Ontology highlight
ABSTRACT:
PROVIDER: PRJNA551726 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:Rising atmospheric CO2 concentrations are leading to ocean acidification, altering the inorganic carbon buffer system with consequences for marine organisms. Here we applied RNA-seq and iTRAQ quantification to investigate the potential impacts of ocean acidification on the temperate coastal marine diatom Skeletonema marinoi.
2020-12-09 | PXD021416 | Pride
Project description:In this research we present a transcriptomics analysis of the physiological response of a marine calcifier, Strongylocentrotus purpuratus, to ocean acidification, a decline in ocean pH that results from the absorption of anthropogenic carbon dioxide (CO2). Larvae were raised from fertilization to prism stage in seawater with elevated CO2 conditions based upon IPCC emissions scenario B1 (540ppm CO2) and A1FI (1020ppm CO2).
2009-08-14 | GSE13777 | GEO
Project description:Sequencing the metatranscriptome can provide information about the response of organisms to varying environmental conditions. We present a methodology for obtaining random whole-community mRNA from a complex microbial assemblage using Pyrosequencing. The metatranscriptome had, with minimum contamination by ribosomal RNA, significant coverage of abundant transcripts, and included significantly more potentially novel proteins than in the metagenome. Keywords: metatranscriptome, mesocosm, ocean acidification This experiment is part of a much larger experiment. We have produced 4 454 metatranscriptomic datasets and 6 454 metagenomic datasets. These were derived from 4 samples. The experiment is an ocean acidification mesocosm set up in a Norwegian Fjord in 2006. We suspended 6 bags containing 11,000 L of sea water in a Coastal Fjord and then we bubbled CO2 through three of these bags to simulate ocean acidification conditions in the year 2100. The other three bags were bubbled with air. We then induced a phytoplankton bloom in all six bags and took measurements and performed analyses of phytoplankton, bacterioplankton and physiochemical characteristics over a 22 day period. We took water samples from the peak of the phytoplankton bloom and following the decline of the phytoplankton bloom to analyses using 454 metagenomics and 454 metatranscriptomics. Day 1, High CO2 Bag and Day 1, Present Day Bag, refer to the metatranscriptomes from the peak of the bloom. Day 2, High CO2 Bag and Day 2, Present Day Bag, refer to the metatranscriptomes following the decline of the bloom. Obviously High CO2 refers to the ocean acidification mesocosm and Present Day refers to the control mesocosm. Raw data for both the metagenomic and metatranscriptomic components are available at NCBI's Short Read Archive at ftp://ftp.ncbi.nlm.nih.gov/sra/Studies/SRP000/SRP000101
2008-02-08 | E-GEOD-10119 | biostudies-arrayexpress
Project description:Cymodocea nodosa response to simulated CO2-driven ocean acidification
| PRJEB12372 | ENA
Project description:Our paper presents the results of a study in which we used whole genome bisulfite sequencing (WGBS), RNA-Seq (i.e. transcriptomics), high-CO2 physiology experiments, and spatiotemporally separated samples isolated in situ (i.e. directly from the ocean) to examine the metabolic potential of genome-wide cytosine (5mC) methylation (i.e. epigenomics), its potential impacts to transcriptional dynamics under both present-day and future ocean acidification conditions, and its biogeographic conservation in the globally-significant, biogeochemically-critical marine cyanobacterium Trichodesmium.
2018-03-01 | GSE86991 | GEO
Project description:Our paper presents the results of a study in which we used whole genome bisulfite sequencing (WGBS), RNA-Seq (i.e. transcriptomics), high-CO2 physiology experiments, and spatiotemporally separated samples isolated in situ (i.e. directly from the ocean) to examine the metabolic potential of genome-wide cytosine (5mC) methylation (i.e. epigenomics), its potential impacts to transcriptional dynamics under both present-day and future ocean acidification conditions, and its biogeographic conservation in the globally-significant, biogeochemically-critical marine cyanobacterium Trichodesmium.
2018-03-01 | GSE86979 | GEO
Project description:Ocean acidification, resulting from the dissolution of excess CO2 produced by humans into the ocean, is predicted to impact a broad variety of marine taxa, particularly calcifying animals such as the thecosome (shelled) pteropods. To achieve a better understanding of the mechanisms of pteropod calcification and physiological compensation for high CO2 exposure, we investigated the transcriptomic responses of Clio pyramidata, a cosmopolitan diel migratory thecosome. Individuals were sampled from the Northwest Atlantic in the fall of 2011 and were exposed to ambient (~380 ppm) and end of the century predicted CO2 levels (~800 ppm) and their oxygen consumption was measured. We then used RNA-seq technology to assess transcriptome-wide effects of exposure to elevated CO2. We conducted a de novo assembly of the transcriptome of C. pyramidata, annotated the genes associated with biomineralization, and assessed the differential gene expression patterns. This assembly reveals a number of similarities with other molluscan transcriptomes, and some similar biomineralization genes such as perlucin, calmodulin, regucalcin and SPARC. The results of the differential expression indicate that there is a great deal of natural variability in gene expression and suggest that a few genes putatively associated with biomineralization, particularly perlucin, were up-regulated in the high CO2 treatment. This is the first experiment employing gene expression analysis to investigate the effects of CO2 on a planktonic open-ocean species, providing the first insights into the effects of acidification on these important planktonic calcifiers and suggesting interesting gene families which may prove useful in further ecophysiological, biomaterials and phylogenetic studies.
2015-09-27 | GSE53151 | GEO
Project description:Sargassum is one of the most diverse brown algal genus with more than 150 known species, mostly benthic and few pelagic species. They contribute significantly to global primary production and serve as important habitat for wide range of marine organisms. Sargassum vulgare is one of the dominant habitat forming species along Mediterranean coast. Despite their huge ecological importance, it is relatively unknown how they will respond under future global climate change scenario. This work used de novo transcriptome sequencing approach to understand the molecular response of S. vulgare to chronic acidification at the shallow underwater volcanic CO2 vents off Ischia Island, Italy. Keywords: brown algae, Sargassum, de novo transcriptome, ocean acidification, CO2 vents.
2017-01-16 | GSE78707 | GEO