IMOTOX
Ontology highlight
ABSTRACT:
PROVIDER: PRJEB21009 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| ERR1990480_1.fastq.gz | Fastqsanger.gz | |||
| ERR1990480_2.fastq.gz | Fastqsanger.gz | |||
| ERR1990490_1.fastq.gz | Fastqsanger.gz | |||
| ERR1990490_2.fastq.gz | Fastqsanger.gz | |||
| ERR1990500_1.fastq.gz | Fastqsanger.gz |
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Project description:Temporal Dynamics of the microbial community composition with a focus on toxic cyanobacteria and Toxin presence during harmful algal Blooms in two South German lakes
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Project description:The goal of this project was to determine gene expression changes in the liver at different times post treatment with the common freshwater cyanobacterial toxin, cylindrospermopsin (CYN). The liver is generally considered to be the primary target of this toxin and all the data has been derived from livers of exposed animals as well as concurrent controls. Preliminary gene expression effects have been reported (Chernoff et al., 2010) and the current data extend the time course from 1 hour post exposure to 1-day post cessation of a 5-day period dosing period. Gene expression changes were determined in the livers of pregnant mice exposed to toxic levels of cyanobacterial toxin, cylindrospermopsin. Animals were exposed to a dose of CYN that elicited significant hepatic toxicity. This single dose study analyzed liver samples collected at 1, 3, 6, 12 and 24 hours post dose. Gene expression changes were analyzed on the Illumina MouserRef-8v2.0 expression beadchip.
2016-06-24 | E-GEOD-83197 | biostudies-arrayexpress
Project description:The goal of this project was to determine gene expression changes in the liver at different times post treatment with the common freshwater cyanobacterial toxin, cylindrospermopsin (CYN). The liver is generally considered to be the primary target of this toxin and all the data has been derived from livers of exposed animals as well as concurrent controls. Preliminary gene expression effects have been reported (Chernoff et al., 2010) and the current data extend the time course from 1 hour post exposure to 1-day post cessation of a 5-day period dosing period. Gene expression changes were determined in the livers of pregnant mice exposed to toxic levels of cyanobacterial toxin, cylindrospermopsin. Animals were exposed to a dose of CYN that elicited significant hepatic toxicity. This single dose study analyzed liver samples collected at 1, 3, 6, 12 and 24 hours post dose. Gene expression changes were analyzed on the GeneChip® Mouse Genome 430 2.0 Array.
2016-06-24 | E-GEOD-83199 | biostudies-arrayexpress
Project description:The goal of this project was to determine gene expression changes in the liver at different times post treatment with the common freshwater cyanobacterial toxin, cylindrospermopsin (CYN). The liver is generally considered to be the primary target of this toxin and all the data has been derived from livers of exposed animals as well as concurrent controls. Preliminary gene expression effects have been reported (Chernoff et al., 2010) and the current data extend the time course from 1 hour post exposure to 1-day post cessation of a 5-day period dosing period. Gene expression changes were determined in the livers of pregnant mice exposed to toxic levels of the cyanobacterial toxin, cylindrospermopsin. Animals were exposed to a dose of CYN that elicited significant hepatic toxicity. This multi-day study used tissue obtained 1-day, 2-days, 4-days, and 5-days after the initiation of a 5 consecutive day dosing regimen. Toxicity data including gross observations, necropsy findings and clinical chemistry endpoints indicative of hepatic, renal and homeostasis functions were collected at the same time liver tissues for gene expression analysis were obtained. Gene expression changes were analyzed on the GeneChip® Mouse Genome 430 2.0 Array.
