Ontology highlight
ABSTRACT:
PROVIDER: PRJNA738385 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR14828360_1.fastq.gz | Fastqsanger.gz | |||
| SRR14828360_2.fastq.gz | Fastqsanger.gz | |||
| SRR14828361_1.fastq.gz | Fastqsanger.gz | |||
| SRR14828361_2.fastq.gz | Fastqsanger.gz | |||
| SRR14828362_1.fastq.gz | Fastqsanger.gz |
Items per page: 5 1 - 5 of 40 |
Similar Datasets
Project description:Effluent from geoduck clam larval rearing tanks at two different pH (8.2 and 7.1) was collected at 4 time points (Days 1, 5, 8, and 12) over 12 days in a shellfish hatchery in Washington state, USA. The water was filtered to 0.2 microns to retain the bacterial fraction.
2021-04-21 | PXD020692 | Pride
Project description:The shellfish aquaculture industry provides a sustainable food source and jobs for a growing population. Oysters are the primary aquaculture species produced in the United States and account for a significant portion of seafood exports. Shellfish hatcheries have been experiencing frequent mass mortality events over the last couple of decades that occur approximately 10-14 days after oyster settlement. Settlement is a process that shellfish such as oysters undergo in which they transform from a free-swimming pelagic larvae to a sessile juvenile oyster. In order for this energy-intensive process to be successful, the oyster has to undergo behavioral and morphological changes. This is a vulnerable period in the oyster life cycle and conditions need to be such that they aren’t creating added stress. However, due to the oysters’ vulnerability, this is often a time when bacterial infections can occur, which when occurring with environmental conditions that are unfavorable, can prove to be fatal. In order to help oysters survive this process, scientists at the Taylor Shellfish Hatchery in Quilcene, WA has experimented with altering abiotic and biotic factors such as algal diet densities, pH, water flow rate, among others. At this hatchery, Pacific oysters are typically reared at 23˚C, however preliminary research results have suggested that oysters may have a higher survival rate when held at 29˚C during the settlement period. This pilot experiment attempts to identify differences in protein expression between oyster seed held at 23˚C and 29˚C during the settlement period using novel proteomic technology. Our proteomic results, paired with survival data, suggest that holding oyster seed at 29˚C during the settlement period results in higher survival rates.
2022-03-03 | PXD015434 | Pride
Project description:Samples from different locations within a shellfish hatchery Metagenome
| PRJNA1173763 | ENA
Project description:The study was designed to investigate the impacts of hatchery spawning and rearing on steelhead trout (Oncorhynchus mykiss) versus the wild fish on a molecular level. Additionally, epigenetic differences between feeding practices that allow slow growth and fast growth hatchery trout were investigated. The sperm and RBC DNA both had a large number of DMRs when comparing the hatchery versus wild steelhead trout populations. Interestingly, the DMRs were cell type specific with negligible overlap. Slow growth compared to fast growth steelhead also had a larger number of DMRs in the RBC samples. Observations demonstrate a major epigenetic programming difference between the hatchery and wild fish populations, but negligible genetic differences. Therefore, hatchery conditions and growth rate can alter the epigenetic developmental programming of the steelhead trout, which may correlate to the phenotypic variations observed.
2020-05-24 | GSE145887 | GEO
Project description:To identify gene expression differences between Oncorhynchus mykiss that migrate and those that reside in freshwater, we compared gill transcriptomes of fish prior to release from a hatchery with those of fish recaptured eight days post-release while all fish were still in freshwater, but some were captured next to the hatchery (non-migrants) and others were captured moving toward the ocean (migrants). The in-hatchery sampling method represents a highly similar environment for all the fish, and allows for the determination of activated genes predictive of smolting programs prior to release into streams. Morphological (e.g. color) and physiological (gill NaCl-ATPase activity) data were also obtained and correlated to gene expression differences to aid in predictions.
2014-03-04 | GSE48844 | GEO
Project description:To identify gene expression differences between Oncorhynchus mykiss that migrate and those that reside in freshwater, we compared gill transcriptomes of fish prior to release from a hatchery with those of fish recaptured eight days post-release while all fish were still in freshwater, but some were captured next to the hatchery (non-migrants) and others were captured moving toward the ocean (migrants). The in-hatchery sampling method represents a highly similar environment for all the fish, and allows for the determination of activated genes predictive of smolting programs prior to release into streams. Morphological (e.g. color) and physiological (gill NaCl-ATPase activity) data were also obtained and correlated to gene expression differences to aid in predictions. Gill tissue was sampled for transcriptome profiling 13 days prior to two different releases from the hatchery (total sampled within hatchery n = 19). Samples were also taken eight days after the two releases near-hatchery (total in-creek n = 20) or migrating towards the ocean but still in freshwater (second release only n = 20). Finally, 48 days after the second release a final set of resident fish were sampled near the hatchery (n =10). In terms of time after release, the most parallel comparison is the second 8 day post release sample in-creek and migrating. Although all samples were obtained in freshwater, the samples with the most similar local environment are the pre-release samples.
2014-03-04 | E-GEOD-48844 | biostudies-arrayexpress
Project description:The aim of this study is to find genes with differential expression in the kidney when the organism has reduced water intake. Animals either had access to water ad libitum or had no access to water for 3 days. The whole kidney was sequenced to gain a comprehensive view of renal gene expression. Differentially expressed genes may be involved in the renal response to dehydration. This dataset is useful to compare to other whole kidney transcriptome datasets to find conserved gene expression responses.
2023-12-31 | GSE242702 | GEO
Project description:Pacific geoduck (Panopea generosa) clams are found along the Northeast Pacific coast where they are significant components of coastal and estuarine ecosystems and the basis of a highly profitable aquaculture industry. The Pacific coastline, however, is also the sight of rapidly changing ocean habitat, including significant reductions in pH. To better understand the physiological impact of ocean acidification on geoduck clams, we characterized for the first time the proteomic profile of this bivalve during early larval development and compared it to that of larvae exposed to low pH.Geoduck larvae wer reared at pH 7.5 (ambient) or 7.1 in a commercial shellfish hatchery from day 6 to 19 post-fertilization , and sampled at six time points for an in-depth proteomics analysis using high-resolution data dependent analysis. We found that larvae reared at low pH were smaller than those reared at ambient pH, especially in the prodissoconch II phase of development, and displayed a delay in their competency for settlement. Proteomic profiles revealed that metabolic, cell cycle, and protein turnover pathways differed between the two pH, suggesting that differing phenotypic outcomes between pH 7.5 and 7.1 are likely due to environmental disruptions to the timing of molecular physiological events. In summary, ocean acidification likely caused an energetic stress on geoduck larvae, casuing a shift in physiological prioritization.
2019-05-04 | PXD013667 | Pride