DOI: 10.5061/dryad.18276
title: Data from: Divergent transcriptional patterns are related to differences in hypoxia tolerance between the intertidal and the subtidal sculpins

description: Transcriptionally mediated phenotypic plasticity as a mechanism of
 modifying traits in response to an environmental challenge remains an
 important area of study. We compared the transcriptional responses to
 low-oxygen (hypoxia) of the hypoxia tolerant intertidal fish, the tidepool
 sculpin (Oligocottus maculosus) with the closely related hypoxia
 intolerant subtidal fish, the silverspotted sculpin (Blepsias cirrhosus)
 to determine if these species use different mechanisms to cope with
 hypoxia. Individuals from each species were exposed to environmental O2
 tensions chosen to yield a similar level of tissue hypoxia and gene
 transcription was assessed in the liver over time. There was an effect of
 time in hypoxia, where the greatest transcriptional change in the
 silverspotted sculpin occurred between 3 to 24 hours in contrast to the
 tidepool sculpin where the largest transcriptional change occurred between
 24 and 72 hours of hypoxia. A number of genes showed similar
 hypoxia-induced transcription patterns in both species (e.g. genes
 associated with glycolysis and apoptosis) suggesting they are involved in
 a conserved hypoxia response. A large set of genes showed divergent
 transcriptional patterns in the two species, including fatty acid
 oxidation and oxidative phosphorylation, suggesting that these biological
 processes may contribute to explaining variation in hypoxia tolerance in
 these species. When both species were exposed to a single environmental O2
 tension, large transcriptional responses were seen in the hypoxia
 intolerant silverspotted sculpin while almost no response was observed in
 the hypoxia tolerant tidepool sculpin. Overall, divergent transcription
 patterns in response to both magnitude and duration of hypoxia provide
 insights into the processes that may determine an animal's capacity
 to tolerate frequent bouts of hypoxia in the wild.
description: Transcriptomic data for
 O. maculosus and B. cirrhosisRaw data of
 hybridization assays for both species of sculpin for all time-points at
 all O2 tensions. Available in ArrayExpress at
 http://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-3043/. When reusing
 these data, please include the following citation: Microarray data are
 available in the ArrayExpress database (www.ebi.ac.uk/arrayexpress) under
 accession number E-MTAB-3043.Microarray Analysis of
 VarianceThe R script containing
 the code for microarray analysis of variance used in the r/maanova
 package.MaanovaAnalysis.rtfPrincipal Component AnalysisThe R script containing the code for principal component analysis via the 'Easy Microarray data Analysis' package.PrincipalComponentAnalysis.RTidepool Sculpin Data FileTidepool sculpin coalesced data of hybridization assays.TidepoolSculpinDataFile.txtTidepool Sculpin Design FileTidepool sculpin design data file for running r/maanova.TidepoolSculpinDesignFile.txtSilverspotted Sculpin Data FileSilverspotted sculpin coalesced data of hybridization assays.SilverspottedSculpinDataFile.txtSilverspotted Sculpin Design FileSilverspotted sculpin design data file for running r/maanova.SilverspottedSculpinDesignFile.txt