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i5k Workspace@NAL
U.S. Department of Agriculture

New Ag100Pest assemblies, and full resources for four Ag100Pest/BPRI locust assemblies

Submitted by siteadmin on Fri, 10/21/2022 - 15:39

We are excited to announce three new Ag100Pest species at the i5k Workspace@NAL: the boll weevil, Anthonomus grandis grandis, the pink bollworm, Pectinophora gossypiella, and the Hunt bumblebee, Bombus huntii! Bombus huntii is also a Beenome 100 project.

In addition, we have completed set up full resources for four locust genome assemblies, from a collaboration between Ag100Pest (http://i5k.github.io/ag100pest) and the Behavioral Plasticity Research Institute (https://behavioralplasticity.org/). The species are Schistocerca gregaria, Schistocerca cancellata, Schistocerca nitens, and Schistocerca serialis cubense. We previously onboarded two additional species, Schistocerca americana and Schistocerca piceifrons. Unfortunately at this time we are unable to provide BLAST services against the genomes of these locust species due to their size. We hope to offer this capability in the future. In the meantime, NCBI's BLAST services can be used for sequence search against these genomes.

New organism and dataset pages (https://i5k.nal.usda.gov/organisms); browsers with mapped RNA-Seq (https://i5k.nal.usda.gov/available-genome-browsers); file downloads, including functional annotations (https://i5k.nal.usda.gov/content/data-downloads); and BLAST databases (https://i5k.nal.usda.gov/webapp/blast) are available. Apollo registration for all organisms can be accessed at https://i5k.nal.usda.gov/web-apollo-registration.