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

75 datasets

Parasteatoda tepidariorum genome annotations v0.5.3

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

insects 5000 program

Lucilia cuprina genome annotations v0.5.3

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

insects 5000 program

Copidosoma floridanum genome annotations v0.5.3

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

insects 5000 program

Latrodectus hesperus genome annotations v0.5.3

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

insects 5000 program

Data from: A High-Quality Genome Assembly from a Single, Field-collected Spotted Lanternfly (Lycorma delicatula) using the PacBio Sequel II System

A 2.3 Gb de novo genome assembly of a field-collected adult female Spotted Lanternfly (Lycorma delicatula) using a single PacBio SMRT Cell is provided. Supporting files for the manuscript "A High-Quality Genome Assembly from a Single, Field-collected Spotted Lanternfly (Lycorma delicatula) using the PacBio Sequel II System", include several intermediate versions of the assembly (raw output from Falcon, raw output from Falcon unzip, etc.) as well as the final assembly primary contigs and haplotigs (for the regions of the genome that were phased).

SLF-spotted lanternfly (Lycorma delicatula); adult winged. Photo: Stephen Ausmus, ARS Image Gallery

i5K Workspace@NAL

The i5k Workspace @ NAL is a platform for communities around ‘orphaned’ arthropod genome projects to access, visualize, curate and disseminate their data.

insects 5000 program

Oncopeltus fasciatus hybrid genome assembly 1.0

The milkweed bug, Oncopeltus fasciatus, was sequenced as part of the i5k pilot project from Baylor College of Medicine (Illumina data). To augment those resources, we present here a hybrid genome assembly with low coverage PacBio data, assembled with PBJelly: the Oncopeltus fasciatus Hybrid Genome Assembly v1.0.

insects 5000 program