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Ephemera danica Official Gene Set ephdan_OGSv1.0

    This dataset presents the *Ephemera danica* Official Gene Set (OGS) v1.0. The OGS is an integration of automatic gene predictions from *Ephemera danica* genome annotations v0.5.3, with manual annotations by the research community. Manual and automated annotations were lifted over from genome assembly *Ephemera danica* genome assembly v1.0 to genome assembly Edan_2.0 using the coordinates_conversion and remap-gff3 programs.

    Data from: Assignment of virus and antimicrobial resistance genes to microbial hosts in a complex microbial community by combined long-read assembly and proximity ligation

      We describe a method that adds long-read sequencing to a mix of technologies used to assemble a highly complex cattle rumen microbial community, and provide a comparison to short read-based methods. Long-read alignments and Hi-C linkage between contigs support the identification of 188 novel virus-host associations and the determination of phage life cycle states in the rumen microbial community. The long-read assembly also identifies 94 antimicrobial resistance genes, compared to only seven alleles in the short-read assembly.

      Frankliniella occidentalis Official Gene Set OGSv1.1

        The *Frankliniella occidentalis* genome was recently sequenced and annotated as part of the i5k pilot project by the Baylor College of Medicine. The *Frankliniella occidentalis* research community has manually reviewed and curated the computational gene predictions and generated an official gene set, OGSv1.0. OGSv1.0 was generated by merging gene set FOCC-V0.5.3-Models generated by the Baylor College of Medicine, and community-curated models in the Apollo software, after QC of the Apollo output. After the merge, scaffolds that were likely bacterial contamination were identified by John H. Werren, and gene models overlapping with these contaminated regions were removed from the OGS.


          The Breedbase system has evolved from the Sol Genomics Network (SGN) and Cassavabase and related sites (see RTBbase.org).Breedbase is striving to be a complete breeding management system, including field management, data collection, crossing utilities, and advanced trial analysis.

          Halyomorpha halys Official Gene Set v1.2

            This dataset presents the Halyomorpha halys Official Gene Set (OGS) v1.2. OGSv1.2 and is an update of Halyomorpha halys OGSv1.1 (https://doi.org/10.15482/USDA.ADC/1504240) to the coordinates of genome assembly GCA_000696795.3 (https://www.ncbi.nlm.nih.gov/assembly/GCA_000696795.3) using https://github.com/NAL-i5K/coordinates_conversion/.

            Data from: Invasive forb benefits from water savings by native plants and carbon fertilization under elevated CO2 and warming

              To test the hypothesis that elevated CO2 and warming would strongly influence invasive species success in a semi‐arid grassland as a result of both direct and water‐mediated indirect effects, the invasive forb Linaria dalmatica was transplanted into mixed‐grass prairie treated with free‐air CO2 enrichment and infrared warming, and survival, growth, and reproduction followed over 4 yr. Leaf gas exchange and carbon isotopic composition in L. dalmatica and the dominant native C3 grass Pascopyrum smithii were also measured.

              Halyomorpha halys Official Gene Sets v1.0 and v1.1

                This dataset presents the *Halyomorpha halys* Official Gene Set (OGS) v1.0 and v1.1. The OGS is an integration of automatic gene predictions from NCBI's eukaryotic annotation pipeline, [NCBI Halyomorpha halys Annotation Release 100](https://www.ncbi.nlm.nih.gov/genome/annotation_euk/Halyomorpha_halys/100/), with manual annotations by the research community (performed via the Apollo manual curation software, http://genomearchitect.org/).