Marine metagenome
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA72707 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR341453.fastq.gz | Fastqsanger.gz | |||
| SRR341454.fastq.gz | Fastqsanger.gz | |||
| SRR341455.fastq.gz | Fastqsanger.gz | |||
| SRR341456.fastq.gz | Fastqsanger.gz | |||
| SRR341457.fastq.gz | Fastqsanger.gz |
Items per page: 5 1 - 5 of 11 |
Similar Datasets
Project description:Marine ammonia-oxidizing archaea are known to lack the catalase gene that functions as a scavenger at high concentrations of hydrogen peroxide. Therefore, nearly isolated ammonia-oxidizing archaea require the addition of a hydrogen peroxide scavenger to their culture medium, despite being aerobic. To understand the transcriptomic response to hydrogen peroxide stress, we performed RNA-Seq analysis under two different conditions: one without the addition of a hydrogen peroxide scavenger and one with the addition of a hydrogen peroxide scavenger as a control.
2026-03-25 | GSE320517 | GEO
Project description:Parkinson's disease (PD) is a rapidly escalating neurodegenerative disorder marked by dopaminergic neurodegeneration, α-synuclein aggregation, and motor and non-motor impairments. Current therapies largely provide symptomatic relief and fail to prevent disease progression, underscoring the need for novel disease-modifying strategies. The marine biome has emerged as an unexplored reservoir of bioactive metabolites with neuroprotective potential, yet their therapeutic relevance in PD remains incompletely explored. Here, we report that Stutzerimonas stutzeri, a marine bacterium isolated from the Gulf of Mannar, exerts robust neuroprotective effects in Caenorhabditis elegans PD models. Dietary administration of S. stutzeri rescued dopaminergic neuronal loss, mitigated α-synuclein expression, and improved motor and sensory phenotypes. Mechanistic analyses revealed suppression of ferroptosis, evidenced by restoration of iron homeostasis, attenuation of lipid peroxidation, and recovery of ftn-1 expression. Our findings establish S. stutzeri as a previously unrecognized marine-derived therapeutic prospect for PD intervention and highlight ferroptosis modulation as a tractable therapeutic axis in neurodegeneration.
2026-06-03 | GSE312231 | GEO
Project description:In order to identify gene expression difference between marine and freshwater stickleback populations, we compared the transcriptomes of seven adult tissues (eye, gill, heart, hypothalumus, liver, pectoral muscle, telencephalon) between a marine population sampled from the mouth of the Little Campbell river in British Columbia (LITC) and a freshwater population (Fishtrap Creek, FTC) from northern Washington. For each population, the sampled individuals were the lab-reared progeny of a single pair of wild-caught parents.
2011-12-30 | GSE34783 | GEO
Project description:The neurotoxic amino acid, domoic acid, is naturally produced by marine phytoplankton and presents a significant health threat to marine mammal and human populations. Currently, diagnostic tools to assess exposure are not available, yet concerns regarding health impacts associated with low-level repetitive exposure are growing. Here we applied a laboratory zebrafish model to assess exposure to asymptomatic doses of domoic acid in a nine-month low-level repetitive exposure study. Blood analyses, whole brain gene expression, and functional lymphocyte proliferation assays analyzed at 11 time points revealed a quantifiable antibody response that was temporally correlated with upregulated immune response genes and significantly increased spontaneous lymphocyte proliferation. The antibody response was further validated in field exposed California sea lions and provides the first biomarker for chronic exposure assessment.
2013-01-03 | GSE34716 | GEO
Project description:Transcriptome profiling of whole proboscis and body wall of the marine Polychaeta Glycera alba, adults, wild population (sex undiscriminated), collected from the muddy-sandy intertidal flats at W Portugal (2020). Transcriptome profiling of glandular and muscular regions of proboscis of the marine Polychaeta Hediste diversicolor, adults, wild population (sex undiscriminated), collected from the muddy-sandy intertidal flats at W Portugal (2019).
