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Phenological transcriptomic profile of double-crested cormorants during embryonic development

ABSTRACT: Phenological transcriptomic profile of double-crested cormorants during embryonic development

PROVIDER: PRJNA841873 | ENA |

REPOSITORIES: ENA

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Phenological transcriptomic profile of double-crested cormorants during embryonic development

Project description:In this study, we tracked the phenology of the transcriptome during double-crested cormorant (Nannopterum auritum) embryogenesis. Fresh eggs were collected from a reference site and artificially incubated from collection until four days prior to hatching. Embryos were periodically sampled throughout incubation for a total of seven time points. A custom microarray was designed for cormorants (over 14,000 probes) and used for transcriptome analysis in whole body (days 5, 8) and liver tissue (days 12, 14, 16, 20, 24). Three main development periods (early, mid, and late incubation) were identified with differentially expressed genes, gene sets, and pathways within and between each developmental transition.

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Hepatic Transcriptomic Responses to Ethinylestradiol in Embryonic Japanese Quail and Double-crested Cormorant

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Hepatic Transcriptomic Responses to Ethinylestradiol in Embryonic Japanese Quail and Double-crested Cormorant

Project description:Species difference in susceptibility to toxicants is a critical issue in ecotoxicology. Transcriptomics is being proposed as a strategy to improve toxicity testing for regulatory risk assessment; however, different responses among species have not been extensively explored using this approach. In the present study, we identified dysregulated genes and pathways in Japanese quail (JQ) and double-crested cormorant (DCCO) embryos following exposure to ethinylestradiol (EE2). The objectives were to evaluate unique and overlapping transcriptomic responses to estrogenic exposure in the two species, and to determine whether these responses correspond to previously reported sensitivity difference at the organismal level. Exposures were conducted according to an avian egg injection protocol that we have proposed for standardization. EE2 was dissolved in dimethyl sulfoxide and injected into the air cell of eggs prior to incubation at nominal concentrations of 0, 3.33, and 33.3 µg/g egg weight. After 9-days (JQ) or 16-days (DCCO) of incubation (representing mid-incubation stage), liver tissues were collected from 5 embryos per treatment group for RNA-sequencing. Data were processed and analyzed using EcoOmicsAnalyst (www.ecoomicsanalyst.ca) and ExpressAnalyst (www.expressanalyst.ca). Following exposure to EE2, JQ and DCCO had 238 and 1987 differentially expressed genes, respectively, having 78 of them in common. The results of this study will contribute to a better understanding of the estrogenic effects of contaminants in birds, the expansion of taxonomic coverage in chemical risk assessment from model to non-model species, and the evaluation of transcriptomics and early-life stage tests as alternative toxicity testing methods. This study was conducted as a part of a large-scale Genome Canada-funded project, EcoToxChip project (www.ecotoxchip.ca).

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Using transcriptomics and metabolomics to understand species differences in sensitivity to chlorpyrifos in Japanese quail and double-crested cormorant embryos

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