2016-06-24 | E-GEOD-83198 | biostudies-arrayexpress
Project description:Cyanobacterial community composition in eutrophic lakes by 454 pyrosequencing
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Project description:Sepiadarium austrinum, the southern bottletail squid, is a small squid that inhabits soft sediments along Australia’s south-east coast. When provoked this squid rapidly secretes large volumes of slime as a defense mechanism. Behavioral observations suggest that this slime may be toxic to crabs but its composition remains unknown. A reference transcriptome for S. austrinum using give tissues including slime was assembled and a database of 40,444 predicted proteins was created using the Trinotate annotation software with an addition 53 short proteins identified exclusively by proteogenomics. This database was used to identify 1736 proteins within the slime using bottom-up (shotgun) proteomics. The mechanism of slime secretion is likely to involve ejection of cell content with the presence of proteins involved in fundamental intracellular functions such as DNA binding and protein folding being highly abundant, along with few slime proteins containing a signal peptide. Putative toxic proteins were identified within the slime based on characteristics of known toxins, namely cysteine richness, short length, the existence of a signal peptide and homology to known toxins. Our study also adds a crucial layer of evidence for toxicity of these proteins by using direct proteomic measurement within toxic secretions (slime) rather than their parent glands. To our knowledge this is the first such study in cephalopods. Quantitative proteomics has allowed us to highlight two putative toxins within the top ten most abundant slime proteins. The slime secreted by S. austrinum may act as a carrier medium for these putative toxins and this may represent a novel toxin delivery mechanism for cephalopods.
2016-08-08 | PXD003207 | Pride
Project description:Elevated levels of adsorbable organic bromine compounds (AOBr) have been detected in German lakes, and cyanobacteria like Microcystis, which are known for the synthesis of microcystins, are one of the main producers of natural organobromines. However, very little is known about how environmental realistic concentrations of organobromines impact invertebrates. Here, the nematode C. elegans was exposed to AOBr-containing surface water samples and to a Microcystis aeruginosa enriched batch culture (MC-BA) and compared to single organobromines and microcystin-LR exposures. Stimulatory effects were observed in certain life trait variables, which were particularly pronounced in nematodes exposed to MC-BA. A whole genome DNA-microarray revealed that MC-BA led to the differential expression of more than 2000 genes, many of which are known to be involved in metabolic, neurologic, and morphologic processes. Moreover, the up-regulation of cyp- and the down-regulation of abu-genes suggested the presence of chronic stress. However, the nematodes were not marked by negative phenotypic responses. The observed difference in MC-BA and microcystin-LR (which impacted lifespan, growth and reproduction) exposed nematodes was hypothesized to be likely due to other compounds within the batch culture. Most likely the exposure to low concentrations of organobromines appears to buffer the effects of toxic substances, like microcystin-LR.
2015-05-12 | GSE68709 | GEO
Project description:A deterministic model built in COPASI simulating the toxic activity of the K28 toxin produced by Saccharomyces cerevisiae. It simulates the kinetics of inoculating a susceptible population of cells with the toxin and can be used to display the toxin acting via its primary mechanistic pathway at high concentrations or the secondary action pathway, via induced apoptosis, seen at low concentrations.
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Project description:Background: High-energy-density biofuels are typically derived from the fatty acid biosynthesis pathway, thus establishing free fatty acids (FFAs) as important fuel precursors. FFA production using photosynthetic microorganisms like cyanobacteria allows for direct conversion of carbon dioxide into fuel precursors. Recent studies investigating cyanobacterial FFA production have demonstrated the potential of this process, yet FFA production was also shown to have negative physiological effects on the cyanobacterial host, ultimately limiting high yields of FFAs. Results: Cyanobacterial FFA production was shown to generate reactive oxygen species (ROS) and lead to increased cell membrane permeability. To identify genetic targets that may mitigate these toxic effects, RNA-seq analysis was used to investigate the host response of Synechococcus elongatus PCC 7942. Stress response, nitrogen metabolism, photosynthesis, and protein folding genes were up-regulated during FFA production while genes involved in carbon and hydrogen metabolisms were down-regulated. Select genes were targeted for mutagenesis to confirm their role in mitigating FFA toxicity. Gene knockout of two porins and the overexpression of ROS-degrading proteins and hypothetical proteins reduced the toxic effects of FFA production, allowing for improved growth, physiology, and FFA production. Comparative transcriptomics, analyzing gene expression changes associated with FFA production and other stress conditions, identified additional key genes involved in cyanobacterial stress response. Conclusions: A total of 15 gene targets were identified to reduce the toxic effects of FFA production. While single-gene targeted mutagenesis led to minor increases in FFA production, the combination of these targeted mutations may yield additional improvement, advancing the development of high-energy-density fuels derived from cyanobacteria.
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