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.
Expression Data from CUFFLINKS
This 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/trout
All_expression-data.csv
C4 Alignment (BAM) file
This is the alignment (BAM) file for control group sample C4 created by mapping the trimmed reads using STAR v2.5.0. Md5 tag = d194fb49262e369e0d143ce0e4cfd0cc
C4.mapping-Aligned.sortedByCoord.out.bam
C9 Alignment (BAM) file
This is the alignment (BAM) file for control group sample C9 created by mapping the trimmed reads using STAR v2.5.0. Md5 tag = 2fc8f6ee81649a6a772f82c720e7a9db
C9.mapping-Aligned.sortedByCoord.out.bam
C10 Alignment (BAM) file
This is the alignment (BAM) file for control group sample C10 created by mapping the trimmed reads using STAR v2.5.0. Md5 tag = 7701d1f77208e03c4fd850d8f22c0775
C10.mapping-Aligned.sortedByCoord.out.bam
C11 Alignment (BAM) file
This is the alignment (BAM) file for control group sample C11 created by mapping the trimmed reads using STAR v2.5.0. Md5 tag = b5c3d65db71162aa1b9d7646fa2823a9
C11.mapping-Aligned.sortedByCoord.out.bam
C12 Alignment (BAM) file
This is the alignment (BAM) file for control group sample C12 created by mapping the trimmed reads using STAR v2.5.0. Md5 tag = 5e700bf725e2f12fade6fc8e925ab676
C12.mapping-Aligned.sortedByCoord.out.bam
P7 Alignment (BAM) file
This is the alignment (BAM) file for pulsed group sample P7 created by mapping the trimmed reads using STAR v2.5.0. Md5 tag = 6336249f9067b0ddc65d0f9a144ff7be
P7.mapping-Aligned.sortedByCoord.out.bam
P13 Alignment (BAM) file
This is the alignment (BAM) file for pulsed group sample P13 created by mapping the trimmed reads using STAR v2.5.0. Md5 tag = 2e1d24aad1707dc3df1e1b43e51e53c2
P13.mapping-Aligned.sortedByCoord.out.bam
P14 Alignment (BAM) file
This is the alignment (BAM) file for pulsed group sample P14 created by mapping the trimmed reads using STAR v2.5.0. Md5 tag = 7eeb1f4452727cf41422cacc3e9f317c
P14.mapping-Aligned.sortedByCoord.out.bam
P15 Alignment (BAM) file
This is the alignment (BAM) file for pulsed group sample P15 created by mapping the trimmed reads using STAR v2.5.0. Md5 tag = c17e282388161b6e7e48305ec8ae421f
P15.mapping-Aligned.sortedByCoord.out.bam
P16 Alignment (BAM) file
This is the alignment (BAM) file for pulsed group sample P16 created by mapping the trimmed reads using STAR v2.5.0. Md5 tag = 7be88352777672f3f755e2511b267fbf
P16.mapping-Aligned.sortedByCoord.out.bam
O. mykiss Blast2GO database
This 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.b2g
O. mykiss GO annotation
The file is a table summarizing the Blast2GO output. See README.txt for more information.
O_mykiss.blast2go.annot.csv
README file
A description of the contents of this data archive.