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Volume 39 Issue 5
October 2024

    . doi: 10.1016/j.virs.2024.08.010
    Citation: Yuhang Liu, Zhiqiang Liu, Jian Li, Xiaomin Yan, Weidi Xu, Le Yi, Changchun Tu, Biao He. Rapid diagnosis of a fox's death case using nanopore sequencing reveals the infection with an Artic-like rabies virus .VIROLOGICA SINICA, 2024, 39(5) : 840-842.  http://dx.doi.org/10.1016/j.virs.2024.08.010
    shu

    一例狐狸死亡病例的基于纳米孔测序的快速诊断揭示类北极型狂犬病病毒的感染

    cstr: 32224.14.j.virs.2024.08.010

    • a. 中国农业科学院, 长春兽医研究所, 病原与生物安全全国重点实验室, 吉林省人兽共患病防控重点实验室;

    • b. 双河省级野生动物疫病监测站;

    • c. 扬州大学, 江苏重要动物传染病和人兽共患病防控协同创新中心

    • 通讯作者： 何彪, heb-001001@163.com
    • 收稿日期： 2024-05-25
      录用日期： 2024-08-23
    • 快速诊断对于新发传染病的防控至关重要。本研究使用纳米孔测序对一例狐狸死亡病例进行快速病毒组分析，结果使用6个小时便完成从样品接收到锁定病原。通过荧光定量RT-PCR和FAT检测，进一步验证了纳米孔测序诊断的准确性，并确认引起该狐狸死亡的原因是类北极型狂犬病病毒的感染。该研究展示了纳米孔测序在新发传染病快速诊断中的应用潜力，同时也表明未来需要解决测序准确性的问题。

    Rapid diagnosis of a fox's death case using nanopore sequencing reveals the infection with an Artic-like rabies virus

    • a. Changchun Veterinary Research Institute, Chinese Academy of Agricultural Sciences, State Key Laboratory of Pathogen and Biosecurity, Key Laboratory of Jilin Province for Zoonosis Prevention and Control, Changchun, 130122, China;

    • b. Provincial Wildlife Disease Monitoring Station of Shuanghe, Xunke, 164400, China;

    • c. Jiangsu Co-innovation Center for Prevention and Control of Important Animal Infectious Diseases and Zoonosis, Yangzhou University, Yangzhou, 225009, China

    • Corresponding author: Biao He, heb-001001@163.com
    • Received Date: 25 May 2024
      Accepted Date: 23 August 2024
    • Highlights
      1. We detected a rabies virus (RABV) in a fox's death case within 6 h upon sample receipt using nanopore direct sequencing.
      2. The virus belongs to AL2 sub-lineage, suggesting a high risk of fox-related AL2 RABV on the northeastern border of China.
      3. Nanopore sequencing showed less sensitivity and accuracy, though it helped us rapidly identify the cause of death.
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      6. Feng, Y., Wang, Y., Hada, Deijide, Gaosuyilatu, Li, X, Xu, Z., Hasibagen, Bulage, A., Li, L. et al., 2022. Diversity of rabies virus detected in Inner Mongolia, China, 2019-2021. Transbound. Emerg. Dis. 69, 249-253.

      7. Feng, Y., Wang, Y., Xu, W., Tu, Z., Liu, T., Huo, M., Liu, Y., Gong, W., Zeng, Z., Wang, W. et al., 2020. Animal rabies surveillance, China, 2004-2018. Emerg. Infect. Dis. 26, 2825-2834.

      8. Gauthier, N. P. G., Chorlton, S. D., Krajden, M., Manges, A. R., 2023. Agnostic sequencing for detection of viral pathogens. Clin. Microbiol, Rev. 36, e0011922.

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      10. Hoenen, T., Groseth, A., Rosenke, K., Fischer, R. J., Hoenen, A., Judson, S. D., Martellaro, C., Falzarano, D., Marzi, A., Squires, R. B. et al., 2016. Nanopore sequencing as a rapidly deployable Ebola outbreak tool. Emerg. Infect. Dis. 22, 331-334.

      11. Jin, Y., Zhang, X., Ma, Y., Qiao, Y., Liu, X., Zhao, K., Zhang, C., Lin, D., Fu, X., Xu, X. et al., 2017. Canine distemper viral infection threatens the giant panda population in China. Oncotarget. 8, 113910-113919.

      12. Li, T., Mbala-Kingebeni, P., Naccache, S. N., Theze, J., Bouquet, J., Federman, S., Somasekar, S., Yu, G., Sanchez-San Martin, C., Achari, A. et al., 2019. Metagenomic Next-Generation Sequencing of the 2014 Ebola virus disease outbreak in the Democratic Republic of the Congo. J. Clin. Microbiol. 57, e00827.-19.

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      Rapid diagnosis of a fox's death case using nanopore sequencing reveals the infection with an Artic-like rabies virus

        Corresponding author: Biao He, heb-001001@163.com
      • a. Changchun Veterinary Research Institute, Chinese Academy of Agricultural Sciences, State Key Laboratory of Pathogen and Biosecurity, Key Laboratory of Jilin Province for Zoonosis Prevention and Control, Changchun, 130122, China;
      • b. Provincial Wildlife Disease Monitoring Station of Shuanghe, Xunke, 164400, China;
      • c. Jiangsu Co-innovation Center for Prevention and Control of Important Animal Infectious Diseases and Zoonosis, Yangzhou University, Yangzhou, 225009, China
      • Received Date: 25 May 2024
      • Accepted Date: 23 August 2024

      Abstract: Highlights
      1. We detected a rabies virus (RABV) in a fox's death case within 6 h upon sample receipt using nanopore direct sequencing.
      2. The virus belongs to AL2 sub-lineage, suggesting a high risk of fox-related AL2 RABV on the northeastern border of China.
      3. Nanopore sequencing showed less sensitivity and accuracy, though it helped us rapidly identify the cause of death.

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