DOI: 10.5061/dryad.73b86
title: Data from: Candidate genes mediating magnetoreception in rainbow trout (Oncorhynchus mykiss)

description: Diverse animals use Earth's magnetic field in orientation and
 navigation, but little is known about the molecular mechanisms that
 underlie magnetoreception. Recent studies have focused on two
 possibilities: (i) magnetite-based receptors; and (ii) biochemical
 reactions involving radical pairs. We used RNA sequencing to examine gene
 expression in the brain of rainbow trout (Oncorhynchus mykiss) after
 exposure to a magnetic pulse known to disrupt magnetic orientation
 behaviour. We identified 181 differentially expressed genes, including
 increased expression of six copies of the frim gene, which encodes a
 subunit of the universal iron-binding and trafficking protein ferritin.
 Functions linked to the oxidative effects of free iron (e.g.
 oxidoreductase activity, transition metal ion binding, mitochondrial
 oxidative phosphorylation) were also affected. These results are
 consistent with the hypothesis that a magnetic pulse alters or damages
 magnetite-based receptors and/or other iron-containing structures, which
 are subsequently repaired or replaced through processes involving
 ferritin. Additionally, some genes that function in the development and
 repair of photoreceptive structures (e.g. crggm3, purp, prl, gcip, crabp1
 and pax6) were also differentially expressed, raising the possibility that
 a magnetic pulse might affect structures and processes unrelated to
 magnetite-based magnetoreceptors.
description: Expression Data from
 CUFFLINKSThis spreadsheet
 contains the normalized expression level (FPKM) in each of the 10
 sequenced libraries, in addition to the expression for each treatment
 (control vs pulsed) and the expression ratio (log2_fold_change). The
 “Description” for each protein includes all annotated GO terms for that
 protein from BLAST2GO. All protein IDs are from the Trout Genome Browser –
 www.genoscope.cns.fr/troutAll_expression-data.csvC4 Alignment (BAM) fileThis is the alignment (BAM) file for control group sample C4 created by mapping the trimmed reads using STAR v2.5.0. Md5 tag = d194fb49262e369e0d143ce0e4cfd0ccC4.mapping-Aligned.sortedByCoord.out.bamC9 Alignment (BAM) fileThis is the alignment (BAM) file for control group sample C9 created by mapping the trimmed reads using STAR v2.5.0. Md5 tag = 2fc8f6ee81649a6a772f82c720e7a9dbC9.mapping-Aligned.sortedByCoord.out.bamC10 Alignment (BAM) fileThis is the alignment (BAM) file for control group sample C10 created by mapping the trimmed reads using STAR v2.5.0. Md5 tag = 7701d1f77208e03c4fd850d8f22c0775C10.mapping-Aligned.sortedByCoord.out.bamC11 Alignment (BAM) fileThis is the alignment (BAM) file for control group sample C11 created by mapping the trimmed reads using STAR v2.5.0. Md5 tag = b5c3d65db71162aa1b9d7646fa2823a9C11.mapping-Aligned.sortedByCoord.out.bamC12 Alignment (BAM) fileThis is the alignment (BAM) file for control group sample C12 created by mapping the trimmed reads using STAR v2.5.0. Md5 tag = 5e700bf725e2f12fade6fc8e925ab676C12.mapping-Aligned.sortedByCoord.out.bamP7 Alignment (BAM) fileThis is the alignment (BAM) file for pulsed group sample P7 created by mapping the trimmed reads using STAR v2.5.0. Md5 tag = 6336249f9067b0ddc65d0f9a144ff7beP7.mapping-Aligned.sortedByCoord.out.bamP13 Alignment (BAM) fileThis is the alignment (BAM) file for pulsed group sample P13 created by mapping the trimmed reads using STAR v2.5.0. Md5 tag = 2e1d24aad1707dc3df1e1b43e51e53c2P13.mapping-Aligned.sortedByCoord.out.bamP14 Alignment (BAM) fileThis is the alignment (BAM) file for pulsed group sample P14 created by mapping the trimmed reads using STAR v2.5.0. Md5 tag = 7eeb1f4452727cf41422cacc3e9f317cP14.mapping-Aligned.sortedByCoord.out.bamP15 Alignment (BAM) fileThis is the alignment (BAM) file for pulsed group sample P15 created by mapping the trimmed reads using STAR v2.5.0. Md5 tag = c17e282388161b6e7e48305ec8ae421fP15.mapping-Aligned.sortedByCoord.out.bamP16 Alignment (BAM) fileThis is the alignment (BAM) file for pulsed group sample P16 created by mapping the trimmed reads using STAR v2.5.0. Md5 tag = 7be88352777672f3f755e2511b267fbfP16.mapping-Aligned.sortedByCoord.out.bamO. mykiss Blast2GO databaseThis file contains the complete de novo annotation of all protein-coding genes in the trout genome using Blast2GO. This file can only be opened using Blast2GO, and the user must request a license (free) from the supplier.Omykiss.b2gO. mykiss GO annotationThe file is a table summarizing the Blast2GO output. See README.txt for more information.O_mykiss.blast2go.annot.csvREADME fileA description of the contents of this data archive.