1. Whole-transcriptome sequencing (RNA-seq) analyses of the zebrafish liver cell line, ZFL, after acute exposure to Cu2+ ions
- Author
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Xue Lei Hu, Qi Meng, King Ming Chan, and Man Long Kwok
- Subjects
0301 basic medicine ,biology ,Chemistry ,Liver cell ,Metals and Alloys ,Biophysics ,Nitrogen compound metabolic process ,RNA-Seq ,010501 environmental sciences ,biology.organism_classification ,01 natural sciences ,Biochemistry ,Cell biology ,Biomaterials ,Transcriptome ,03 medical and health sciences ,030104 developmental biology ,Chemistry (miscellaneous) ,Calcium ion homeostasis ,Gene expression ,Zebrafish ,Gene ,0105 earth and related environmental sciences - Abstract
All cells require Cu as a cofactor, but Cu2+ induces toxicity and oxidative damage. A strict system is thus needed to maintain Cu homeostasis. Using the ZFL zebrafish liver cell line as a model, we studied the cellular responses after exposure to Cu2+, using whole-transcriptome shotgun sequencing (RNA-seq) to screen nearly all transcriptomes in cell samples and identify changes in gene expression. ZFL cells were treated with 100, 200, or 400 μM CuCl2 and harvested after 4 and 24 h. RNA was then extracted and subjected to RNA-Seq and qPCR validation. Exposure to 400 μM CuCl2 for 4 h and 24 h led to the regulation of 5993 and 4235 genes, respectively. In a gene ontology enrichment analysis, Cu2+ exposure enriched the nitrogen compound metabolic process and antioxidant activity but did not significantly affect cellular copper, zinc, iron and calcium ion homeostasis. In a KEGG pathway enrichment analysis, anti-oxidative stress induced the glutathione metabolism pathway. Furthermore, Cu2+ also induced genes related to apoptosis and arrested the cell cycle in the G2 phase. This study was based on the full gene expression profile combined with pathway analysis details, providing a full cellular response picture for Cu.
- Published
- 2020
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