Melanogrammus aeglefinus
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA287744 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR2082660_1.fastq.gz | Fastqsanger.gz | |||
| SRR2082660_2.fastq.gz | Fastqsanger.gz | |||
| SRR2084090_1.fastq.gz | Fastqsanger.gz | |||
| SRR2084090_2.fastq.gz | Fastqsanger.gz | |||
| SRR2085170_1.fastq.gz | Fastqsanger.gz |
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Similar Datasets
Project description:Melanogrammus aeglefinus chemical genetics
| PRJNA328092 | ENA
Project description:Epigenetic aging clock for Haddock, Melanogrammus aeglefinus
| PRJNA1345711 | ENA
Project description:RNA sequencing of Atlantic haddock (Melanogrammus aeglefinus) larval eyes.
| PRJNA715613 | ENA
Project description:Atlantic haddock (Melanogrammus aeglefinus) is a commercially important species of gadoid fish. In the North Sea, their main spawning areas are located close to the northern continental slope. Eggs and larvae drift with the current across the North Sea. However, fish larvae of many taxa can orient at sea using multiple external cues, including the Earth's magnetic field. In this work, we investigated whether haddock larvae passively drift or orient using the Earth's magnetic field. We observed the behavior of 59 and 102 haddock larvae swimming in a behavioral chamber deployed in the Norwegian North Sea and in a magnetic laboratory, respectively. In both in situ and laboratory settings, where the magnetic field direction was modified, haddock larvae significantly oriented toward the northwest. We conclude that haddock larvae orientation at sea is guided by a magnetic compass mechanism. These results have implications for retention and dispersal of pelagic haddock larvae.
| S-EPMC6831879 | biostudies-literature
Project description:BACKGROUND:Increased availability of genome assemblies for non-model organisms has resulted in invaluable biological and genomic insight into numerous vertebrates, including teleosts. Sequencing of the Atlantic cod (Gadus morhua) genome and the genomes of many of its relatives (Gadiformes) demonstrated a shared loss of the major histocompatibility complex (MHC) II genes 100 million years ago. An improved version of the Atlantic cod genome assembly shows an extreme density of tandem repeats compared to other vertebrate genome assemblies. Highly contiguous assemblies are therefore needed to further investigate the unusual immune system of the Gadiformes, and whether the high density of tandem repeats found in Atlantic cod is a shared trait in this group. RESULTS:Here, we have sequenced and assembled the genome of haddock (Melanogrammus aeglefinus) - a relative of Atlantic cod - using a combination of PacBio and Illumina reads. Comparative analyses reveal that the haddock genome contains an even higher density of tandem repeats outside and within protein coding sequences than Atlantic cod. Further, both species show an elevated number of tandem repeats in genes mainly involved in signal transduction compared to other teleosts. A characterization of the immune gene repertoire demonstrates a substantial expansion of MCHI in Atlantic cod compared to haddock. In contrast, the Toll-like receptors show a similar pattern of gene losses and expansions. For the NOD-like receptors (NLRs), another gene family associated with the innate immune system, we find a large expansion common to all teleosts, with possible lineage-specific expansions in zebrafish, stickleback and the codfishes. CONCLUSIONS:The generation of a highly contiguous genome assembly of haddock revealed that the high density of short tandem repeats as well as expanded immune gene families is not unique to Atlantic cod - but possibly a feature common to all, or most, codfishes. A shared expansion of NLR genes in teleosts suggests that the NLRs have a more substantial role in the innate immunity of teleosts than other vertebrates. Moreover, we find that high copy number genes combined with variable genome assembly qualities may impede complete characterization of these genes, i.e. the number of NLRs in different teleost species might be underestimates.
| S-EPMC5894186 | biostudies-literature
Project description:Atlantic cod (Gadus morhua) and haddock (Melanogrammus aeglefinus) are two commercially important marine fishes impacted by both overfishing and climate change. Increasing ocean temperatures are affecting the physiology of these species and causing changes in distribution, growth, and maturity. While the physiology of cod has been well investigated, that of haddock has received very little attention. Here, we measured the metabolic response to increasing temperatures, as well as the critical thermal maximum (CTmax), of cod acclimated to 8 and 12 °C and haddock acclimated to 12 °C. We also compared the swimming performance (critical swimming speed, U crit) of cod and haddock at 12 °C, as well as the U crit of 12 °C-acclimated cod acutely exposed to a higher-than-optimal temperature (16 °C). The CTmax for cod was 21.4 and 23.0 °C for 8- and 12 °C-acclimated fish, respectively, whereas that for the 12 °C-acclimated haddock was 23.9 °C. These values were all significantly different and show that haddock are more tolerant of high temperatures. The aerobic maximum metabolic rate (MMR) of swimming cod remained high at 16 °C, suggesting that maximum oxygen transport capacity was not limited at a temperature above optimal in this species. However, signs of impaired swimming (struggling) were becoming evident at 16 °C. Haddock were found to reach a higher U crit than cod at 12 °C (3.02 vs. 2.62 body lengths s-1, respectively), and at a lower MMR. Taken together, these results suggest that haddock perform better than cod in warmer conditions, and that haddock are the superior swimmer amongst the two species.
