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SRX11949288: GSM5542888: MA6-Ma45-LU4: Pooled Male FHM Medium Liver RepA; Pimephales promelas; RNA-Seq
1 ILLUMINA (Illumina NovaSeq 6000) run: 25.6M spots, 5.2G bases, 1.5Gb downloads

Submitted by: NCBI (GEO)
Study: CHARACTERIZING TOXICITY PATHWAYS OF FLUOXETINE TO PREDICT ADVERSE OUTCOMES IN ADULT PIMEPHALES PROMELAS
show Abstracthide Abstract
Fluoxetine (FLX) is the most common selective serotonin reuptake inhibitor pharmaceutical used for the treatment of psychological disorders such as depression and anxiety. Increased prescription use of FLX by human populations has led to its pseudo-persistence in effluent-receiving waterways. Despite emerging concerns of FLX becoming a potential threat to the aquatic environment, there is currently limited information on effects of FLX on aquatic wildlife, including its specific mechanism of action and associated toxicity pathways in fish. The main goal of this study was to identify and validate key molecular toxicity pathways that are predictive of apical endpoints induced by exposure to FLX using the fathead minnow (Pimephales promelas), a model species common to North American freshwater systems. Adult fathead minnows were exposed to three concentrations of FLX (2.42, 10.7, and 56.7 µg/L) and a control for 21 days. After 96 hours, a subset of fish was sampled, and liver and brain tissue were collected to characterize molecular toxicity pathways using whole transcriptome and proteome analyses. In addition, at the end of the 21-day exposure, individuals were assessed for apical outcomes of regulatory relevance including histopathology and fecundity. Differential gene expression observed in the liver of fish exposed to the highest FLX treatment and revealed dysregulation of pathways associated with biosynthesis and metabolism of fatty acids, which may be an upstream molecular response that led to lipid-type vacuolation of hepatocytes, as observed in the histology analysis. Whole proteome analysis of the same fish revealed dysregulation of PPAR signalling, which may be associated with the enrichment of lipid-related pathways observed in the transcriptome. In addition, there was an indication of pathway enrichment of transcription- and translation-related pathways in the proteome. Common dysregulated genes in the brain of the treated fish were related to cellular signalling processes that are influenced by serotonin levels and shown to be involved in reproductive behaviour and, in turn, reproductive success. This was confirmed through a significant decrease in fecundity following the 21-day exposure. Pathways to measurable adverse outcomes are complex, however, this research does provide some important clues to the mechanistic toxicity that FLX inflicts. Overall design: Fathead minnows (Pimephales promelas) were exposed to fluoxetine for 96h. Samples taken for transcriptomic analyses: Liver Samples: Negative Water Control (n=5, 2 individuals pooled per sample); 10.7µg FLX/L (n=5, 2 individuals pooled per sample); 56.7µg FLX/L (n=5, 2 individuals pooled per sample); Brain Samples: Negative Water Control (n=5, 2 individuals pooled per sample); 10.7µg FLX/L (n=5, 2 individuals pooled per sample); 56.7µg FLX/L (n=5, 2 individuals pooled per sample)
Sample: MA6-Ma45-LU4: Pooled Male FHM Medium Liver RepA
SAMN21019953 • SRS9959640 • All experiments • All runs
Library:
Instrument: Illumina NovaSeq 6000
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: cDNA
Layout: PAIRED
Construction protocol: Total RNA was extracted from tissue samples of individual fish using the RNeasy Plus Universal Mini Kit (Qiagen, Hilden, Germany) in a QiaCube instrument (Qiagen). Pooled samples with an RNA Integrity Number (RIN) ≥ 9 were used for mRNA sequencing Steps for generating libraries from total RNA included the following: mRNA enrichment was performed using the NEBNext Poly(A) Magnetic Isolation Module (New England BioLabs, Ipswich, MA, USA); cDNA synthesis was done using NEBNext RNA First Strand Synthesis and NEBNext Ultra Directional RNA Second Strand Synthesis Modules (New England BioLabs). Subsequent steps of library preparation were done using the NEBNext Ultra II DNA Library Prep Kit for Illumina (New England BioLabs). Adapters and PCR primers were purchased from New England BioLabs. Libraries were quantified using the Kapa Illumina GA with Revised Primers-SYBR Fast Universal kit (Kapa Biosystems, Wilmington, MA, USA). Determination of average fragment size was done with a LabChip GX (PerkinElmer, Waltham, MA, USA) instrument. Once libraries were normalized and pooled, they denatured in 0.02N NaOH and neutralized using HT1 buffer. The pool was loaded at 225pM on an Illumina NovaSeq (Illumina, San Diego, CA, USA) S4 lane using Xp protocol. The run was performed for 2x100 cycles (paired-end mode). A phiX library was used as a control and mixed with libraries at 1% level. Base calling was performed with RTA v3.4.4. Program bcl2fastq2 v2.20 was applied to demultiplex samples and generate fastq reads.
Experiment attributes:
GEO Accession: GSM5542888
Links:
Runs: 1 run, 25.6M spots, 5.2G bases, 1.5Gb
Run# of Spots# of BasesSizePublished
SRR1565221425,634,5065.2G1.5Gb2022-03-03

ID:
15867418

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