Transcriptome and physiological effects of toxaphene on the liver-gonad reproductive axis in male and female largemouth bass (Micropterus salmoides)
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PROVIDER: PRJNA596811 | ENA |
REPOSITORIES: ENA
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Project description:In the present study, we used NGST to characterize mRNA-seq of control-, moderate hypoxia-treated and severe hypoxia-treated Micropterus salmoides livers to elucidate the molecular mechanisms of hypoxia adaptation. This is the first report on integrated analysis of the tissue specific and temporal changes in gene expression in largemouth bass (Micropterus salmoides) exposed to hypoxia could reveal mechanisms of hypoxia adaptation. We provide a good case study with which to analyse mRNA expression and profile non-model fish species using NGST.
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Project description:Intensive aquaculture and environmental changes will inevitably lead to hypoxic stress for largemouth bass (Micropterus salmoides). To better understand the hypoxia responds mechanisms of largemouth bass, we compared the miRNA profile in liver under different environmental DO to determine which miRNAs are most affected during hypoxia. A total of 266 miRNAs were identified, and 84 miRNAs were differentially expressed compared with in control group. GO and KEGG analysis indicated that the miRNAs may play important roles in environment information processing. Specifically, we considered the VEGF signaling pathway, Phosphatidylinositol signaling system and MAPK signaling pathway, the results show that, the 13 miRNAs (miR-15b-5p, miR-30a-3p, miR-133a-3p, miR-19d-5p, miR-1288-3p, miR456, miR-96-5p, miR-23a-3p, miR-23b, miR-214, miR-24, miR-20a-3p and miR-2188-5p) involved in these three pathways are significantly down-regulated during hypoxia stress. And 12 target genes of these miRNAs were showed a higher degree of expression. We found the obvious negative correlation between miRNA and their target mRNAs, providing several miRNA-mRNA interaction networks in largemouth bass in response to hypoxia. Although relatively little information is currently available concerning the biological function of miRNAs identified to date, we strongly suggest that miRNAs play an important role in modulating gene expression involved in the physiological response to hypoxic stress in the fish liver.
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Project description:We sequenced mRNA from 9 liver samples of juvenile largemouth bass (Micropterus salmoides) taken from different lead concentration exposure treatment fish and control fish to investigate the transcriptome and comparative expression profiles of largemouth bass liver undergoing lead exposure.
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Project description:A novel custom microarray for largemouth bass (Micropterus salmoides) was designed from sequences obtained from a normalized cDNA library using the 454 Life Sciences GS-20 pyrosequencer. The GS-20 yielded in excess of 58 million bases of high-quality sequence. The sequence information was combined with 2,616 reads obtained by traditional suppressive subtractive hybridizations to derive a total of 31,391 unique sequences. Annotation and coding sequences were predicted for these transcripts where possible. 16,350 annotated transcripts were selected as target sequences for the design of the custom largemouth bass oligonucleotide microarray. The microarray was validated by examining the transcriptomic response in male largemouth bass exposed to 17 -oestradiol. Transcriptomic responses were assessed in liver and gonad, and indicated gene expression profiles typical of exposure to oestradiol. The results demonstrate the potential to rapidly create the tools necessary to assess large scale transcriptional responses in non-model species, paving the way for expanded impact of toxicogenomics in ecotoxicology. Keywords: E2 exposure, array validation This experiment tested two organs - liver and gonad from either E2-exposed or control fish, 4 fish (biological replicates) per treament (control and E2).
