Advertisement

Nanopore sequencing of African swine fever virus

  • Lijia Jia
  • Mengwei Jiang
  • Ke Wu
  • Juefu Hu
  • Yang Wang
  • Weipeng Quan
  • Mengchan Hao
  • Haizhou Liu
  • Hongping Wei
  • Wenhui Fan
  • Wenjun Liu
  • Rongliang Hu
  • Depeng Wang
  • Jing LiEmail author
  • Jianjun ChenEmail author
  • Di LiuEmail author
Letter to the Editor

Preview

Unable to display preview. Download preview PDF.

Unable to display preview. Download preview PDF.

Notes

Acknowledgements

This work was supported by the National Key R&D Program of China (2016YFC1200800 & 2018YFC0840402), Research Project of African Swine Fever of Chinese Academy of Sciences (KJZD-SW-L06), China Mega-Project for Infectious Disease (2017ZX10103005-005), the State Key Laboratory of Veterinary Biotechnology Research Fund (SKLVBF201902). J.L. is supported by Youth Innovation Promotion Association of CAS (2019091). We acknowledge Lei Zhang (the Core Facility and Technical Support in the Wuhan Institute of Virology, CAS) for supporting in the genome sequencing.

Supplementary material

11427_2019_9828_MOESM1_ESM.docx (17 kb)
Supplementary material, approximately 16.5 KB.
11427_2019_9828_MOESM6_ESM.xml (123 kb)
Supplementary material, approximately 857 KB.

References

  1. Alejo, A., Matamoros, T., Guerra, M., and Andrés, G. (2018). Aproteomic atlas of the African swine fever virus particle. J Virol 92, 1293.CrossRefGoogle Scholar
  2. Bao, J., Wang, Q., Lin, P., Liu, C., Li, L., Wu, X., Chi, T., Xu, T., Ge, S., Liu, Y., et al. (2019). Genome comparison of African swine fever virus China/2018/AnhuiXCGQ strain and related European p72 Genotype II strains. Transbound Emerg Dis 66, 1167–1176.CrossRefGoogle Scholar
  3. Dixon, L.K., Chapman, D.A.G., Netherton, C.L., and Upton, C. (2013). African swine fever virus replication and genomics. Virus Res 173, 3–14.CrossRefGoogle Scholar
  4. Faria, N.R., Quick, J., Claro, I.M., Thézé, J., de Jesus, J.G., Giovanetti, M., Kraemer, M.U.G., Hill, S.C., Black, A., da Costa, A.C., et al. (2017). Establishment and cryptic transmission of Zika virus in Brazil and the Americas. Nature 546, 406–410.CrossRefGoogle Scholar
  5. Galindo, I., and Alonso, C. (2017). African swine fever virus: a review. Viruses 9, 103.CrossRefGoogle Scholar
  6. Ge, S., Li, J., Fan, X., Liu, F., Li, L., Wang, Q., Ren, W., Bao, J., Liu, C., Wang, H., et al. (2018). Molecular characterization of African swine fever virus, China, 2018. Emerg Infect Dis 24, 2131–2133.CrossRefGoogle Scholar
  7. Hill, S.C., Neto de Vasconcelos, J., Granja, B.G., Thézé, J., Jandondo, D., Neto, Z., Mirandela, M., Sebastião, C.D.S., Cândido, A.L.M., Clemente, C., et al. (2019). Early genomic detection of cosmopolitan genotype of Dengue virus serotype 2, Angola, 2018. Emerg Infect Dis 25, 784–787.CrossRefGoogle Scholar
  8. Kafetzopoulou, L.E., Pullan, S.T., Lemey, P., Suchard, M.A., Ehichioya, D. U., Pahlmann, M., Thielebein, A., Hinzmann, J., Oestereich, L., Wozniak, D.M., et al. (2019). Metagenomic sequencing at the epicenter of the Nigeria 2018 Lassa fever outbreak. Science 363, 74–77.CrossRefGoogle Scholar
  9. Luka, P.D., Achenbach, J.E., Mwiine, F.N., Lamien, C.E., Shamaki, D., Unger, H., and Erume, J. (2017). Genetic characterization of circulating African swine fever viruses in Nigeria (2007–2015). Transbound Emerg Dis 64, 1598–1609.CrossRefGoogle Scholar
  10. Lu, H., Giordano, F., and Ning, Z. (2016). Oxford nanopore MinION sequencing and genome assembly. Genom Proteom Bioinf 14, 265–279.CrossRefGoogle Scholar
  11. Magi, A., Giusti, B., and Tattini, L. (2016). Characterization of MinION nanopore data for resequencing analyses. Brief Bioinform 4, bbw077.CrossRefGoogle Scholar
  12. OIE. (2019). Report 17: Global situation of ASF.Google Scholar
  13. Quick, J., Loman, N.J., Duraffour, S., Simpson, J.T., Severi, E., Cowley, L., Bore, J.A., Koundouno, R., Dudas, G., Mikhail, A., et al. (2016). Real-time, portable genome sequencing for Ebola surveillance. Nature 530, 228–232.CrossRefGoogle Scholar
  14. Rowlands, R.J., Michaud, V., Heath, L., Hutchings, G., Oura, C., Vosloo, W., Dwarka, R., Onashvili, T., Albina, E., and Dixon, L.K. (2008). African swine fever virus isolate, Georgia, 2007. Emerg Infect Dis 14, 1870–1874.CrossRefGoogle Scholar
  15. Shi, W., Li, J., Zhou, H., and Gao, G.F. (2017). Pathogen genomic surveillance elucidates the origins, transmission and evolution of emerging viral agents in China. Sci China Life Sci 60, 1317–1330.CrossRefGoogle Scholar
  16. Zhao, D., Liu, R., Zhang, X., Li, F., Wang, J., Zhang, J., Liu, X., Wang, L., Zhang, J., Wu, X., et al. (2019). Replication and virulence in pigs of the first African swine fever virus isolated in China. Emerg Microb Infect 8, 438–447.CrossRefGoogle Scholar

