Archives of Virology

, Volume 163, Issue 3, pp 639–647 | Cite as

Gene expression profile and long non-coding RNA analysis, using RNA-Seq, in chicken embryonic fibroblast cells infected by avian leukosis virus J

  • Xuming Hu
  • Shihao Chen
  • Chongxin Jia
  • Songlei Xue
  • Chunfeng Dou
  • Zhenqing Dai
  • Hui Xu
  • Zhen Sun
  • Tuoyu Geng
  • Hengmi Cui
Original Article

Abstract

Avian leukosis virus J (ALVJ) infection induces hematopoietic malignancy in myeloid leukemia and hemangioma in chickens. However, little is known about the mechanisms underpinning the unique pathogenesis of ALVJ. In this study, we investigated the gene expression profiles of ALVJ-infected chicken cells and performed a comprehensive analysis of the long non-coding RNAs (lncRNAs) in CEF cells using RNA-Seq. As a result, 36 differentially expressed lncRNAs and 91 genes (FC > 2 and q-values < 0.05) were identified. Bioinformatics analysis revealed that these differentially expressed genes are involved in the innate immune response. Target prediction analysis revealed that these lncRNAs may act in cis or trans and affect the expression of genes which are involved in the anti-viral innate immune responses. Toll-like receptor, RIG-I receptor, NOD-like receptor and JAK-STAT signaling pathways were enriched. Notably, the induced expression of innate immunity genes, including B2M, DHX58, IFI27L2, IFIH1, IRF10, ISG12(2), MX, OAS*A, RSAD2, STAT1, TLR3, IL4I1, and IRF1 (FC > 2 and correlation > 0.95), were highly correlated with the upregulation of several lncRNAs, including MG066618, MG066617, MG066601, MG066629, MG066609 and MG066616. These findings identify the expression profile of lncRNAs in chicken CEF cells infected by ALVJ virus and provide new insights into the molecular mechanisms of ALVJ infection.

Notes

Acknowledgements

This research was supported by the National Natural Science Foundation of China (31602032, 81171965, 81372237 and 91540117), National Key Research and Development Program in China (2016YFC1303604) and the Priority Academic Program Development of Jiangsu Higher Education Institutions (Animal Science and Veterinary Medicine).

Compliance with ethical standards

Conflict of interest

All authors declare that they have no conflict of interest.

Ethical approval

This study was performed in strict accordance with the recommendations provided in the Guide for the Care and Use of Laboratory Animals of Yangzhou University. The protocol was approved by the Committee on the Ethics of Animal Experiments of Yangzhou University (License Number: 06R015). This article does not contain any studies with human participants performed by any of the authors.

Supplementary material

705_2017_3659_MOESM1_ESM.xlsx (15 kb)
The differently expressed lncRNAs in chicken CEFs infected with ALVJ 1 (XLSX 14 kb)
705_2017_3659_MOESM2_ESM.xlsx (26 kb)
The differently expressed mRNAs in chicken CEFs infected with ALVJ 2 (XLSX 26 kb)

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Copyright information

© Springer-Verlag GmbH Austria, part of Springer Nature 2017

Authors and Affiliations

  1. 1.Institute of Epigenetics and Epigenomics, College of Animal Science and TechnologyYangzhou UniversityYangzhouChina
  2. 2.Jiangsu Co-innovation Center for Prevention and Control of Important Animal Infectious Diseases and ZoonosesYangzhouChina
  3. 3.Institute of Comparative MedicineYangzhou UniversityYangzhouChina
  4. 4.Joint International Research Laboratory of Agricultural and Agri-Product SafetyYangzhou UniversityYangzhouChina

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