2010-05-25 | E-GEOD-10693 | biostudies-arrayexpress
Project description:A novel custom microarray for largemouth bass (Micropterus salmoides) was designed from sequences obtained from a normalized cDNA library using the 454 Life Sciences GS-20 pyrosequencer. The GS-20 yielded in excess of 58 million bases of high-quality sequence. The sequence information was combined with 2,616 reads obtained by traditional suppressive subtractive hybridizations to derive a total of 31,391 unique sequences. Annotation and coding sequences were predicted for these transcripts where possible. 16,350 annotated transcripts were selected as target sequences for the design of the custom largemouth bass oligonucleotide microarray. The microarray was validated by examining the transcriptomic response in male largemouth bass exposed to 17 -oestradiol. Transcriptomic responses were assessed in liver and gonad, and indicated gene expression profiles typical of exposure to oestradiol. The results demonstrate the potential to rapidly create the tools necessary to assess large scale transcriptional responses in non-model species, paving the way for expanded impact of toxicogenomics in ecotoxicology. Keywords: E2 exposure, array validation
2008-08-01 | GSE10693 | GEO
Project description:Largemouth Bass (Micropterus salmoides) Transcriptome
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Project description:Long noncoding RNAs (lncRNAs) are non-protein coding RNAs with a length of more than 200 bp, which play a vital regulatory role in intestinal immunity. Exposure to high temperature leads to death in many fish species, which is implicated in fish enteritis. Our study showed that fish enteritis was induced by acute heat stress. To date, which lncRNAs are participated in this process is still unclear. In the present study, based on the intestinal sequencing data of largemouth bass Micropterus salmoides, a total of 347,351,492 clean reads were generated from six cDNA libraries. Among them, 3399 novel lncRNA transcripts from 2488 lncRNA genes were identified. As expected, these lncRNAs exhibited shorter transcript lengths than protein-coding genes similar to those lncRNAs reported from other fish species. In total, 216 novel lncRNAs were differentially expressed (DE) in largemouth bass intestine (absolute log2 fold change > 2 and p-value < 0.05) and that 210 neighboring genes were cis-regulated by these DE-lncRNAs. An analysis of GO/KEGG enrichment showed that most of these cis-genes seemed to be significantly enriched in immune regulation (p < 0.05) and lncRNA MSTRG.8573 had an important role in regulating jak-stat signaling pathway during this process. Through this study, we showed a catalog of novel DE-lncRNAs involved in the occurrence of enteritis in largemouth bass under acute heat stress, which could provide some useful references by regulating lncRNAs to solve the heat stress-induced fish enteritis for further studies.
2024-07-01 | GSE236409 | GEO
Project description:In this study, both male and female sexually regressed largemouth bass (Micropterus salmoides) (LMB) were fed a nominal concentration of 3.0 mg dieldrin/kg in feed for 60 days. A third group of male LMB was fed both 3.0 mg dieldrin/kg dieldrin and 0.7 mg E2/kg in feed. E2 was used as a model compound to elicit estrogenic effects via ER signaling.
2011-04-17 | GSE27963 | GEO
Project description:Toxaphene (TOX) is an organochlorine pesticide (OCPs) that remains abundant in the environment due to its heavy use in agriculture, its persistence, and its atmospheric transport. In Florida, the north shore of Lake Apopka was heavily used for agriculture decades ago, and TOX remains present in the soil. Wild largemouth bass inhabit the lake, and are potentially exposed to a variety of OCPs. While other OCPs (dieldrin, methoxychlor, p,p’DDE) have been studied for their endocrine disrupting effects in largemouth bass, there are little data available for TOX. Here we performed a 2-month feeding study of male and female largemouth bass with TOX-laced food to mimic the levels found in fish at Lake Apopka. Subsamples of the gonad and liver were collected and preserved in 10% buffered formalin for histopathology and reproductive staging. Plasma levels of vitellogenin (Vtg) testosterone (T) and 17β-estradiol (E2) were quantified and snippets of testis and ovaries were placed into culture to determine ex vivo production of hormones. Lastly, transcriptomics was conducted in both the male testis and liver, as most studies investigating OCPs have analyzed female ovary/liver and data are scarce for OCPs and male bass. Female GSI did not change with TOX but was