2023-11-29 | GSE196852 | GEO
Project description:The neurotoxic amino acid, domoic acid, is naturally produced by marine phytoplankton and presents a significant health threat to marine mammal and human populations. Currently, diagnostic tools to assess exposure are not available, yet concerns regarding health impacts associated with low-level repetitive exposure are growing. Here we applied a laboratory zebrafish model to assess exposure to asymptomatic doses of domoic acid in a nine-month low-level repetitive exposure study. Blood analyses, whole brain gene expression, and functional lymphocyte proliferation assays analyzed at 11 time points revealed a quantifiable antibody response that was temporally correlated with upregulated immune response genes and significantly increased spontaneous lymphocyte proliferation. The antibody response was further validated in field exposed California sea lions and provides the first biomarker for chronic exposure assessment. Time series domoic acid exposure of zebrafish.
2013-01-03 | E-GEOD-34716 | biostudies-arrayexpress
Project description:Transcriptome profiling of whole proboscis and body wall of the marine Polychaeta Eulalia sp. (Eulalia viridis), adults, wild population (sex undiscriminated), collected from the rocky intertidal at W Portugal (2018).
2021-01-27 | GSE143954 | GEO
Project description:In order to identify gene expression difference between marine and freshwater stickleback populations, we compared the transcriptomes of seven adult tissues (eye, gill, heart, hypothalumus, liver, pectoral muscle, telencephalon) between a marine population sampled from the mouth of the Little Campbell river in British Columbia (LITC) and a freshwater population (Fishtrap Creek, FTC) from northern Washington. For each population, the sampled individuals were the lab-reared progeny of a single pair of wild-caught parents. Four to five fish from each population were used as biological replicates for each of the seven tissues. For each population, the sampled individuals were the lab-reared progeny of a single pair of wild-caught parents. All fish were of similar age and were raised in the same aquarium (salinity: 3.5 ppt), with a plastic divider separating the marine and freshwater groups. One male and four females were sampled from each population. Microarray experiments were performed in a 2-color format on custom Agilent arrays: experimental RNA samples were labeled with Cy5, and the common reference RNA sample was labeled with Cy3. The reference RNA was total RNA isolated from a large number of 7-day-post-hatch embryos from the freshwater population of Bear Paw Lake, Alaska (BEPA). One technical replicate was used for each array, and one of the hypothalamus samples (Hyp_FTC#3) was excluded from further analysis due to poor quality indicators. FTC#1 liver and LITC#2 pectoral muscle samples did not yield RNA of sufficient quality for the microarray experiment, and were also excluded from hybridization.
2011-12-30 | E-GEOD-34783 | biostudies-arrayexpress
Project description:Increasing atmospheric CO2 concentrations are causing decreased pH over vast expanses of the ocean. This decreasing pH may alter biogeochemical cycling of carbon and nitrogen via the microbial process of nitrification, a key process that couples these cycles in the ocean, but which is often sensitive to acidic conditions. Recent reports indicate a decrease in oceanic nitrification rates under experimentally lowered pH. How composition and abundance of ammonia oxidizing bacteria (AOB) and archaea (AOA) assemblages respond to decreasing oceanic pH, however, is unknown. We sampled microbes from two different acidification experiments and used a combination of qPCR and functional gene microarrays for the ammonia monooxygenase gene (amoA) to assess how acidification alters the structure of ammonia oxidizer assemblages. We show that despite widely different experimental conditions, acidification consistently altered the community composition of AOB by increasing the relative abundance of taxa related to the Nitrosomonas ureae clade. In one experiment this increase was sufficient to cause an increase in the overall abundance of AOB. There were no systematic shifts in the community structure or abundance of AOA in either experiment. These different responses to acidification underscore the important role of microbial community structure in the resiliency of marine ecosystems. SUBMITTER_CITATION: Title: Acidification alters the composition of ammonia oxidizing microbial assemblages in marine mesocosms Journal: Marine Ecology Progress Series Issue: 492 Pages: 1-8 DOI: 10.3354/meps 10526 Authors: Jennifer L Bowen Patrick J Kearns Michael Holcomb Bess B Ward
2013-08-27 | GSE49956 | GEO