10.5061/DRYAD.3P545
Sutherland, Ben J.
University of Victoria
Hanson, Kyle C.
United States Fish and Wildlife Service
Jantzen, Johanna R.
University of Victoria
Koop, Ben F.
University of Victoria
Smith, Christian T.
United States Fish and Wildlife Service
Sutherland, Ben J. G.
University of Victoria
Data from: Divergent immunity and energetic programs in the gills of
migratory and resident Oncorhynchus mykiss
Dryad
dataset
2014
Steelhead
ecological genomics
Oncorhynchus mykiss
Immunity
2014-03-06T17:08:52Z
2014-03-06T17:08:52Z
en
https://doi.org/10.1111/mec.12713
315360839 bytes
1
CC0 1.0 Universal (CC0 1.0) Public Domain Dedication
Divergent life history strategies occur in steelhead or rainbow trout
Oncorhynchus mykiss, and many populations produce both migrant (anadromous
fish that move to the ocean after rearing) and resident (do not migrate
and remain in fresh water) individuals. Mechanisms leading to each type
are only partially understood; while the general tendency of a population
is heritable, individual tendency may be plastic, influenced by local
environment. Steelhead hatchery programmes aim to mitigate losses in wild
stocks by producing trout that will migrate to the ocean and not compete
with wild trout for limited freshwater resources. To increase our
understanding of gill function in these migratory or resident phenotypes,
here we compare gill transcriptome profiles of hatchery-released fish
either at the release site (residents) or five river kilometres downstream
while still in full fresh water (migrants). To test whether any of these
genes can be used as predictive markers for smoltification, we compared
these genes between migrant-like and undifferentiated trout while still in
the hatchery in a common environment (prerelease). Results confirmed the
gradual process of smoltification, and the importance of energetics, gill
remodelling and ion transport capacity for migrants. Additionally,
residents overexpressed transcripts involved in antiviral defences,
potentially for immune surveillance via dendritic cells in the gills. The
best smoltification marker candidate was protein s100a4, expression of
which was highly correlated with Na(+) , K(+) ATPase (NKA) activity and
smolt-like morphology in pre- and postrelease trout gills.
photosArchive of photographs of each individual fish in *.jpg format. Fish
identification numbers correspond to Table S1.Table S1. Sample
informationLength, weight, smoltscale, sex and NKA activity for every fish
sampled. Individuals included in the microarray analysis and incorporated
into the microarray reference pool are identified. Numbers assigned to
each sample during RNA purification, and names used for each sample in the
Gene Expression Omnibus accession are also listed.resub_tableS1.xlsxTable
S2. Primer table.qPCR targets, primers, amplicon sizes (bases) and
efficiency percentages from Oncorhynchus mykiss standard
curve.resub_tableS2.docxTable S3. Gene Ontology enrichment in migrants or
residents.Trimmed GO enrichment for the day eight migrant compared to
resident gene lists (GO Trimming performed with an 0.80 soft trim
threshold). BP = Biological Process; CC = Cellular Component; MF =
Molecular Function.resub_tableS3.docxAdditional File 1. Total differential
gene lists.Total differential gene lists for day 8 migrant compared to
resident, pre-release smoltscale 3 compared to smoltscale 2, and resident
day 48 compared to resident day 8.resub_additional_file1.xlsxFigure S1.
Correlation between qPCR and microarray.(a) R2 and slope for each gene
measured by microarray and qPCR (i.e., log2(qPCR) against
log2(microarray)), and two example correlation plots (b) s100a4 and (c)
irf1.resub_figS1.pdfresub_readme2Readme file associated with all files in
this package.
Abernathy Creek
Washington State
United States of America