Effects of β-diketone antibiotic mixtures on behavior of zebrafish (Danio rerio)

Wang, Xuedong; Zheng, Yuansi; Zhang, Yuna; Li, Jieyi; Zhang, Hongqin; Wang, Huili

doi:10.1016/j.chemosphere.2015.10.120

Cited by 43 publications

(23 citation statements)

References 43 publications

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“…Differentially expressed (DE) analysis of the RNAseq datasets have been conducted to identify lncRNAs significantly in response to stress. For example, non-coding transcriptional response induced by pathogens has been characterized in infected salmons [ 8 , 72 ] and in zebrafish under b-diketone antibiotic exposure [ 73 ].…”

Section: Discussionmentioning

confidence: 99%

Genome-wide identification and differentially expression analysis of lncRNAs in tilapia

Jiang

Meng

et al. 2018

BMC Genomics

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BackgroundLong noncoding RNAs (LncRNAs) play important roles in fundamental biological processes. However, knowledge about the genome-wide distribution and stress-related expression of lncRNAs in tilapia is still limited.ResultsGenome-wide identification of lncRNAs in the tilapia genome was carried out in this study using bioinformatics tools. 103 RNAseq datasets that generated in our laboratory or collected from NCBI database were analyzed. In total, 72,276 high-confidence lncRNAs were identified. The averaged positive correlation coefficient (r_mean = 0.286) between overlapped lncRNA and mRNA pairs showed significant differences with the values for all lncRNA-mRNA pairs (r_mean = 0.176, z statistics = − 2.45, p value = 0.00071) and mRNA-mRNA pairs (r_mean = 0.186, z statistics = − 2.23, p value = 0.0129). Weighted correlation network analysis of the lncRNA and mRNA datasets from 12 tissues identified 21 modules and many interesting mRNA genes that clustered with lncRNAs. Overrepresentation test indicated that these mRNAs enriched in many biological processes, such as meiosis (p = 0.00164), DNA replication (p = 0.00246), metabolic process (p = 0.000838) and in molecular function, e.g., helicase activity (p = 0.000102) and catalytic activity (p = 0.0000612). Differential expression (DE) analysis identified 99 stress-related lncRNA genes and 1955 tissue-specific DE lncRNA genes. MiRNA-lncRNA interaction analysis detected 72,267 lncRNAs containing motifs with sequence complementary to 458 miRNAs.ConclusionsThis study provides an invaluable resource for further studies on molecular bases of lncRNAs in tilapia genomes. Further function analysis of the lncRNAs will help to elucidate their roles in regulating stress-related adaptation in tilapia.Electronic supplementary materialThe online version of this article (10.1186/s12864-018-5115-x) contains supplementary material, which is available to authorized users.

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Section: Discussionmentioning

confidence: 99%

Genome-wide identification and differentially expression analysis of lncRNAs in tilapia

Jiang

Meng

et al. 2018

BMC Genomics

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“…We obtained differentially expressed genes, compared the transcription differences between control and treatment samples, and determined specific gene markers for correlation with drug-induced diseases. From these data, the molecular mechanisms for chronic toxicity effects and the ecological risk to DKA exposure were assessed (Wang et al, 2016a(Wang et al, , 2016b. This study is related to acute toxicity testing of DKAs, which allows us an experimental approach to directly observe the toxicological effects resulting from DKA exposure to zebrafish.…”

Section: Discussionmentioning

confidence: 99%

Joint toxicity of fluoroquinolone and tetracycline antibiotics to zebrafish (<i>Danio rerio</i>) based on biochemical biomarkers and histopathological observation

