Citation: Rui Huang, Wenbo Chen, Xueya Zhao, Yuefei Ma, Qiong Zhou, Junsen Chen, Muyi Zhang, Dingran Zhao, Yu Hou, Chunjiang He, Ying Wu. Genome-wide characterization of alternative splicing in blood cells of COVID-19 and respiratory infections of relevance .VIROLOGICA SINICA, 2023, 38(2) : 309-312.  http://dx.doi.org/10.1016/j.virs.2023.01.007

Genome-wide characterization of alternative splicing in blood cells of COVID-19 and respiratory infections of relevance

  • Corresponding author: Chunjiang He, che@whu.edu.cn
    Ying Wu, yingwu@whu.edu.cn
  • Received Date: 14 July 2022
    Accepted Date: 30 December 2022
    Available online: 20 January 2023
  • Highlights
    1. The first global exploration of alternative splicing changes in COVID-19 and relevant respiratory diseases
    2. The specificities and similarities between alternative splicing events in different respiratory diseases
    3. Identification of regulatory network of RBP and alternative splicing in respiratory diseases
    4. Defining the interactions of alternative splicing and cell abundance in respiratory diseases

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    2. Bonenfant G, Meng R, Shotwell C, Badu P, Payne AF, Ciota AT, Sammons MA, Berglund JA, Pager CT. 2020. Asian Zika virus isolate significantly changes the transcriptional profile and alternative RNA splicing events in a neuroblastoma cell line. Viruses 12, 510.

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    4. Galbraith MD, Kinning KT, Sullivan KD, Baxter R, Araya P, Jordan KR, Russell S, Smith KP, Granrath RE, Shaw JR, Dzieciatkowska M, Ghosh T, Monte AA, D'Alessandro A, Hansen KC, Benett TD, Hsieh EW, Espinosa JM. 2021. Seroconversion stages COVID19 into distinct pathophysiological states. Elife 10, e65508.

    5. julian.knight@well.ox.ac.uk CO-M-oBACEa, Consortium CO-M-oBA. 2022. A blood atlas of COVID-19 defines hallmarks of disease severity and specificity. Cell 185, 916-938.e958.

    6. Kremsdorf D, Lekbaby B, Bablon P, Sotty J, Augustin J, Schnuriger A, Pol J, Soussan P. 2021. Alternative splicing of viral transcripts:The dark side of HBV. Gut 70, 2373-2382.

    7. Lee Y, Rio DC. 2015. Mechanisms and regulation of alternative pre-mrna splicing. Annu Rev Biochem, 84:291-323.

    8. Li D, Su M, Sun PP, Guo WP, Wang CY, Wang JL, Wang H, Zhang Q, Du LY, Xie GC. 2020. Global profiling of the alternative splicing landscape reveals transcriptomic diversity during the early phase of enterovirus 71 infection. Virology 548, 213-225.

    9. Lin W, Zhu C, Hong J, Zhao L, Jilg N, Fusco DN, Schaefer EA, Brisac C, Liu X, Peng LF, Xu Q, Chung RT. 2015. The spliceosome factor SART1 exerts its anti-HCV action through mRNA splicing. J Hepatol, 62:1024-1032.

    10. McClain MT, Constantine FJ, Henao R, Liu Y, Tsalik EL, Burke TW, Steinbrink JM, Petzold E, Nicholson BP, Rolfe R, Kraft BD, Kelly MS, Saban DR, Yu C, Shen X, Ko EM, Sempowski GD, Denny TN, Ginsburg GS, Woods CW. 2021. Dysregulated transcriptional responses to SARS-CoV-2 in the periphery. Nat Commun.12, 1079.

    11. Pozzi B, Bragado L, Mammi P, Torti MF, Gaioli N, Gebhard LG, Garcia Sola ME, Vaz-Drago R, Iglesias NG, Garcia CC, Gamarnik AV, Srebrow A. 2020. Dengue virus targets RBM10 deregulating host cell splicing and innate immune response. Nucleic Acids Res. 48, 6824-6838.

    12. Tomezsko PJ, Corbin VDA, Gupta P, Swaminathan H, Glasgow M, Persad S, Edwards MD, McIntosh L, Papenfuss AT, Emery A, Swanstrom R, Zang T, Lan TCT, Bieniasz P, Kuritzkes DR, Tsibris A, Rouskin S. 2020. Determination of RNA structural diversity and its role in HIV-1 rna splicing. Nature 582,438-442.

    13. Wang LY, Balmat TJ, Antonia AL, Constantine FJ, Henao R, Burke TW, Ingham A, McClain MT, Tsalik EL, Ko ER, Ginsburg GS, DeLong MR, Shen XL, Woods CW, Hauser ER, Ko DC. 2021. An atlas connecting shared genetic architecture of human diseases and molecular phenotypes provides insight into COVID-19 susceptibility. Genome Medicine 13, 83.

    14. Wu P, Chen D, Ding W, Wu P, Hou H, Bai Y, Zhou Y, Li K, Xiang S, Liu P, Ju J, Guo E, Liu J, Yang B, Fan J, He L, Sun Z, Feng L, Wang J, Wu T, Wang H, Cheng J, Xing H, Meng Y, Li Y, Zhang Y, Luo H, Xie G, Lan X, Tao Y, Li J, Yuan H, Huang K, Sun W, Qian X, Li Z, Huang M, Ding P, Wang H, Qiu J, Wang F, Wang S, Zhu J, Ding X, Chai C, Liang L, Wang X, Luo L, Sun Y, Yang Y, Zhuang Z, Li T, Tian L, Zhang S, Zhu L, Chang A, Chen L, Wu Y, Ma X, Chen F, Ren Y, Xu X, Liu S, Wang J, Yang H, Wang L, Sun C, Ma D, Jin X, Chen G. 2021. The trans-omics landscape of COVID-19. Nat Commun. 12, 4543.

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    Genome-wide characterization of alternative splicing in blood cells of COVID-19 and respiratory infections of relevance

      Corresponding author: Chunjiang He, che@whu.edu.cn
      Corresponding author: Ying Wu, yingwu@whu.edu.cn
    • a. State Key Laboratory of Virology and Hubei Province Key Laboratory of Allergy and Immunology, Institute of Medical Virology, TaiKang Medical School, Wuhan University, Wuhan, 430072, China;
    • b. TaiKang Medical School, Wuhan University, Wuhan, 430071, China;
    • c. Institute of Life Sciences, Chongqing Medical University, Chongqing, 400016, China;
    • d. Tongji Hospital, Tongji Medical College, Huazhong University of Science and Technology, Wuhan, 430030, China;
    • e. Department of Clinical Laboratory, The First Affiliated Hospital, Fujian Medical University, Fuzhou, 350005, China;
    • f. Public Health Institute of Kunming Medical University, Kunming, 650500, China

    Abstract: Highlights
    1. The first global exploration of alternative splicing changes in COVID-19 and relevant respiratory diseases
    2. The specificities and similarities between alternative splicing events in different respiratory diseases
    3. Identification of regulatory network of RBP and alternative splicing in respiratory diseases
    4. Defining the interactions of alternative splicing and cell abundance in respiratory diseases

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