Computational analysis of the receptor binding specificity of novel influenza A/H7N9 viruses

Xinrui Zhou, Jie Zheng, Fransiskus Xaverius Ivan, Rui Yin, Shoba Ranganathan, Vincent T. K. Chow, Chee-Keong Kwoh

    Research output: Contribution to journalConference paperResearchpeer-review

    Abstract

    Background: Influenza viruses are undergoing continuous and rapid evolution. The fatal influenza A/H7N9 has drawn attention since the first wave of infections in March 2013, and raised more grave concerns with its increased potential to spread among humans. Experimental studies have revealed several host and virulence markers, indicating differential host binding preferences which can help estimate the potential of causing a pandemic. Here we systematically investigate the sequence pattern and structural characteristics of novel influenza A/H7N9 using computational approaches.

    Results: The sequence analysis highlighted mutations in protein functional domains of influenza viruses. Molecular docking and molecular dynamics simulation revealed that the hemagglutinin (HA) of A/Taiwan/1/2017(H7N9) strain enhanced the binding with both avian and human receptor analogs, compared with the previous A/Shanghai/02/2013(H7N9) strain. The Molecular Mechanics - Poisson Boltzmann Surface Area (MM-PBSA) calculation revealed the change of residue-ligand interaction energy and detected the residues with conspicuous binding preference.

    Conclusion: The results are novel and specific to the emerging influenza A/Taiwan/1/2017(H7N9) strain compared with A/Shanghai/02/2013(H7N9). Its enhanced ability to bind human receptor analogs, which are abundant in the human upper respiratory tract, may be responsible for the recent outbreak. Residues showing binding preference were detected, which could facilitate monitoring the circulating influenza viruses.

    LanguageEnglish
    Article number88
    Pages1-10
    Number of pages10
    JournalBMC Genomics
    Volume19
    Issue numberSuppl 2
    DOIs
    Publication statusPublished - 9 May 2018
    EventAsia Pacific Bioinformatics Conference (16th : 2018) - Yokohama, Japan
    Duration: 15 Jan 201817 Jan 2018
    Conference number: 16th

    Fingerprint

    H7N9 Subtype Influenza A Virus
    Influenza A virus
    Viruses
    Orthomyxoviridae
    Human Influenza
    Taiwan
    Molecular mechanics
    Molecular dynamics
    Hemagglutinins
    Pandemics
    Molecular Dynamics Simulation
    Mechanics
    Ligands
    Respiratory System
    Proteins
    Disease Outbreaks
    Sequence Analysis
    Virulence
    Monitoring
    Computer simulation

    Bibliographical note

    Copyright the Author(s) 2018. Version archived for private and non-commercial use with the permission of the author/s and according to publisher conditions. For further rights please contact the publisher.

    Keywords

    • Influenza A/H7N9
    • Host specificity
    • Receptor binding
    • Molecular docking
    • Molecular dynamics simulation

    Cite this

    Zhou, X., Zheng, J., Ivan, F. X., Yin, R., Ranganathan, S., Chow, V. T. K., & Kwoh, C-K. (2018). Computational analysis of the receptor binding specificity of novel influenza A/H7N9 viruses. BMC Genomics, 19(Suppl 2), 1-10. [88]. https://doi.org/10.1186/s12864-018-4461-z
    Zhou, Xinrui ; Zheng, Jie ; Ivan, Fransiskus Xaverius ; Yin, Rui ; Ranganathan, Shoba ; Chow, Vincent T. K. ; Kwoh, Chee-Keong. / Computational analysis of the receptor binding specificity of novel influenza A/H7N9 viruses. In: BMC Genomics. 2018 ; Vol. 19, No. Suppl 2. pp. 1-10.
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    author = "Xinrui Zhou and Jie Zheng and Ivan, {Fransiskus Xaverius} and Rui Yin and Shoba Ranganathan and Chow, {Vincent T. K.} and Chee-Keong Kwoh",
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    Computational analysis of the receptor binding specificity of novel influenza A/H7N9 viruses. / Zhou, Xinrui; Zheng, Jie; Ivan, Fransiskus Xaverius; Yin, Rui; Ranganathan, Shoba; Chow, Vincent T. K.; Kwoh, Chee-Keong.

    In: BMC Genomics, Vol. 19, No. Suppl 2, 88, 09.05.2018, p. 1-10.

    Research output: Contribution to journalConference paperResearchpeer-review

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    AU - Zhou, Xinrui

    AU - Zheng, Jie

    AU - Ivan, Fransiskus Xaverius

    AU - Yin, Rui

    AU - Ranganathan, Shoba

    AU - Chow, Vincent T. K.

    AU - Kwoh, Chee-Keong

    N1 - Copyright the Author(s) 2018. Version archived for private and non-commercial use with the permission of the author/s and according to publisher conditions. For further rights please contact the publisher.

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    Y1 - 2018/5/9

    N2 - Background: Influenza viruses are undergoing continuous and rapid evolution. The fatal influenza A/H7N9 has drawn attention since the first wave of infections in March 2013, and raised more grave concerns with its increased potential to spread among humans. Experimental studies have revealed several host and virulence markers, indicating differential host binding preferences which can help estimate the potential of causing a pandemic. Here we systematically investigate the sequence pattern and structural characteristics of novel influenza A/H7N9 using computational approaches. Results: The sequence analysis highlighted mutations in protein functional domains of influenza viruses. Molecular docking and molecular dynamics simulation revealed that the hemagglutinin (HA) of A/Taiwan/1/2017(H7N9) strain enhanced the binding with both avian and human receptor analogs, compared with the previous A/Shanghai/02/2013(H7N9) strain. The Molecular Mechanics - Poisson Boltzmann Surface Area (MM-PBSA) calculation revealed the change of residue-ligand interaction energy and detected the residues with conspicuous binding preference. Conclusion: The results are novel and specific to the emerging influenza A/Taiwan/1/2017(H7N9) strain compared with A/Shanghai/02/2013(H7N9). Its enhanced ability to bind human receptor analogs, which are abundant in the human upper respiratory tract, may be responsible for the recent outbreak. Residues showing binding preference were detected, which could facilitate monitoring the circulating influenza viruses.

    AB - Background: Influenza viruses are undergoing continuous and rapid evolution. The fatal influenza A/H7N9 has drawn attention since the first wave of infections in March 2013, and raised more grave concerns with its increased potential to spread among humans. Experimental studies have revealed several host and virulence markers, indicating differential host binding preferences which can help estimate the potential of causing a pandemic. Here we systematically investigate the sequence pattern and structural characteristics of novel influenza A/H7N9 using computational approaches. Results: The sequence analysis highlighted mutations in protein functional domains of influenza viruses. Molecular docking and molecular dynamics simulation revealed that the hemagglutinin (HA) of A/Taiwan/1/2017(H7N9) strain enhanced the binding with both avian and human receptor analogs, compared with the previous A/Shanghai/02/2013(H7N9) strain. The Molecular Mechanics - Poisson Boltzmann Surface Area (MM-PBSA) calculation revealed the change of residue-ligand interaction energy and detected the residues with conspicuous binding preference. Conclusion: The results are novel and specific to the emerging influenza A/Taiwan/1/2017(H7N9) strain compared with A/Shanghai/02/2013(H7N9). Its enhanced ability to bind human receptor analogs, which are abundant in the human upper respiratory tract, may be responsible for the recent outbreak. Residues showing binding preference were detected, which could facilitate monitoring the circulating influenza viruses.

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