trending towards a decrease while male GSI did not change with exposure. Female vitellogenin decreased with toxaphene by ~40% but male vitellogenin was not induced. Female and male E2 and T were not different following dietary exposure compared to control bass and this corresponded to ex vivo culture experiments, which revealed no change in E2 and T production from the gonads. Taken together, TOX did not alter the production of E2 and T directly in the gonad tissue. In the testis, transcriptomics revealed that androgen receptor/beta-2-microglobulin signaling was up-regulated while insulin-related pathways were suppressed with TOX. In the liver, the transcriptome analysis revealed an overwhelming suppression in immune-related signaling cascades (e.g. lectin-like receptor and ITSM-Containing Receptor signaling, CD16/CD14 Proinflammatory Monocyte Activation, and CD38/CD3 -> JUN/FOS/NF-kB Signaling in T-cell Proliferation). Ninety percent of the pathways were reduced between 10 to 40% in median network expression. Reduced immune pathways are consistent with other studies investigating OCPs in fish. In the current study, TOX, at the concentrations tested in the diet, did not act as a weak estrogen as many other OCPs do, but rather appeared to be acting as an antiestrogen (or androgen) based upon reduced female Vtg and activation of androgen-receptor mediated pathways in the testis. These data contribute to a comprehensive transcriptomic-physiological framework for TOX and suggests that endocrine disruption may not be the result of direct effects on steroidogenesis in the gonad, but may rather occur at higher levels of the reproductive axis.
2019-12-20 | GSE142396 | GEO
Project description:Toxaphene (TOX) is an organochlorine pesticide (OCPs) that remains abundant in the environment due to its heavy use in agriculture, its persistence, and its atmospheric transport. In Florida, the north shore of Lake Apopka was heavily used for agriculture decades ago, and TOX remains present in the soil. Wild largemouth bass inhabit the lake, and are potentially exposed to a variety of OCPs. While other OCPs (dieldrin, methoxychlor, p,p’DDE) have been studied for their endocrine disrupting effects in largemouth bass, there are little data available for TOX. Here we performed a 2-month feeding study of male and female largemouth bass with TOX-laced food to mimic the levels found in fish at Lake Apopka. Subsamples of the gonad and liver were collected and preserved in 10% buffered formalin for histopathology and reproductive staging. Plasma levels of vitellogenin (Vtg) testosterone (T) and 17β-estradiol (E2) were quantified and snippets of testis and ovaries were placed into culture to determine ex vivo production of hormones. Lastly, transcriptomics was conducted in both the male testis and liver, as most studies investigating OCPs have analyzed female ovary/liver and data are scarce for OCPs and male bass. Female GSI did not change with TOX but was trending towards a decrease while male GSI did not change with exposure. Female vitellogenin decreased with toxaphene by ~40% but male vitellogenin was not induced. Female and male E2 and T were not different following dietary exposure compared to control bass and this corresponded to ex vivo culture experiments, which revealed no change in E2 and T production from the gonads. Taken together, TOX did not alter the production of E2 and T directly in the gonad tissue. In the testis, transcriptomics revealed that androgen receptor/beta-2-microglobulin signaling was up-regulated while insulin-related pathways were suppressed with TOX. In the liver, the transcriptome analysis revealed an overwhelming suppression in immune-related signaling cascades (e.g. lectin-like receptor and ITSM-Containing Receptor signaling, CD16/CD14 Proinflammatory Monocyte Activation, and CD38/CD3 -> JUN/FOS/NF-kB Signaling in T-cell Proliferation). Ninety percent of the pathways were reduced between 10 to 40% in median network expression. Reduced immune pathways are consistent with other studies investigating OCPs in fish. In the current study, TOX, at the concentrations tested in the diet, did not act as a weak estrogen as many other OCPs do, but rather appeared to be acting as an antiestrogen (or androgen) based upon reduced female Vtg and activation of androgen-receptor mediated pathways in the testis. These data contribute to a comprehensive transcriptomic-physiological framework for TOX and suggests that endocrine disruption may not be the result of direct effects on steroidogenesis in the gonad, but may rather occur at higher levels of the reproductive axis.
2019-12-20 | GSE142395 | GEO