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Maize-GAMER: GO Annotations, Methods, Evaluation and Review

    maize-GAMER is a collaborative project to improve the status of gene functional annotation in maize (*Zea mays*). The project has three main areas of focus, namely * Design a pipeline for the functional annotation of maize genes. * Use manually curated test data to evaluate the annotations and generate a best subset of annotations for use * Design a user friendly review system for the community to provide feedback and endorsements of the annotations

    Data from: Bran data of total flavonoid and total phenolic contents, oxygen radical absorbance capacity, and profiles of proanthocyanidins and whole grain physical traits of 32 red and purple rice varieties

      The description of the origin and physical traits of the whole grain (color, length, width, thickness and 100-kernel weight) of this red and purple bran rice germplasm collection are provided along with data of total flavonoid and total phenolic contents, oxygen radical absorbance capacity and total proanthocyanidin contents.

      Data from: Shoot transcriptome of the giant reed, Arundo donax

        The giant reed, *Arundo donax*, is a perennial grass species that has become an invasive plant in many countries. To establish a foundational molecular dataset, an llumina Hi-Seq protocol was used to sequence the transcriptome of actively growing shoots from an invasive genotype collected along the Rio Grande River, bordering Texas and Mexico. The assembly of 27,491 high confidence transcripts (≥200 bp) are reported with at least 70% coverage of known genes in other Poaceae species.

        Data from: Datasets for transcriptomic analyses of maize leaves in response to Asian corn borer feeding and/or jasmonic acid

          Corn's (*Zea mays*) response to initial insect damage involves a variety of changes to the levels of defensive enzymes, toxins, and communicative volatiles. Such a dramatic change secondary metabolism necessitates the regulation of gene expression at the transcript level. This *Data In Brief* paper summarizes the datasets of the transcriptome of corn plants in response to corn stalk borers (*Ostrinia furnacalis*) and/or methyl jasmonate (MeJA). Altogether, 39,636 genes were found to be differentially expressed.

          APEX – Agricultural Policy/Environmental eXtender Model

            Agricultural Policy/Environmental eXtender (APEX) has components for routing water, sediment, nutrients, and pesticides across complex landscapes and channel systems to the watershed outlet as well as groundwater and reservoir components. A watershed can be subdivided as much as necessary to assure that each subarea is relatively homogeneous in terms of soil, land use, management, and weather. APEX was constructed to evaluate various land management strategies considering sustainability, erosion (wind, sheet, and channel), economics, water supply and quality, soil quality, plant competition, weather, and pests. The routing of water, sediment, nutrient, and pesticide capabilities are some of the most comprehensive available in current landscape-scale models and can be simulated between subareas and channel systems within the model. APEX can perform long-term continuous simulations for modeling the impacts of different nutrient management practices, tillage operations, conservation practices, alternative cropping systems, and other management practices on surface runoff and losses of sediment, nutrients, and other pollutant indicators.

            Environmental Policy Integrated Climate (EPIC) Model

              Environmental Policy Integrated Climate (EPIC) model is a cropping systems model that was developed to estimate soil productivity as affected by erosion. EPIC simulates approximately eighty crops with one crop growth model using unique parameter values for each crop. It can be configured for a wide range of crop rotations and other vegetative systems, tillage systems, and other management strategies. It predicts effects of management decisions on soil, water, nutrient and pesticide movements, and their combined impact on soil loss, water quality, and crop yields for areas with homogeneous soils and management.

              Cost of Pollination

                The Cost of Pollination survey, conducted annually in all 50 states, collects information on acreage pollinated, colonies used, and dollars spent for a variety of 33 different crops. The target population for Cost of Pollination estimate program is all farms and ranches with at least one acre of a crop determined to be potentially pollinated by honey bees (Apis). Includes current and previous year data on cost of pollination as downloadable zipped CSV files for crop categories Tree Nuts, Tree Fruit, Citrus, Melons, Berries, Other fruit, Vegetables, and Other crops, detailing Paid Pollinated Acres, Price per Acre, Colonies Used, Price per Colony, and Total Value of Pollination by region.