i5k Workspace

About the i5k Workspace@NAL

The i5k Workspace (https://i5k.nal.usda.gov) is an inclusive genome portal for any arthropod genome project that would like to make use of our resources. We provide download services, BLAST, the JBrowse genome browser, and the Apollo manual curation service. Over 50 arthropod genomes are now part of the i5k Workspace, and users are encouraged to browse the genomes that we host, and contribute to the curation of each genome. For more information about the i5k Workspace, you can read our paper on the i5k Workspace, view our posters and talks, and find our software projects on github. The Ag Data Commons is now hosting a growing number of i5k Workspace datasets.

About the i5k initiative

The i5k initiative is a transformative project that aims to sequence and analyze the genomes of 5,000 arthropod species. The National Agricultural Library has partnered with the i5k initiative to create the i5k Workspace@NAL, which serves any ‘orphaned’ arthropod genome project's hosting needs. For more information about the i5k initiative, read the paper and visit the website.

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i5k Datasets

16 datasets

Oncopeltus fasciatus genome assembly 1.0

The Baylor College of Medicine recently sequenced and annotated the Oncopeltus fasciatus genome as part of the i5k pilot project.
The O. fasciatus research community has manually reviewed and curated the computational gene predictions and generated an official gene set, OGSv1.1. This dataset presents the Oncopeltus fasciatus 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.

Milkweed bug

Data from: Integrating classical genetics with chromosome-scale genome assembly to characterize a genetic sexing system in Bactrocera cucurbitae (Diptera: Tephritidae)

This data supports the manuscript "Integrating classical genetics with chromosome-scale genome assembly to characterize a genetic sexing system in Bactrocera cucurbitae (Diptera: Tephritidae)". The melon fly, Bactrocera cucurbitae, is a destructive agricultural pest and is the subject of strict quarantines that are enforced to prevent its establishment outside of its current geographic range. In addition to quarantine efforts, additional control measures are necessary for its eradication in the case of invasion to agriculturally rich areas. The sterile insect technique (SIT) has been effective in the control of several invertebrate pest species, and is part of a management strategy that regulatory agencies would like to expand to other important pests such as the melon fly.

insects 5000 program

Onthophagus taurus Genome Assembly 1.0

The Baylor College of Medicine recently sequenced and annotated the Onthophagus taurus genome as part of the i5k pilot project. This dataset presents the Onthophagus taurus 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.

 Onthophagus taurus - large male

Onthophagus taurus Genome Annotations v0.5.3

The Baylor College of Medicine recently sequenced and annotated the Onthophagus taurus genome as part of the i5k pilot project. NOTE: This gene set is an unstable pre-release (v0.5.3), and was provided to facilitate manual curation and analyses before the official gene set is released. Gene identifiers from this gene set will likely not be maintained.

Male adult Onthophagus taurus dung beetle

Drosophila biarmipes genome annotations v0.5.3 for genome assembly Dbia_2.0

RNA-Seq data were used with additional protein homology data for a MAKER automated annotation of the Drosophila biarmipes genome assembly Dbia 2.0

NOTE: This gene set is an unstable pre-release (v0.5.3), and is provided to facilitate manual curation and analyses before the official gene set is released. Gene identifiers from this gene set will likely not be maintained.

insects 5000 program

Oncopeltus fasciatus genome annotations v0.5.3

The Oncopeltus fasciatus genome was recently sequenced and annotated as part of the i5k pilot project by the Baylor College of Medicine.
The O. fasciatus research community has manually reviewed and curated the computational gene predictions and generated an official gene set, OGSv1.1. This dataset presents the Oncopeltus fasciatus gene set BCM_v_0.5.3, which was generated computationally. RNA-Seq data was used with additional protein homology data for a MAKER automated annotation of the Oncopeltus fasciatus genome assembly 1.0.

insects 5000 program

Oncopeltus fasciatus Official Gene set v1.1

Oncopeltus fasciatus genome was recently sequenced and annotated as part of the i5k pilot project by the Baylor College of Medicine.
The O. fasciatus research community has manually reviewed and curated the computational gene predictions and generated an official gene set, OGSv1.1. This dataset presents the Oncopeltus fasciatus Official Gene Set (OGS) v1.1. The OGS is an integration of automatic gene predictions from Maker (done by Dan Hughes at Baylor) with manual annotations by the research community (done via Web Apollo).

insects 5000 program

Cimex Lectularius Genome Assembly 1.0

The Baylor College of Medicine recently sequenced and annotated the Cimex lectularius genome as part of the i5k pilot project. The C. lectularius research community has manually reviewed and curated the computational gene predictions and generated an official gene set, OGSv1.2. This dataset presents the Cimex lectularius 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.

insects 5000 program

Cimex lectularius Genome Annotations v0.5.3

The Baylor College of Medicine recently sequenced and annotated the Cimex lectularius genome as part of the i5k pilot project. The C. lectularius research community has manually reviewed and curated the computational gene predictions and generated an official gene set, OGSv1.2. This dataset presents the Cimex lectularius gene set BCM_v_0.5.3, which was generated computationally. RNA-Seq data was used with additional protein homology data for a MAKER automated annotation of the Cimex lectularius genome assembly 1.0.

insects 5000 program