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| Status |
Public on Jul 06, 2018 |
| Title |
RNA-Sequencing identifies differentially expressed genes in adult male tilapia following low Benzo (a) Pyrene (BaP) exposure |
| Organism |
Oreochromis niloticus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Purpose: The objective of this study was to identifiy if a low dose of BaP would alter gene expression profiles and key pathways in the liver and testis of adult male tilapia
Methods: The liver and testis tissue from the BaP-treated or control groups fish were collected and then total RNA was extracted, RNA integrity (RIN) was evaluated (RIN >7) for Illumina RNA-Seq library construction and Sequencing. Gene read mapping was performed with TopHat and differential expression analysis (DE) was conducted using exact test with R package EdgeR (p < 0.05; fold change > ± 1.5 were considered as significant). Pathway analysis was performed using the gene set enrichment analysis (GSEA) and subnetwork enrichment analysis (SNEA) applying the Mann-Whitney test with an alpha level of p < 0.05 to identify the biological mechanism that underlie the BaP effects in male tilapia.
Results: RNA-Seq analysis using EdgeR showed a larger number of altered genes in liver than in testis as a result of BaP exposure. In liver, 1444 genes were significantly differentially expressed, while in the testis only 309 showed any changes using a p < 0.05 and fold change > ± 1.5
Conclusions: Low dose of BaP can alter genes and molecular pathways in the liver and testis in male adult tilapia, and these changes could be associated with biological endpoints disruption.
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| Overall design |
Illumina NextSeq500 Sequencing was used to generate transcriptomic profiles for BaP-exposure liver (n=4 or control, n=4 for BaP) and testis (n=3 for control, n=3 for BaP) from adult male tilapia
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| Contributor(s) |
Colli-Dula RC, Moreno D, Fang X |
| Citation(s) |
30258954 |
| |
| Submission date |
Jul 05, 2018 |
| Last update date |
Jan 08, 2020 |
| Contact name |
Reyna Cristina Colli-Dula |
| E-mail(s) |
rcolli.dula@cinvestav.mx
|
| Organization name |
CINVESTAV
|
| Department |
Recursos del Mar
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| Lab |
Biotecnología
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| Street address |
Km. 6 Ant Carretera a Progreso
|
| City |
Mérida |
| State/province |
Yucatán |
| ZIP/Postal code |
97310 |
| Country |
Mexico |
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| Platforms (1) |
| GPL25292 |
Illumina NextSeq 500 (Oreochromis niloticus) |
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| Samples (14)
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| Relations |
| BioProject |
PRJNA479868 |
| SRA |
SRP152337 |
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