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Data from: Secretome data from Trichoderma reesei and Aspergillus niger cultivated in submerged and sequential fermentation methods

    The cultivation procedure and the fungal strain applied for enzyme production may influence levels and profile of the proteins produced. The proteomic analysis data presented here provide critical information to compare proteins secreted by Trichoderma reesei and Aspergillus niger when cultivated through submerged and sequential fermentation processes, using steam-explosion sugarcane bagasse as inducer for enzyme production.

    Data from: Draft genome sequence of Xylaria sp., the causal agent of taproot decline of soybean in the southern United States

      The draft genome of *Xylaria* sp. isolate MSU_SB201401, causal agent of taproot decline of soybean in the southern U.S., is presented here. The genome assembly was 56.7 Mb in size with an L50 of 246. A total of 10,880 putative protein-encoding genes were predicted, including 647 genes encoding carbohydrate-active enzymes and 1053 genes encoding secreted proteins.

      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.