Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1002328 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| Other | ||||
| SRR23075196.fastq.gz | Fastqsanger.gz | |||
| SRR24741709_1.fastq.gz | Fastqsanger.gz | |||
| SRR24741709_2.fastq.gz | Fastqsanger.gz | |||
| SRR25420772_1.fastq.gz | Fastqsanger.gz |
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Project description:The copper redhorse (Moxostoma hubbsi) is an endangered fish endemic to Quebec, Canada that is only known to spawn in two locations within the Richelieu River, a waterway draining a significant area of agricultural land. Accordingly, concerns have been raised over the impacts that agricultural pesticide contamination of spawning grounds and nursery habitats within the Richelieu River may have on early life stage copper redhorse. We assessed the effects of contaminants on early life stages of copper redhorse and river redhorse (Moxostoma carinatum), a closely related fish that shares the copper redhorse’s habitat and spawning grounds but is distributed more widely and is not yet listed as endangered. Copper and river redhorse embryos (1000 each) were exposed to either Richelieu River water in an in-situ flow-through system or to laboratory water used as a control. We assessed embryos hatching time, incidence of deformities and survival in copper and river redhorses. We then performed RNA sequencing on copper redhorse larvae to better understand changes due to river water exposure. We identified 341 compounds in the river water that were absent from lab water. Pesticide concentrations in the river peaked following rainfall during the spawning season. Embryos exposed to river water hatched prematurely at 63.0 and 59.2 cumulative degree days (CDD) compared to 65.4 and 69.9 CDD in laboratory water for river and copper redhorse, respectively. Copper redhorse exposed to river water also had a significantly lower survival rate than laboratory water (73% vs. 93%). RNA sequencing of copper redhorse revealed 18 differentially expressed genes (DEGs) following river water exposure. Eight of the upregulated DEGs (cd44, il1b, lamb3, lamc2, tgm5, orm1, saa, acod1) are linked to immune function and injury response and 7 of the downregulated DEGs (cpa2, ctrb, cela2a, ctrl, cpa1, prss1, cel) are involved with digestion and nutrient absorption. This study provided valuable data on the effects of anthropogenic contaminants present in the Richelieu River and increased our knowledge on the individual and mixture effects they have on an endangered fish.
2022-06-01 | GSE185175 | GEO
Project description:Moxostoma hubbsi (copper redhorse) genomic and transcriptomic data
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Project description:Moxostoma hubbsi (copper redhorse) genome assembly, fMoxHub1, alternate haplotype
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Project description:Moxostoma hubbsi (copper redhorse) genome assembly, fMoxHub1, principal haplotype
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Project description:The transcription factor Mac1 is a key regulator of copper homeostasis and controls the transcriptional response to copper-limiting conditions in fungi. Expression analyses performed in the soil-borne plant pathogen Fusarium oxysporum revealed that almost all copper starvation-induced genes are downregulated in the absence of the regulator Mac1. The aim of this ChIP-seq analysis is to elucidate which of these genes are direct targets of Mac1.
2024-11-07 | GSE244102 | GEO
Project description:In our previous study, by microarray detection, we illuminated the gene expression profiling in copper-exposed embryos. We found that genes of hematopoiesis, hemoglobin genes exhibited significant increase in copper-exposed embryos. In addition, copper-exposed embryos presented relatively high levels of reactive oxygen species (ROS), while the oxygen binding and oxygen transporter activities were also up-regulated in the embryos. Moreover, the scavengers NAC, GSH, and DMTU not only inhibited in vivo ROS levels induced by copper, but also significantly rescued expression of hemoglobin genes back to almost normal levels, and also helped with copper excretion from the copper-exposed embryos. Our data first demonstrated that ROS mediated copper induced increased expression of hemoglobin genes in vertebrates, and copper excretion was blocked by its induced ROS.
2015-12-21 | GSE76107 | GEO