Data from: Rapid light-induced shifts in opsin expression: finding new opsins, discerning mechanisms of change, and implications for visual sensitivity

Fuller RC, Claricoates KM

Date Published: August 20, 2015

DOI: http://dx.doi.org/10.5061/dryad.k8073.2

 

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Title datatodryad
Downloaded 89 times
Description This Excel file contains the main data from Fuller & Claricoates. We list the population (population), the water treatment (water), and the day on which fish were sampled after being introduced into the lighting treatments (day). Due to low sample sizes, we had to pool these into “early, middle, and late” sampling periods which we refer to as (time). We also list the (sample name) and (sex) of the individual. We then list the mean critical threshold cycle for each individual for the following genes: elongation factor 1-alpha (CT-ef 1a), LWS (CT-LWS), RH2-1 (CT-RH2-1), RH2-2 (CT-RH2-2), SWS1 (CT-SWS1), SWS2A (CT-SWS2A), and SWS2B (CT-SWS2B). Based on these data and the efficiencies listed in our manuscript, we calculated the expression of each opsin gene relative to our housekeeping gene, elongation factor 1 alpha. These are listed as (rel-lws_ef), (rel-rh2-1_ef), (rel-rh2-2_ef), (rel-sws1_ef), (rel-sws2a_ef), and (rel-sws2b_ef). We also calculated the natural log of the relative expression of each opsin. These are listed in this file as (log(relsws1-ef)), (log(relsws2b-ef)), (log(relsws2a-ef)), (log(relrh21-ef)), (log(relrh22-ef)), and (log(rellws-ef)). We also calculated the proportional expression of each opsin gene relative to the total opsin pool. These are listed in this file as (propLWS), (propRH2-1), (propRH2-2), (propSWS1), (propSWS2a), and (propSWS2b). Finally, we also calculated the proportion expression of each opsin gene relative to all of the opsins, but excluding RH2-2. These are listed in this file as (propSWS1(noRH2-2)), (propSWS2b(noRH2-2)), (propSWS2a(noRH2-2)), (propRH2-1(noRH2-2)), and (propLWS(noRH2-2)). For other inquiries about these data, please contact Becky Fuller – fuller@life.illinois.edu.
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Title Lucania goodei EF1 -alpha
Downloaded 3 times
Description This is a fasta file that contains the sequence data for elongation factor 1 alpha in Lucania goodei. Genbank would not accept this data because we used cDNA that was pooled from several populations. However, we are analyzing new sequence data from a single population and should soon have an EF-1-alpha sequence submitted to Genbank.
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Title Lucania goodei RH2-2
Downloaded 4 times
Description This is a fasta file that contains the sequence data for the RH2-2 opsin in Lucania goodei. Genbank would not accept this data because we used cDNA that was pooled from several populations. However, we are analyzing new sequence data from a single population and should soon have an RH2-2 sequence submitted at Genbank.
Download Lucania_goodei_RH2-2.fasta (1.203 Kb)
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When using this data, please cite the original publication:

Fuller RC and Claricoates KM (2011) Rapid light-induced shifts in opsin expression: finding new opsins, discerning mechanisms of change, and implications for visual sensitivity. Molecular Ecology 20(16): 3321–3335. http://dx.doi.org/10.1111/j.1365-294X.2011.05180.x

Additionally, please cite the Dryad data package:

Fuller RC, Claricoates KM (2011) Data from: Rapid light-induced shifts in opsin expression: finding new opsins, discerning mechanisms of change, and implications for visual sensitivity. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.k8073.2
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