et al. 2017

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-Herein, we report on the joint toxicity of four fluoroquinolones and two tetracyclines (β-diketone antibiotics-DKAs) to zebrafish based on a series of toxicological endpoints and histopathological observations. A positive dose-dependence was observed in DKA-exposure groups with a 72-hpf EC 50 of 130.3 mg/L for hatching rate, 120-hpf LC 50 of 149.8 mg/L, and 120-hpf EC 50 of 135.1 mg/L for malformation rate. When zebrafish at 60 dpf were exposed to a series of DKA concentrations (45, 60 and 90 mg/L) for 7, 14 and 21 days, creatine kinase and AChE activities were significantly induced, and intracellular malondialdehyde increased in all treatments except for the 45 mg/L treatment. The transcription levels of AHRRa from livers were significantly (p < 0.05) up-regulated in all treatments after two months of DKA exposure. CKma expression from skeletal muscle was significantly down-regulated in the 90 mg/L treatment. A remarkable down-regulation of CYP3A65 was observed in the 60 mg/L treatment. DKA exposure resulted in severe tissue damage including mitochondria swelling, reduction of mitochondrial cristae, deepening of mitochondrial cristae bands, and decreasing and even disappearance of the rough endoplasmic reticulum. Total sperm motility was decreased by ca. 30% due to DKA exposure. These results provide important information for toxicity and health risks due to mixed DKA exposure in aquatic environments.

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“…However, previous studies on lncRNAs in zebrafish are less extensive than in mammals. In zebrafish, previous reports mainly focused on protein-coding sequence changes in immune, nervous developmental processes under DKA exposure (Wang et al, 2016;Yin et al, 2014), but they did not assess changes of related genes from the perspective of lncRNA regulation. Ultimately, the expression changes of genes result from no-coding RNAs and transcriptional regulation.…”

Section: Discussionmentioning

confidence: 99%

Screening and functional identification of lncRNAs under β-diketone antibiotic exposure to zebrafish ( Danio rerio ) using high-throughput sequencing

Wang

Lin

et al. 2017

Aquatic Toxicology

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Long non-coding RNAs (lncRNAs) have attracted considerable research interest, but so far no data are available on the roles of lncRNAs and their target genes under chronic β-diketone antibiotic (DKAs) exposure to zebrafish (Danio rerio). Herein, we identified 1.66, 3.07 and 3.36×10 unique lncRNAs from the 0, 6.25 and 12.5mg/L DKA treatment groups, respectively. In comparison with the control group, the 6.25 and 12.5mg/L treatments led to up-regulation of 2064 and 2479 lncRNAs, and down-regulation of 778 and 954 lncRNAs, respectively. Of these, 44 and 39 lncRNAs in the respective 6.25 and 12.5mg/L treatments displayed significant differential expression. Volcano and Venn diagrams of the differentially expressed lncRNAs were constructed on the basis of the differentially expressed lncRNAs. After analyzing 10 lncRNAs and potential target genes, a complex interaction network was constructed between them. The consistency of 7 target genes (tenm3, smarcc1b, myo9ab, ubr4, hoxb3a, mycbp2 and CR388046.3), co-regulated by 3 lncRNAs (TCONS_00129029, TCONS_00027240 and TCONS_00017790), was observed between their qRT-PCR and transcriptomic sequencing. By in situ hybridization (ISH), abnormal expression of 3 lncRNAs was observed in hepatic and spleen tissues, suggesting that they might be target organs for DKAs. A similar abnormal expression of two immune-related target genes (plk3 and syt10), co-regulated by the 3 identified lncRNAs, was observed in liver and spleen by ISH. Histopathological observations demonstrated hepatic parenchyma vacuolar degeneration and clot formation in hepatic tissues, and uneven distribution of brown metachromatic granules and larger nucleus in spleen tissues resulting from DKA exposure. Overall, DKA exposure led to abnormal expression of some lncRNAs and their potential target genes, and these genes might play a role in immune functions of zebrafish.

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Effects of β-diketone antibiotic mixtures on behavior of zebrafish (Danio rerio)

Cited by 43 publications

References 43 publications

Genome-wide identification and differentially expression analysis of lncRNAs in tilapia

Genome-wide identification and differentially expression analysis of lncRNAs in tilapia

Joint toxicity of fluoroquinolone and tetracycline antibiotics to zebrafish (<i>Danio rerio</i>) based on biochemical biomarkers and histopathological observation

Screening and functional identification of lncRNAs under β-diketone antibiotic exposure to zebrafish ( Danio rerio ) using high-throughput sequencing

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