Expression profile of long non-coding RNAs in the intestine of black rockfish <i>Sebastes schlegelii</i> in response to <i>Edwardsiella tarda</i> infection -- Journal of Oceanology and Limnology,2023,41(1):376-391

	Cite this paper:
	Xu YAN, Min CAO, Qiang FU, Ning YANG, Ningning WANG, Lin SONG, Chao LI. Expression profile of long non-coding RNAs in the intestine of black rockfish Sebastes schlegelii in response to Edwardsiella tarda infection[J]. Journal of Oceanology and Limnology, 2023, 41(1): 376-391

Expression profile of long non-coding RNAs in the intestine of black rockfish Sebastes schlegelii in response to Edwardsiella tarda infection

Xu YAN¹, Min CAO², Qiang FU², Ning YANG², Ningning WANG², Lin SONG¹, Chao LI²

1 College of Chemistry and Molecular Engineering, Qingdao University of Science and Technology, Qingdao 266011, China;
2 School of Marine Science and Engineering, Qingdao Agricultural University, Qingdao 266109, China

Abstract:

Long non-coding RNAs (lncRNAs) are a class of transcripts longer than 200 bp, which have been emerged as essential regulators in numerous biological processes. Black rockfish (Sebastes schlegelii) is an economic fish that widely cultured in the coastal areas of China, Japan, and South Korea. With the expansion of aquacultural scale, various pathogens have threatened its industry and reduced its economic values. It has been reported that lncRNA were involved in the immune response and metabolic pathway in teleost, while no study is available on identification and functional analysis of lncRNAs in black rockfish so far. Herein, this study was performed to identify lncRNAs in the intestine of black rockfish after Edwardsiella tarda infection. In our results, a total of 9 311 lncRNAs were identified through high-throughput sequencing, and 102 lncRNAs were significantly regulated following challenge, which were predicted to target 3 348 mRNAs. Results of Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analyses of these target genes showed they were function in catalytic activity, hydrolase activity, defense response and peptidase activity, which involved in metabolic pathways and immune related pathways. In addition, 47 lncRNAs and 8 differentially expressed mRNAs (DEmRNAs) showed co-expression at two or more infection time points with metabolism and immunity functions. Moreover, real-time quantitative PCR (qRT-PCR) was performed to verify the reliability of sequencing gene expression analysis results. This research laid the foundation for further investigation of the regulatory roles of lncRNAs in the intestinal immune response of black rockfish.

Key words: long non-coding RNA|mRNA|intestine|Sebastes schlegelii|Edwardsiella tarda

Received: 2021-07-15 Revised:

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