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Differential expression and correlation analysis of mRNA and miRNA based on Brain transcriptome in the discus fish (Symphysodon aequifasciatus)

ABSTRACT: The discus fish (Symphysodon aequifasciatus) is an ornamental fish, which occupies important position on the freshwater aquarium trade. We built two cDNA libraries from an adult male brain and an adult female brain, and performed RNA-sequencing for identifying sex-biased candidate genes , a total number of 40209 non-redundant genes (unigenes) were obtained, of which 250 unigenes were significant overexpressed in the male brain, and 436 unigenes were significant overexpressed in the female. A total of 439 miRNAs were identified, of which 60 miRNAs were differentially expressed between male brain and female brain. These results can provide important evidence for better understanding the molecular mechanisms of the brain's amphoteric dimorphism in discus fish

ORGANISM(S): Symphysodon aequifasciata

PROVIDER: GSE140349 | GEO | 2022/11/13

REPOSITORIES: GEO

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Project description:The fathead minnow (Pimephales promelas) is a small fish species widely used for ecotoxicology research and regulatory testing in North America. This study used a 2000 gene oligonucleotide microarray to evaluate the effects of the aromatase inhibitor, fadrozole, on gene expression in the liver and brain tissue of exposed females. Reproductive measures, plasma vitellogenin, and gene expression data for the brain isoform of aromatase (CYP19B), vitellogenin precursors, and transferrin all provided evidence supporting the efficacy of the fadrozole exposure. Unsupervised analysis of the microarray results identified 20 genes in brain and 41 in liver as significantly up-regulated and 7 genes in brain and around 45 in liver as significantly down-regulated. Differentially expressed genes were associated with a broad spectrum of biological functions, many with no obvious relationship to aromatase inhibition. However, in brain, fadrozole exposure elicited significant up-regulation of several genes involved in the cholesterol synthesis, suggesting it as one potentially impacted pathway. Gene ontology-based analysis of expression changes in liver suggested overall down-regulation of protein biosynthesis. While real-time PCR analyses supported some of the microarray responses, others could not be verified. Overall, results of this study provide a foundation for developing novel hypotheses regarding the system-wide effects of fadrozole, and other chemical stressors with similar modes of action, on fish biology. Keywords: chemical stress response --Fadrozole exposure-- Treatments: 0, 60 ug fadrozole/L Replication: 4 replicate tanks per treatment, 2 replicate pairs (1 male, one female per pair) per tank for a total of 8 male, 8 female per treatment. Route of exposure: Waterborne, continuous flow through, without the use of carrier solvents, flow rate approx. 45 ml/min. Tanks: 20 L tanks containing 10 L of exposure water Fadrozole (purity â¥ 99%; Dr. H. Cooper Eckhardt, Summit, NJ, USA). Fish: Adult (ca. 6 month old) male (4.65Â±0.93 g) and female (1.90Â±0.44 g) Conditions: (25Â°C, 16:8 light:dark photoperiod, fed adult brine shrimp twice daily) Duration: 7 d (Â± 4 h) Sampling: Fish humanely euthanized in tricaine methanesulfonate (Finquel; Argent, Redmond, WA, USA). Liver, and brain samples transferred directly to pre-weighed vials of RNAlaterÂ® (Sigma, St. Louis, MO). Plasma samples were stored frozen at -80Â°C. Average water quality characteristics (Â±SD): temperature 25.5Â±0.1 Â°C; pH 7.21Â±0.04; dissolved oxygen 5.74Â±0.52 mg/L. --Microarray analysis-- n=3 microarrays per treatment and tissue Experimental samples: total RNA pooled from n=2 fish from the same treatment and replicate (except for pooled sample BC3 which included fish from two different replicate tanks). Reference sample: pooled liver, brain, and gonad samples from adult male and female fathead minnows Microarray design: Two color, reference design Hybridization: Experimental samples Cy5, reference sample Cy3

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Differential expression and correlation analysis of mRNA and miRNA based on Brain transcriptome in the discus fish (Symphysodon aequifasciatus)

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