| S-EPMC6777481 | biostudies-literature
Project description:Abstract High-voltage direct current (HVDC) subsea cables are used to transport power between locations and from/to nearshore and offshore facilities. HVDC cables produce magnetic fields (B-fields) that could impact marine fish. Atlantic haddock (Melanogrammus aeglefinus) is a demersal fish that is at risk of exposure to anthropogenic B-fields. Their larvae drift over the continental shelf, and use the Earth's magnetic field for orientation during dispersal. Therefore, anthropogenic magnetic fields from HVDC cables could alter their behavior. We tested the behavior of 92 haddock larvae using a setup designed to simulate the scenario of larvae drifting past a B-field in the intensity range of that produced by a DC subsea cable. We exposed the larvae to a B-field intensity ranging from 50 to 150 µT in a raceway tank. Exposure to the B-field did not affect the spatial distribution of haddock larvae in the raceway. Larvae were categorized by differences in their exploratory behavior in the raceway. The majority (78%) of larvae were nonexploratory, and exposure to the artificial B-field reduced their median swimming speed by 60% and decreased their median acceleration by 38%. There was no effect on swimming of the smaller proportion (22%) of exploratory larvae. These observations support the conclusion that the swimming performance of nonexploratory haddock larvae would be reduced following exposure to B-field from HVDC cables. The selective impact on nonexploratory individuals, and the lack of impact on exploratory individuals, could have population-scale implications for haddock in the wild.
| S-EPMC9802485 | biostudies-literature
Project description:The research objective was to study the presence of DNA damages in haddock exposed to petrogenic or pyrogenic polyaromatic hydrocarbons (PAHs) from different sources: 1) extracts of oil produced water (PW), dominated by 2-ring PAHs; 2) distillation fractions of crude oil (representing oil-based drilling mud), dominated by 3-ring PAHs; 3) heavy pyrogenic PAHs, mixture of 4/5/6-ring PAHs. The biological effect of the different PAH sources was studied by feeding juvenile haddock with low doses of PAHs (0.3-0.7 mg PAH/kg fish/day) for two months, followed by a two-months recovery. In addition to the oral exposure, a group of fish was exposed to 12 single compounds of PAHs (4/5/6-ring) via intraperitoneal injection. The main endpoint was the analysis of hepatic and intestinal DNA adducts. In addition, PAH burden in liver, bile metabolites, gene and protein expression of CYP1A, GST activity, lipid peroxidation, skeletal deformities and histopathology of livers were evaluated. Juvenile haddock responded quickly to both intraperitoneal injection and oral exposure of 4/5/6-ring PAHs. High levels of DNA adducts were detected in livers three days after the dose of the single compound exposure. Fish had also high levels of DNA adducts in liver after being fed with extracts dominated by 2-ring PAHs (a PW exposure scenario) and 3-ring PAHs (simulating an oil exposure scenario). Elevated levels of DNA adducts were observed in the liver of all exposed groups after the 2 months of recovery. High levels of DNA adduct were found also in the intestines of individuals exposed to oil or heavy PAHs, but not in the PW or control groups. This suggests that the intestinal barrier is very important for detoxification of orally exposures of PAHs.
| S-EPMC7580938 | biostudies-literature
Project description:We examined the habitat of juvenile haddock on the eastern Scotian Shelf (off Nova Scotia, Canada) in relation to grab-sampled benthic macrofaunal invertebrate species assemblages in order to determine whether there were significant differences in benthic macrofauna between areas of historically persistent high and low juvenile haddock abundance. Our analyses were conducted over two spatial scales in each of two years: among banks (Emerald, Western and Sable Island), approximately 60 km distant from each other, and between areas of high and low juvenile haddock abundance at distances of 10 to 30 km-all in an area that had not experienced groundfishing in the decade prior to sampling. We also examined fine-scale (10s of metres) within-site variability in the macrofauna and used surficial sediment characteristics, along with hydrographic variables, to identify environmental correlates. PERMANOVA identified statistically significant differences in biomass, density and composition of the benthos associated with juvenile haddock abundance; however it was difficult to determine whether the results had biological relevance. Post hoc tests showed that these differences occurred only on Sable Island Bank where both fish and benthos may have been independently responding to sediment type which was most different there (100% sand in the area of low haddock abundance vs. 22% gravel in the area of high haddock abundance). In total, 383 benthic taxa representing 13 phyla were identified. Annelida was the most specious phylum (36.29% of taxa, representing 33 families), followed by Arthropoda (with Crustaceans, mostly Amphipoda, accounting for 25.07% of the total number of taxa). The strongest pattern in the macrofauna was expressed at the largest scale, between banks, accounting for approximately 25% of the variation in the data. Emerald Bank, deeper, warmer and saltier than the Western and Sable Island Banks, had a distinctive fauna.
| S-EPMC5029893 | biostudies-literature