Annotated transcriptome and associated datasets of flatback mud crabs (Eurypanopeus depressus) exposed to dispersed oil
Data Collection Period
2014-09-23 to 2014-09-23
Gulf of Mexico Research Initiative Information and Data Cooperative (GRIIDC)
Flatback mud crab (Eurypanopeus depressus) transcriptome was assembled from 15 individuals sequenced in 2 Illumina HiSeq2000 lanes PE100 using Trinity2.0.3 and annotated with Trinotate2.0.1 on a custom MySQL database from The Broad Institute. We exposed 3 flatback mud crabs to one of 4 treatments (total = 12 individuals): non-aerated control, aerated control, oil only (Marlin platform Dorado 1g/l ), and oil-dispersant (Marlin platform Dorado 1g/l, COREXIT 9500 0.1g/l) for 72 hours to assess the up and down regulation of genes in muscle tissues. To account for stress caused by laboratory treatments, muscle tissue from three reference individuals that were sacrificed and not exposed to any lab treatments were analyzed. This dataset reports upregulated and downregulated gene expression. NCBI accession numbers are provided for each sample.
csv, docx, fasta, xls, xlsx
Vazquez-Miranda, Hernan, Brent Thoma, Juliet Wong, Darryl Felder, Keith Crandall, and Heather Bracken-Grissom. Annotated transcriptome and associated datasets of flatback mud crabs (Eurypanopeus depressus) exposed to dispersed oil. 2017. Distributed by: Gulf of Mexico Research Initiative Information and Data Cooperative (GRIIDC), Harte Research Institute, Texas A&M University – Corpus Christi. doi: 10.7266/N71C1TZC
The objective of this study is to analyze the transcriptomic response via gene expression levels in mud crabs to dispersed oil using RNA-seq.