REDPET_MG
Ontology highlight
ABSTRACT:
PROVIDER: PRJEB13497 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| ERR1358764.fastq.gz | Fastqsanger.gz | |||
| ERR1358765.fastq.gz | Fastqsanger.gz | |||
| ERR1358766.fastq.gz | Fastqsanger.gz |
Items per page: 5 1 - 3 of 3 |
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Project description:Chemical analysis of the compounds present in sediment, although informative, often is not indicative of the downstream biological effects that these contaminants exert on resident aquatic organisms. More direct molecular methods are needed to determine if marine life is affected by exposure to sediments. In this study, we used an aquatic multispecies microarray and q-PCR to investigate the effects on gene expression in juvenile sea bream (Sparus aurata) of two contaminated sediments defined as sediment 1 and 2 respectively, from marine areas in Northern Italy.
2011-01-01 | E-TABM-1146 | biostudies-arrayexpress
Project description:Bacterial diversity of polluted surface sediments in northern Adriatic Sea determined by pyrosequencing
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Project description:Prokaryotic communities in the Northern Adriatic Sea
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Project description:Mytilus galloprovincialis (Lmk, 1819) is economically relevant bivalve specie. In Adriatic Sea, periodical temperatures increases define optimal growth conditions for Dinoflagellate spp which can reach high concentrations also in filter-feeding mussels, thus causing potential human health problems. The most commonly used methods for the detection of Diarrhoeic Shellfish Poisoning biotoxins have either a low sensitivity or are too expensive to be used for routine tests. Genomic tools, such as microarray platforms, provide a reliable and alternative solution to overcome these problems. In this study we used a mussel cDNA microarray for studying gene expression changes in mussels exposed to Okadaic acid. Mussels collected in the Gulf of Trieste, located in Northern Adriatic Sea, were fed with Okadaic acid-spiked invertebrates for five weeks. In a time course experiment we were able to describe an early acute response just from the first 4th day time point. Among the differentially expressed genes we found a general up-regulation of stress proteins and proteins involved in cellular synthesis. Overall, we identified 34 transcripts candidate as useful markers to monitor OA-induced stress in mussels. This study contributes to the characterization of many potential genetic markers that could be used in future environmental monitoring, and could lead to explore new mechanisms of stress tolerance in marine mollusc species. Keywords: Time course, stress response
2009-02-19 | GSE14885 | GEO
Project description:Mytilus galloprovincialis (Lmk, 1819) is economically relevant bivalve specie. In Adriatic Sea, periodical temperatures increases define optimal growth conditions for Dinoflagellate spp which can reach high concentrations also in filter-feeding mussels, thus causing potential human health problems. The most commonly used methods for the detection of Diarrhoeic Shellfish Poisoning biotoxins have either a low sensitivity or are too expensive to be used for routine tests. Genomic tools, such as microarray platforms, provide a reliable and alternative solution to overcome these problems. In this study we used a mussel cDNA microarray for studying gene expression changes in mussels exposed to Okadaic acid. Mussels collected in the Gulf of Trieste, located in Northern Adriatic Sea, were fed with Okadaic acid-spiked invertebrates for five weeks. In a time course experiment we were able to describe an early acute response just from the first 4th day time point. Among the differentially expressed genes we found a general up-regulation of stress proteins and proteins involved in cellular synthesis. Overall, we identified 34 transcripts candidate as useful markers to monitor OA-induced stress in mussels. This study contributes to the characterization of many potential genetic markers that could be used in future environmental monitoring, and could lead to explore new mechanisms of stress tolerance in marine mollusc species. Keywords: Time course, stress response Loop Design experiment including 5 time points (T0 = control samples, T1 = 3 days post treatment, T2 = 1 week post treatment, T4 = 3 weeks post treatment, T6 = 5 weeks post treatment). 3 biological replicates were done for a total number of 15 samples
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Project description:<p>Abstract This study focused on elucidating the lignocellulose degradation mechanism of Pholiota adiposa strain YAHS, aiming to provide theoretical basis and microbial resources for straw biorefining. Using the aniline blue-guaiacol plate screening method, 11 fungal strains were isolated from the Loess Plateau of northern Shaanxi. The highly efficient degrading strain P. adiposa YAHS was identified through DNS-based enzyme activity assays for cellulase and ligninase, combined with ITS sequence analysis. Whole-genome sequencing was performed using a hybrid approach integrating Illumina NovaSeq and Nanopore MinION platforms. Transcriptome-wide differential gene expression analysis was conducted via DESeq2, and untargeted metabolomics was carried out using UPLC-QTOF-MS. Multi-omics data were integrated to dissect the degradation pathways. Results showed that the genome of P. adiposa YAHS is 55.2 Mb in size, encoding 719 carbohydrate-active enzymes (CAZymes), with glycoside hydrolases (GHs) accounting for 37.4%. Multi-omics analysis revealed that this strain degrades lignocellulose into carbohydrates such as monosaccharides, oligosaccharides, and sugar alcohols through key enzymatic genes (e.g., exoglucanase, β-glucosidase, β-xylosidase, β-mannanase, monooxygenase) and metabolic pathways (e.g., sucrose/starch metabolism, fructose/mannose metabolism, anthranilate degradation). we preliminarily elucidated the lignocellulose degradation mechanism of fungi in the genus Pholiota through integrated multi-omics analysis, revealed the critical roles of key cellulolytic enzymes in this process, and provided important microbial resources and theoretical support for the development of novel biorefining technologies.</p>
2025-10-12 | MTBLS13121 | MetaboLights