Aquatic metagenome
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA284347 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:Chromosome-level genome assembly and annotation of the yellow grouper (Epinephelus awoara)
| PRJNA1054557 | ENA
Project description:Chromosome-level genome assembly and annotation of the yellow grouper (Epinephelus awoara)
| PRJNA1054584 | ENA
Project description:The spleen of grouper is the target organ of SGIV attack.We used single cell RNA sequencing (scRNA-seq) to analyze the effect of SGIV infection on spleen cells of Epinephelus Lanceolatus.
2024-11-20 | GSE218442 | GEO
Project description:Groupers (Epinephelidae) are ecologically, commercially, and culturally important predatory fishes throughout their global distribution range in tropical, subtropical and occasionally temperate regions. They are key species for modern and ancient fisheries in the Mediterranean which have been heavily overfished in the past century leading to smaller catch sizes, lower CPUE, and decreased biomass. There are four species of grouper native to the Mediterranean within the Epinephelus genus.The abundance and distribution of grouper species prior to the 20th century in the Mediterranean remains poorly known. Using peptide mass fingerprinting, also known as Zooarchaeology by Mass Spectrometry (ZooMS), we investigated if ZooMS is a viable method for identifying intra-genus grouper bones to species level. Due to the lack of publicly available genomic sequences and for validation of ZooMS markers, we reconstructed collagen type I amino acid sequences using LC-MS/MS for four Epinephelus spp. Adequate variation between collagen sequences enabled the production of the best supported phylogenetic tree for Mediterranean Epinephelus spp. to date. We identified 23 previously undescribed ZooMS biomarkers capable of distinguishing groupers to the species level. Our novel biomarkers were applied to a case study of 23 grouper/comber fish bones from the Middle to Late Holocene archaeological site of Kinet Höyük, located along the coast of Iskenderun Bay, Turkey. ZooMS markers enabled species level identification of 19 bones with 18 identified as Epinephelus aeneus and 1 identified as Epinephelus marginatus. Combining ZooMS identifications with catch size reconstructions has revealed that E. aeneus is capable of growing ca. 30 cm larger than previously reported. This abundance and dominance of E. aeneus locally at Kinet Höyük is consistent with E. aeneus being the most prevalent grouper species in Iskenderun Bay today, testifying to several millennia of this species local population persistence despite fishing pressure, habitat degradation, and climatic changes.
2023-10-23 | PXD042430 | Pride
Project description:Fishmeal replacement with plant protein is an important strategy for sustainable aquaculture, although high soybean meal inclusion may impair growth and metabolism in carnivorous fish. This study investigated the hepatic proteomic responses of juvenile hybrid grouper (Epinephelus fuscoguttatus × Epinephelus lanceolatus) fed diets containing 30% or 40% soybean meal, with or without 3% citric acid supplementation, compared with a fishmeal control diet. Liver proteins were extracted and analyzed using label-free LC-MS/MS on a Thermo Scientific Q Exactive Plus mass spectrometer. A total of 1,544 proteins were identified, and differential protein abundance, Gene Ontology enrichment, KEGG pathway analysis, and protein-protein interaction network analyses were performed to investigate metabolic adaptation associated with dietary treatments. The dataset provides molecular insights into hepatic responses to soybean meal replacement and the effect of citric acid supplementation on nutrient utilization and energy metabolism in hybrid grouper.
2026-08-17 | PXD081994 | Pride
Project description:Epinephelus awoara Transcriptome or Gene expression
| PRJNA76141 | ENA
Project description:microRNAs (miRNAs) are an evolutionarily conserved class of non-coding RNA molecules, which regulate kinds of biological processes at post-transcriptional level. Investigation of miRNAs expression profiles using high-throughput strategies is efficiently conductive to identify and characterize miRNAs. In this study, through Solexa deep sequencing approach, we obtained 115 orange spotted grouper (Epinephelus coioides) encoded miRNAs. Among them, 107 miRNAs shared high similarity with miRNAs encoded by zebrafish (Danio rerio) and other four vertebrates, indicating that cellular miRNAs are highly conserved between species.
2015-01-01 | GSE64445 | GEO