Exploring the effects of rearing densities on epigenetic modifications in the zebrafish gonads
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA555996 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR9729410_1.fastq.gz | Fastqsanger.gz | |||
| SRR9729410_2.fastq.gz | Fastqsanger.gz | |||
| SRR9729420_1.fastq.gz | Fastqsanger.gz | |||
| SRR9729420_2.fastq.gz | Fastqsanger.gz | |||
| SRR9729430_1.fastq.gz | Fastqsanger.gz |
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Project description:The goal of this study was to determine whether there was a direct relationship between stress and DNA methylation changes in fish gonads. During sex differentiation, we studied the sensitive window to density. Sex ratios were studied and methylation of canonical reproduction-related genes was analysed.
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Project description:Captive rearing programs (hatcheries) are often used in conservation and management efforts for at-risk salmonid fish populations. However, hatcheries typically rear juveniles in environments that contrast starkly with natural conditions, which may lead to phenotypic and/or genetic changes that adversely affect the performance of juveniles upon their release to the wild. Environmental enrichment has been proposed as a mechanism to improve the efficacy of population restoration efforts from captive-rearing programs: in this study, we examine the influence of environmental enrichment during embryo and yolk-sac larval rearing at the level of the transcriptome in Atlantic salmon (Salmo salar). Full siblings were reared in either a “simple” environment devoid of structure or a “complex” environment enriched with gravel substrate. At the end of endogenous feeding by juveniles, we examined patterns of gene transcription in head tissues using the cGRASP-designed Agilent 4×44K microarray. Significance analysis of microarrays (SAM) indicated that 808 genes were differentially transcribed between rearing environments and a total of 184 gene ontological (GO) terms were over- or under-represented, several of which are associated with mitosis/cell cycle and muscle and heart development. However, there were also pronounced differences among families in gene transcriptional response to rearing environment, with the number of genes significantly differentially transcribed by juveniles in our independent analyses of each family ranging from zero to 3445 (FDR of 5%). Overall, our results suggest that rearing environment enrichment can profoundly change patterns of gene transcription during salmon development, but that the degree of response depends on genetic background.
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