapes), and convert to consistent units, even before one begins analysing anything. ThermoParser deals with these time-consuming and error-prone problems by loading data from multiple codes into a consistent data format with informative metadata, and facilitates the post-processing of thermoelectric properties by using this to accurately calculate and visualise them through an easy-to-use command-line interface (CLI) and a fully customisable Python package. Some of its utility can be seen by its use in the literature (sometimes under its former name, ThermoPlotter)

    New Distributional Records of the Ohio Shrimp, Macrobrachium ohione Smith (Decapoda: Palaemonidae) in Arkansas

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    The Ohio shrimp (Macrobrachium ohione) is a migratory (amphidromous) river shrimp that occurs in some Arkansas rivers. It is known from the Upper Missouri River from its mouth downstream to the Gulf of Mexico, but shrimp abundance has declined, particularly upstream of Louisiana. Ohio Shrimp has also been collected in the lower reach of the Missouri River not far from the confluence of the Mississippi River in St. Louis County. Dams and alterations in channel flow are hypothesized to have impacted upriver migrations of shrimp. Current range, abundance, and life history of Ohio shrimp is relatively unknown in the Mississippi River basin in reaches distant from sea water. Here, we report recent collections of Ohio shrimp in Arkansas rivers that were notably greater than 800 km from the Gulf of Mexico
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