Copyright information

© Science China Press and Springer-Verlag GmbH Germany, part of Springer Nature 2019

Authors and Affiliations

  • Lijia Jia
    • 1
    • 2
    • 4
  • Mengwei Jiang
    • 2
  • Ke Wu
    • 1
    • 2
    • 4
  • Juefu Hu
    • 2
  • Yang Wang
    • 5
  • Weipeng Quan
    • 6
  • Mengchan Hao
    • 2
  • Haizhou Liu
    • 2
  • Hongping Wei
    • 1
    • 3
  • Wenhui Fan
    • 7
  • Wenjun Liu
    • 4
    • 7
    • 8
  • Rongliang Hu
    • 9
  • Depeng Wang
    • 5
    • 6
  • Jing Li
    • 4
    • 7
    Email author
  • Jianjun Chen
    • 1
    • 2
    • 3
    • 8
    Email author
  • Di Liu
    • 1
    • 2
    • 3
    • 4
    • 8
    Email author
  1. 1.CAS Key Laboratory of Special Pathogens and Biosafety, Wuhan Institute of VirologyChinese Academy of SciencesWuhanChina
  2. 2.Computational Virology Group, Center for Bacteria and Viruses Resources and Bioinformation, Wuhan Institute of VirologyChinese Academy of SciencesWuhanChina
  3. 3.African Swine Fever Regional Laboratory of ChinaWuhanChina
  4. 4.University of Chinese Academy of SciencesBeijingChina
  5. 5.GrandOmics BiosciencesBeijingChina
  6. 6.NextOmics BiosciencesWuhanChina
  7. 7.CAS Key Laboratory of Pathogenic Microbiology and Immunology, Institute of MicrobiologyChinese Academy of SciencesBeijingChina
  8. 8.Center for Biosafety Mega-ScienceChinese Academy of SciencesWuhanChina
  9. 9.Institute of Military Veterinary MedicineAcademy of Military Medical ScienceChangchunChina

Personalised recommendations