Boreogadus saida
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1062734 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR28270300_1.fastq.gz | Fastqsanger.gz | |||
| SRR28270300_2.fastq.gz | Fastqsanger.gz | |||
| SRR28270400_1.fastq.gz | Fastqsanger.gz | |||
| SRR28270400_2.fastq.gz | Fastqsanger.gz | |||
| SRR28270500_1.fastq.gz | Fastqsanger.gz |
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Similar Datasets
Project description:Polar cod (Boreogadus saida), a key arctic fish species spawning during the polar night, may be at risk for crude oil exposure during this potential sensitive life stage. This study investigates the effects of crude oil exposure on Polar cod during spawning season. Wild-caught polar cod were exposed to crude oil water accommodated fraction (WAF) (start concentrations of sum of 44 polycyclic aromatic hydrocarbon (sum 44 PAHs) at 12.5 μg/L) from pre-spawning to post-spawning. The exposure system consisted of an oiled-rock-column system where running though sweater delivers WAF in the fish tank at decreasing concentrations over time. Samples were taken at three time-points (pre-spawning, spawning window, and post-spawning) and used to evaluate changes in reproductive endpoints such as gonad histology, plasma steroid hormones and sperm motility. For RNA-extraction and sequencing, liver samples from both oil-exposed and control groups of female fish (n = 5 per group) were taken at 47 days after experiment start and submitted for sequencing. RNA-seq analysis showed that hundreds of genes were differentially expressed in the liver.
2024-09-08 | E-MTAB-12354 | biostudies-arrayexpress
Project description:Polar cod, a key fish species in the arctic marine foodweb is vulnerable to effects of pollution from offshore petroleum related activities in the Arctic and sub-arctic region. The study was conducted to map transcriptome responses to in Polar cod (Boreogadus saida) liver slice culture exposed to benzo[a]pyrene (BaP) in the presence or absence of physiological levels of ethynylestradiol (EE2). BaP is a polycyclic aromatic hydrocarbon (PAH), also found in crude oil contaminants. PAHs such as BaP are among the most toxic compounds of crude oil. Precision-cut liver slice cultures from five female polar cod (n = 5/ group, paired design) were exposed to BaP alone (10 µM), or in combination with low concentrations of EE2 (5 nM), to mimic physiological estradiol levels in early vitellogenic female fish. Transcriptome analysis (RNA-seq) was performed after 72 h exposure in culture. The results provide a global view of transcriptome responses to BaP, EE2 and their mixture. In the mixture exposure, BaP resulted attenuation of EE2 stimulated gene expression (anti-estrogenic effects). The results from this ex vivo experiment suggest that pollutants that activate the Ahr pathway such as the PAH compound BaP can result in anti-estrogenic effects that may lead to endocrine disruption in polar cod.
2021-05-24 | E-MTAB-10509 | biostudies-arrayexpress
Project description:Boreogadus saida Transcriptome or Gene expression
| PRJNA399761 | ENA
Project description:Population genomics of Boreogadus saida
| PRJEB77070 | ENA
Project description:RNA-seq of polar cod (Boreogadus saida) liver slice culture exposed to benzo[a]pyrene and ethynylestradiol
| PRJEB45221 | ENA
Project description:The polar cod, Boreogadus saida, is an abundant and ubiquitous forage fish and a crucial link in Arctic marine trophic dynamics. Our objective was to unravel layers of genomic structure in B. saida from Canadian waters, specifically screening for potential hybridization with the Arctic cod, Arctogadus glacialis, large chromosomal inversions, and sex-linked regions, prior to interpreting population structure. Our analysis of 53,384 SNPs in 522 individuals revealed hybridization and introgression between A. glacialis and B. saida. Subsequent population level analyses of B. saida using 12,305 SNPs in 511 individuals revealed three large (ca. 7.4-16.1 Mbp) chromosomal inversions, and a 2 Mbp region featuring sex-linked loci. We showcase population structuring across the Western and Eastern North American Arctic, and subarctic regions ranging from the Hudson Bay to the Canadian Atlantic maritime provinces. Genomic signal for the inferred population structure was highly aggregated into a handful of SNPs (13.8%), pointing to potentially important adaptive evolution across the Canadian range. Our study provides a high-resolution perspective on the genomic structure of B. saida, providing a foundation for work that could be expanded to the entire circumpolar range for the species.
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Project description:One of the recently recognised stressors in Arctic ecosystems concerns plastic litter. In this study, juvenile polar cod (Boreogadus saida) were investigated for the presence of plastics in their stomachs. Polar cod is considered a key species in the Arctic ecosystem. The fish were collected both directly from underneath the sea ice in the Eurasian Basin and in open waters around Svalbard. We analysed the stomachs of 72 individuals under a stereo microscope. Two stomachs contained non-fibrous microplastic particles. According to µFTIR analysis, the particles consisted of epoxy resin and a mix of Kaolin with polymethylmethacrylate (PMMA). Fibrous objects were excluded from this analysis to avoid bias due to contamination with airborne micro-fibres. A systematic investigation of the risk for secondary micro-fibre contamination during analytical procedures showed that precautionary measures in all procedural steps are critical. Based on the two non-fibrous objects found in polar cod stomachs, our results show that ingestion of microplastic particles by this ecologically important fish species is possible. With increasing human activity, plastic ingestion may act as an increasing stressor on polar cod in combination with ocean warming and sea-ice decline in peripheral regions of the Arctic Ocean. To fully assess the significance of this stressor and its spatial and temporal variability, future studies must apply a rigorous approach to avoid secondary pollution.
| S-EPMC6445488 | biostudies-literature
Project description:The Arctic climate is changing at an unprecedented rate. What consequences this may have on the Arctic marine ecosystem depends to a large degree on how its species will respond both directly to elevated temperatures and more indirectly through ecological interactions. But despite an alarming recent warming of the Arctic with accompanying sea ice loss, reports evaluating ecological impacts of climate change in the Arctic remain sparse. Here, based upon a large-scale field study, we present basic new knowledge regarding the life history traits for one of the most important species in the entire Arctic, the polar cod (Boreogadus saida). Furthermore, by comparing regions of contrasting climatic influence (domains), we present evidence as to how its growth and reproductive success is impaired in the warmer of the two domains. As the future Arctic is predicted to resemble today's Atlantic domains, we forecast changes in growth and life history characteristics of polar cod that will lead to alteration of its role as an Arctic keystone species. This will in turn affect community dynamics and energy transfer in the entire Arctic food chain.
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