Ontology highlight
ABSTRACT:
PROVIDER: PRJNA667346 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR12772800_1.fastq.gz | Fastqsanger.gz | |||
| SRR12772800_2.fastq.gz | Fastqsanger.gz | |||
| SRR12772801_1.fastq.gz | Fastqsanger.gz | |||
| SRR12772801_2.fastq.gz | Fastqsanger.gz | |||
| SRR12772802_1.fastq.gz | Fastqsanger.gz |
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Project description:Swimming performance correlates with fitness of Atlantic salmon in the wild and farm conditions. Variation of this trait in salmon populations is high. The study assessed relationship between two parameters of swimming performance: the ability to cope with moderate and maximum swimming efforts.
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Project description:Salmon pancreas disease, caused by salmonid alphavirus (SAV), is an economically important disease affecting farmed Atlantic salmon (Salmo salar L.) in Europe, with outbreaks reported in Scotland, Norway, and Ireland. A microarray-based study was performed to evaluate the host transcriptomic response during the early stages of an experimentally induced salmonid alphavirus 1 (SAV 1) infection in Atlantic salmon (Salmo salar L.) Head kidney was sampled from five fish PD infected Atlantic salmon parr and uninfected controls on days 1, 3 and 5 post injection (d.p.i). RNA from tissue samples was amplified and interrogated using the 17k TRAITS / SGP cDNA microarray, with results validated by SYBR green real-time PCR. The greatest number of significantly differentially expressed genes was recorded on day 3 p.i. These were found to be mainly associated with immune and defence mechanisms including genes involved in interferon I & II pathways and major histocompatibility complex class I & II responses. The expression of genes associated with apoptosis (BcL2 and caspase 3/7) and cellular stress (heat shock protein) were also found to differ significantly between infected and uninfected individuals as were genes involved in inhibiting viral attachment and replication, such as ubiquitin, serum myeloid, and and viperin.
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Project description:An unintended consequence of fish farming is the production of an environment which may be conducive for the evolution of virulence for pathogens interacting with the host in production. Rearing conditions used in salmon aquaculture such as high densities, compressed rearing cycles, limited genetic diversity of broodstock as well as practices applied to control infectious disease, may all lead to increased selection pressures for the evolution of virulence of pathogens. These selection pressures may also be occurring without the balancing of negative fitness costs of virulence due to a constant supply of naïve hosts entering the system every 18-24 months. Changes in virulence of Canadian Lepeophtheirus salmonis populations have not yet been assessed, despite having been identified as a crucial knowledge gap to understand the interactions between farmed and wild hosts as well as the impact of increased disease prevalence at sites which may harbour highly virulent strains. We developed a virulence challenge model by rearing lice originating from wild and farm sources for 6 generations and compared differences in virulence on their host, testing the hypothesis that lice originating from farms were more virulent than those from wild sources. RNA sequencing was completed for copepodid, chalimus II and adult stages of the louse as well as their respective attachment sites on the host to determine responses at the host-parasite interface. We describe the first instance of elevated lesion severity for host Atlantic salmon when infected with farm-sourced lice compared to their wild counterparts. However, this increase did not appear to translate to meaningful differences in host growth rates (e.g. change in lengths or weights). Approximately 900 transcripts had differential expression for at least one life stage between wild and farm sources of lice. Many of these transcripts had functions related to chitin- and heme-binding, serine-endopeptidase, metallo-endopeptidase, and trypsin-like activities.
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