Ontology highlight
ABSTRACT:
PROVIDER: PRJNA818628 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR18462551_1.fastq.gz | Fastqsanger.gz | |||
| SRR18462551_2.fastq.gz | Fastqsanger.gz | |||
| SRR18462552_1.fastq.gz | Fastqsanger.gz | |||
| SRR18462552_2.fastq.gz | Fastqsanger.gz | |||
| SRR18462553_1.fastq.gz | Fastqsanger.gz |
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Project description:Rainbow darter (Etheostoma caeruleum) are a small benthic fish found in North America. This species is sensitive to sewage effluent in the environment, showing the presence of intersex in up to 80% of males in near-field areas in the Grand River, ON. To learn more about the molecular events associated with intersex, we developed a customized oligonucleotide microarray (4x180K) with next generation sequencing (454 Roche) to characterize molecular responses in the gonad. Transcriptomics was performed on both males and females from both a reference site and a polluted site. Males with and without intersex from the polluted site were compared to the control males.
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Project description:Rainbow darter (Etheostoma caeruleum) are a small benthic fish found in North America. This species is sensitive to sewage effluent in the environment, showing the presence of intersex in up to 80% of males in near-field areas in the Grand River, ON. To learn more about the molecular events associated with intersex, we developed a customized oligonucleotide microarray (4x180K) with next generation sequencing (454 Roche) to characterize molecular responses in the gonad. Transcriptomics was performed on both males and females from both a reference site and a polluted site. Males with and without intersex from the polluted site were compared to the control males. Rainbow darter were sampled from from the Grand River in May 2011. Fish were selected according to the location, gonad maturity, and intersex index. Reference fish were taken from the upstream to the urban area; exposed fish were taken from downstream of from Kitchener MWWE treatment plant.
2014-05-22 | E-GEOD-57394 | biostudies-arrayexpress
Project description:Marbled crayfish (Procambarus virginalis) are a parthenogenetically reproducing, globally invasive freshwater crayfish species. Previous work has shown that the global population is characterized by a monoclonal genome, which raises important questions about the mechanisms that promote their invasiveness. Dnmt1 is an evolutionarily conserved DNA methyltransferase responsible for maintaining 5-methylcytosine (5mC) patterns across the genome. While its relevance in transcriptional regulation and cell fate specification is well established, its role in ecological adaptation remains poorly understood. Here we show that environmental changes lead to significant downregulation of Dnmt1 in marbled crayfish. When mimicking this effect through a dsRNA-based in vivo knockdown of Dnmt1, we observed that invasiveness-related behavioral traits, such as activity and boldness were enhanced. Using image cytometry and single-cell RNA sequencing, we also detected an increase in the most mature immune cell type, the granular cells and depletion of hemocyte-derived neuronal precursors, which support adult neurogenesis. Further analysis by whole-genome bisulfite sequencing showed that these phenotypic changes are underpinned by a global reduction in gene body DNA methylation and a dysregulation of genes involved in nervous and immune system functions. Additionally, we observed nucleosome destabilization as a key mechanism influencing transcriptional changes after methylation loss. Our findings highlight a role for Dnmt1 in the canalization of cellular and organismal phenotypes, and provide a paradigm for how downregulation of Dnmt1 can enhance invasive traits.
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