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Analysis of Expression Profiles of Long Noncoding RNAs and mRNAs in A549 Cells Infected with H3N2 Swine Influenza Virus by RNA Sequencing

  • Yina Zhang
  • Tianqi Yu
  • Yingnan Ding
  • Yahui Li
  • Jing Lei
  • Boli Hu
  • Jiyong ZhouEmail author
RESEARCH ARTICLE
  • 64 Downloads

Abstract

Long noncoding RNAs (lncRNAs) participate in regulating many biological processes. However, their roles in influenza A virus (IAV) pathogenicity are largely unknown. Here, we analyzed the expression profiles of lncRNAs and mRNAs in H3N2-infected cells and mock-infected cells by high-throughput sequencing. The results showed that 6129 lncRNAs and 50,031 mRNA transcripts in A549 cells displayed differential expression after H3N2 infection compared with mock infection. Among the differentially expressed lncRNAs, 4963 were upregulated, and 1166 were downregulated. Functional annotation and enrichment analysis using gene ontology and Kyoto Encyclopedia of Genes and Genomes databases (KEGG) suggested that target genes of the differentially expressed lncRNAs were enriched in some biological processes, such as cellular metabolism and autophagy. The up- or downregulated lncRNAs were selected and further verified by quantitative real-time polymerase chain reaction (RT-qPCR) and reverse transcription PCR (RT-PCR). To the best of our knowledge, this is the first report of a comparative expression analysis of lncRNAs in A549 cells infected with H3N2. Our results support the need for further analyses of the functions of differentially expressed lncRNAs during H3N2 infection.

Keywords

Influenza virus (IAV) Long noncoding RNA (lncRNA) A549 cells High-throughput sequencing 

Notes

Acknowledgements

This study is supported by grants from the National Key technology R&D Program of China (Grant No. 2015BAD12B01), the China Agriculture Research System (Grant No. CARS-40-K13) and the National Science Foundation of China (Grant No. 31502084).

Author Contributions

JZ and YZ designed the experiments and wrote the paper. YZ performed the majority of the experiments. TY and YD analyzed the data. YL prepared the sequencing samples. JL verified sequencing results and BH edited pictures.

Compliance with Ethical Standards

Conflict of interest

All authors declare that they have no conflict of interest.

Animal and Human Rights Statement

This article does not contain any studies with human or animal subjects.

Supplementary material

12250_2019_170_MOESM1_ESM.pdf (210 kb)
Supplementary material 1 (PDF 210 kb)
12250_2019_170_MOESM2_ESM.xlsx (419 kb)
Table S3 Differentially expressed lncRNAs in A549 cells infected with H3N2. (XLSX 418 kb)
12250_2019_170_MOESM3_ESM.xlsx (2.7 mb)
Table S4 Differentially expressed mRNAs in A549 cells infected with H3N2. (XLSX 2799 kb)

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Copyright information

© Wuhan Institute of Virology, CAS 2019

Authors and Affiliations

  1. 1.MOA Key Laboratory of Animal Virology and Department of Veterinary MedicineZhejiang UniversityHangzhouChina
  2. 2.MOE International Joint Collaborative Research Laboratory for Animal Health and Food Safety, Institute of Immunology and College of Veterinary MedicineNanjing Agricultural UniversityNanjingChina

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