U.S. flag

An official website of the United States government

Ag Data Commons migration begins October 18, 2023

The Ag Data Commons is migrating to a new platform – an institutional portal on Figshare. Starting October 18 the current system will be available for search and download only. Submissions will resume after the launch of our portal on Figshare in November. Stay tuned for details!

Centruroides sculpturatus genome annotations v0.5.3

    This dataset presents the Centruroides sculpturatus gene set BCM_v_0.5.3. RNA-Seq data was used with additional protein homology data for a MAKER automated annotation of the Centruroides sculpturatus genome assembly 1.0. This dataset is free for all use.

    Catajapyx aquilonaris genome annotations v0.5.3

      This dataset presents the Catajapyx aquilonaris gene set BCM_v_0.5.3. RNA-Seq data was used with additional protein homology data for a MAKER automated annotation of the Catajapyx aquilonaris genome assembly 1.0.This dataset is free for all use.

      Blattella germanica genome annotations v0.5.3

        This dataset presents the Blattella germanica gene set BCM_v_0.5.3. RNA-Seq data was used with additional protein homology data for a MAKER automated annotation of the Blattella germanica genome assembly 1.0. This dataset is free for all use.

        Anoplophora glabripennis Official Gene Set OGSv1.2

          The *Anoplophora glabripennis* genome was recently sequenced, assembled and annotated as part of the i5k pilot project by the Baylor College of Medicine, in collaboration with the McKenna Laboratory at the University of Memphis. The *Anoplophora glabripennis* research community has manually reviewed and curated the computational gene predictions and generated an official gene set, OGSv1.2. OGSv1.2 was generated by merging gene set AGLA-c0.5.3-Models generated by the Baylor College of Medicine, and community-curated models in the Apollo software, after QC of the Apollo output.

          Data from: Chromosome-level genome assembly and transcriptome of the green alga Chromochloris zofingiensis illuminates astaxanthin production

            For genome assembly of *C. zofingiensis* strain SAG 211–14, we used a hybrid approach blending short reads (Illumina), long reads (Pacific Biosciences of California), and whole-genome optical mapping (OpGen) (SI Appendix, SI Text and Datasets S1–S19, and refer to SI Appendix, Datasets Key). The combined power of these approaches yielded a high-quality haploid nuclear genome of *C. zofingiensis* of ∼58 Mbp distributed over 19 chromosomes (Fig. 2) in the tradition of model organism projects, as opposed to the fragmentary “gene-space” assemblies typical of modern projects using high-throughput methods and associated software. Approximately 99% of reads from the Illumina genomic libraries were accounted for, and nonplaceholder chromosomal sequence covers ∼94% of the optical map. Because no automated pipeline was found able to achieve the desired quality, methods are described in SI Appendix, SI Text.

            Pachypsylla venusta genome assembly v1.0

              The Baylor College of Medicine has sequenced and annotated the Pachypsylla venusta genome as part of the i5k pilot project. This dataset presents the Pachypsylla venusta genome v1.0. This assembly version is the pre-release version, prior to filtering and quality control by the National Center for Biotechnology Information's GenBank resource.

              Pachypsylla venusta genome annotations v0.5.3

                This dataset presents the Pachypsylla venusta gene set BCM_v_0.5.3. RNA-Seq data was used with additional protein homology data for a MAKER automated annotation of the Pachypsylla venusta genome assembly 1.0.

                Agrilus planipennis genome annotations v0.5.3

                  This dataset presents the Agrilus planipennis gene set BCM_v_0.5.3. RNA-Seq data was used with additional protein homology data for a MAKER automated annotation of the Agrilus planipennis genome assembly 1.0. This dataset is free for all use.