Document Type
Article
Publication Date
2016
Publication Title
Journal of Genomics
Volume
4
First Page
29
Last Page
41
Abstract
Trichomycterus areolatus is an endemic species of pencil catfish that inhabits the riffles and rapids of many freshwater ecosystems of Chile. Despite its unique adaptation to Chile’s high gradient watersheds and therefore potential application in the investigation of ecosystem integrity and environmental contamination, relatively little is known regarding the molecular biology of this environmental sentinel. Here, we detail the assembly of the Trichomycterus areolatus transcriptome, a molecular resource for the study of this organism and its molecular response to the environment. RNA-Seq reads were obtained by next-generation sequencing with an Illumina® platform and processed using PRINSEQ. The transcriptome assembly was performed using TRINITY assembler. Transcriptome validation was performed by functional characterization with KOG, KEGG, and GO analyses. Additionally, differential expression analysis highlights sex-specific expression patterns, and a list of endocrine and oxidative stress related transcripts are included.
Recommended Citation
Schulze, Thomas T.; Ali, Jonathan; Bartlett, Maggie; McFarland, Madalyn; Clement, Emalie; Won, Harim; Sanford, Austin G.; Monzingo, Elyssa; Martens, Matthew C.; Hemsley, Ryan M.; Kumar, Sidharta; Gouin, Nicolas; Kolok, Alan; and Davis, Paul H., "De novo Assembly and Analysis of the Chilean Pencil Catfish Trichomycterus areolatus Transcriptome" (2016). Biology Faculty Publications. 112.
https://digitalcommons.unomaha.edu/biofacpub/112
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