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ABSTRACT: Tag-based RNA sequencing of red drum larvae

PROVIDER: PRJNA759646 | ENA |

REPOSITORIES: ENA

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Dataset's files

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			Action	DRS
	SRR15693600.fastq.gz	Fastqsanger.gz
	SRR15693601.fastq.gz	Fastqsanger.gz
	SRR15693602.fastq.gz	Fastqsanger.gz
	SRR15693603.fastq.gz	Fastqsanger.gz
	SRR15693604.fastq.gz	Fastqsanger.gz

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Project description:Purpose:To help identify molecular regulatory mechanisms of developmental toxicity for fish exposed to Deepwater Horizon (DWH) oil, microRNA profiles in red drum larvae exposed to different DWH oils (source/mass and artificially weathered oil) were evaluated using High Throughput Sequencing (HTS). Methods:Total microRNA profiles of 48 hpf red drum larvae after source oil (0.135%, 0.27%, and 0.54%) and slick oil (1.25%, 2.5% and 5%) exposure were generated by deep sequencing, in triplicate, using Illumina NextSeq 500. Results: Source and slick oil significantly dysregulated the expression of miR-18a, miR-27b, and miR-203a across all exposure concentrations. The target genes of these miRNAs were predominantly involved in the neuro-cardio system development processes and associated key signaling pathways such as axonal guidance signaling, CREB signaling in neurons, synaptic long-term potentiation pathway, calcium signaling and role of NFAT in cardiac hypertrophy.

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Project description:Purpose:To investigate the transcriptomic profiles in red drum embryos reflective of the DWH oil toxicity at different critical windows of development and to predict the most impacted biological processes and pathways based on differentially expressed gene transcripts at different developmental stages using High Throughput Sequencing (HTS). Methods:Total mRNA profiles of 24, 48, 72 hpf red drum larvae after slick and source oil exposure were generated by deep sequencing, in triplicate, using Illumina HiSeq2500. Results:Oil type-dependent transcriptional effects were observed, with more significant by source oil exposure at 24 and 48 h, and similar responses by source and slick at 72 hpf. Informatic analyses indicated source oil exposure started significant perturbation in metabolism, AhR, visual, and cardiac-associated genes as early as 24 hpf. Both source and slick oil significantly affected EIF2 pathway, nervous and cardiovascular systems from 48 hpf to 72 hpf.

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Project description:Purpose:To help identify molecular mechanisms and pathways potentially involved in the developmental toxicity for estuary fish exposed to different concentrations of Deepwater Horizon (DWH) oil, transcriptomic profiles in red drum (Sciaenops ocellatus) embryos exposed to different DWH oils (source/mass and artificially weathered oil) were evaluated using High Throughput Sequencing (HTS). Methods:Total mRNA profiles of 48 hpf red drum larvae after slick (1.25%, 2.5%, and 5%) and source/mass oil (0.135%, 0.27% and 0.54%) exposure were generated by deep sequencing, in triplicate, using Illumina NextSEQ v2. Results:To determine the potential biological impact of oil exposure at system level, a gene ontology (GO) term analysis on biological processes (BPs) was conducted by analyzing the DEGs using DAVID. After exposure to source oil, the top enriched biological processes were terms associated with oxidation-reduction process, metabolic process (e.g. steroid), and organism development. Similar biological processes were also among the most significant biological processes by slick oil exposure. Among the top biological process list a significant number of nervous system related terms were highly enriched by both source and slick oil exposure, including midbrain development, motor neuron axon guidance, nervous system development, eye development, neuron development, neuron differentiation etc.

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Project description:MicroRNA profiles in red drum (Sciaenops ocellatus) larvae exposed to Deepwater Horizon oil

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Project description:Dose-responsive transcriptomic profiles in red drum (Sciaenops ocellatus) larvae exposed to Deepwater Horizon oil