Mesocosm experiment examining microbial community response to three cyanobacteria algaecide treatments
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA785661 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR17182600_1.fastq.gz | Fastqsanger.gz | |||
| SRR17182600_2.fastq.gz | Fastqsanger.gz | |||
| SRR17182601_1.fastq.gz | Fastqsanger.gz | |||
| SRR17182601_2.fastq.gz | Fastqsanger.gz | |||
| SRR17182602_1.fastq.gz | Fastqsanger.gz |
Items per page: 5 1 - 5 of 96 |
Similar Datasets
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
2008-02-08 | GSE10119 | 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:LSARP - Mesocosm experiment 1 Raw sequence reads
| PRJNA906064 | ENA
Project description:Current advances in genomics and computational biology have afforded novel insight as to how the phenotype is generated from the genotype – systems biology. We argue that systems biology, when viewed through an ecological lens, provides an unprecedented opportunity to understand how genes cascade through multiple levels of biological organization to alter ecosystem function. To test this approach, we established six monocultures of Arabidopsis thaliana ‘Columbia’- wild-type plants, six monocultures of a single gene variant (mutant) to the wild-type, and six mixtures with equal density plantings of each genotype in mesocosm chambers (50 x 50 x 45 cm). The mutant harbored a T-DNA insertion in the main nitrate reductase gene (nia2). This is the gateway enzyme for N metabolism, which resulted in activity levels that were 38% of the wild-type. Mesocosms were instrumented to monitor soil and air temperature, water and humidity status, and CO2 differentials. Transcript expression profiles were generated for each of the monoculture populations by collecting and processing 100 leaves per mesocosm at generation 2 and 4. Design: Expression profiles were generated for each monoculture population by pooling 100 leaves per mesocosm into one sample. This resulted in 6 biological replicates for each genotype per generation. Thus, a total of 48 samples were generated (6 wild-type + 6 nia2 mutants x 2 generations x 2 CO2 treatments) and hybridized onto microarrays. We used a direct loop design analyzing generations separately (diagrams of hybridization designs are linked as supplementary PDF files).
2011-01-01 | E-GEOD-16068 | biostudies-arrayexpress
Project description:Mesocosms (600 L) were deployed at the Southern Ocean Time Series (SOTS) in Austral late summer during a high nutrient, low chlorophyll period. One mesocosm represented control, present-day conditions (high nutrients/low temperature/low pCO2/low Fe/low irradiance), while the other was amended to represent a projected 2100 scenario (low nutrients/high temperature/high pCO2/high Fe/high irradiance). Approximately 2 L were filtered from the mesocosms onto 5 µm filters at Days 0, 2, 4, and 7 of the incubation.
2022-10-26 | PXD021185 | Pride
Project description:Role of inflow bacteria for microbial resilience in small waterbodies
| PRJEB56877 | ENA
Project description:Cyanobacterial blooms are a global concern. Chemical coagulants are used in water treatment to remove contaminants from the water column and could potentially be used in lakes and reservoirs. The aims of this study was to: 1) assess the efficiency of ferric sulfate (Fe2(SO4)3) coagulant in removing harmful cyanobacterial cells from lake water with cyanobacterial blooms on a short time scale, 2) determine whether some species of cyanobacteria can be selectively removed, and 3) determine the differential impact of coagulants on intra- and extra-cellular toxins. Our main results are: (i) more than 96% and 51% of total cyanobacterial cells were removed in mesocosms with applied doses of 35 mgFe/L and 20 mgFe/L, respectively. Significant differences in removing total cyanobacterial cells and several dominant cyanobacteria species were observed between the two applied doses; (ii) twelve microcystins, anatotoxin-a (ANA-a), cylindrospermopsin (CYN), anabaenopeptin A (APA) and anabaenopeptin B (APB) were identified. Ferric sulfate effectively removed the total intracellular microcystins (greater than 97% for both applied doses). Significant removal of extracellular toxins was not observed after coagulation with both doses. Indeed, the occasional increase in extracellular toxin concentration may be related to cells lysis during the coagulation process. No significant differential impact of dosages on intra- and extra-cellular toxin removal was observed which could be relevant to source water applications where optimal dosing is difficult to achieve.
| S-EPMC8619581 | biostudies-literature
Project description:Collection of cyanobacteria at NWU, South Africa
| PRJNA680469 | ENA