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Annotations of Unigenes Assembled from Schizaphis graminum and Sipha flava

Transcriptomes were assembled de novo from pools of adult aphids that were feeding on sorghum and switchgrass. Reads from all replicates were pooled, normalized in silico to 25X coverage, and assembled using Trinity. Only the most abundant isoform for each unigene was retained for annotation and unigenes with transcripts per million mapped reads (TPM) less than 0.5 were removed from the dataset. The remaining unigenes were annotated using Trinotate with BLASTP comparisons against the Swiss-Prot/UniProt database. In addition, Pfam-A assignments were computed using hmmer, signal peptide predictions were performed using SignalP, and transmembrane domain predictions were performed using tmHMM. Gene ontology (GO assignments) were retrieved from Trinotate using the highest scoring BLASTp matches as queries.

[Note: Supplemental files 1-6 added 2/5/2019]

FieldValue
Tags
Modified
2019-08-05
Release Date
2018-09-11
Identifier
b9f0ad51-f40f-4171-839b-6a86b220323f
Spatial / Geographical Coverage Location
Lincoln, Nebraska
Publisher
Ag Data Commons
License
Contact Name
Scully, Erin
Contact Email
Public Access Level
Public
Program Code
005:040 - Department of Agriculture - National Research
Bureau Code
005:00 - Department of Agriculture