The evolution of H5N1 influenza viruses in Indonesia to mammalian hosts: a review of molecular markers

References

• Al-Mubarak, F., J. Daly, D. Christie, D. Fountain, and S. P. Dunham. 2014. “Identification of Morphological Differences Between Avian Influenza a Viruses Grown in Chicken and Duck Cells.” Virus Research 199:9–19. https://doi.org/10.1016/j.virusres.2015.01.005.
   Web of Science ®Google Scholar
• Auewarakul, P., O. Suptawiwat, A. Kongchanagul, C. Sangma, Y. Suzuki, K. Ungchusak, S. Louisirirotchanakul, et al. 2007. “An Avian Influenza H5N1 Virus That Binds to a Human-Type Receptor.” Journal of Virology 81 (18): 9950–9955. https://doi.org/10.1128/JVI.00468-07.
   PubMed Web of Science ®Google Scholar
• Baskin, C. R., H. Bielefeldt-Ohmann, T. M. Tumpey, P. J. Sabourin, J. P. Long, A. García-Sastre, A.-E. Tolnay, R. Albrecht, J. A. Pyles, and P. H. Olson. 2009. “Early and Sustained Innate Immune Response Defines Pathology and Death in Nonhuman Primates Infected by Highly Pathogenic Influenza Virus.” Proceedings of the National Academy of Sciences of the United States of America 106 (9): 3455–3460. https://doi.org/10.1073/pnas.0813234106.
   PubMed Web of Science ®Google Scholar
• Chen, H., R. A. Bright, K. Subbarao, C. Smith, N. J. Cox, J. M. Katz, and Y. Matsuoka. 2007. “Polygenic Virulence Factors Involved in Pathogenesis of 1997 Hong Kong H5N1 Influenza Viruses in Mice.” Virus Research 128 (1–2): 159–163. https://doi.org/10.1016/j.virusres.2007.04.017.
   PubMed Web of Science ®Google Scholar
• Chen, Y., W. Deng, C. Jia, X. Dai, H. Zhu, Q. Kong, L. Huang, Y. Liu, C. Ma, and J. LI. 2009. “Pathological Lesions and Viral Localization of Influenza a (H5N1) Virus in Experimentally Infected Chinese Rhesus Macaques: Implications for Pathogenesis and Viral Transmission.” Archives of Virology 154 (2): 227–233. https://doi.org/10.1007/s00705-008-0277-5.
   PubMed Web of Science ®Google Scholar
• Chutinimitkul, S., S. Herfst, J. Steel, A. C. Lowen, J. Ye, D. van Riel, E. J. Schrauwen, et al. 2010a. “Virulence-Associated Substitution D222G in the Hemagglutinin of 2009 Pandemic Influenza A(H1N1) Virus Affects Receptor Binding.” Journal of Virology 84 (22): 11802–11813. https://doi.org/10.1128/JVI.01136-10.
   PubMed Web of Science ®Google Scholar
• Chutinimitkul, S., D. van Riel, V. J. Munster, J. M. van den Brand, G. F. Rimmelzwaan, T. Kuiken, A. D. Osterhaus, R. A. Fouchier, and E. de Wit. 2010b. “In vitro Assessment of Attachment Pattern and Replication Efficiency of H5N1 Influenza a Viruses with Altered Receptor Specificity.” Journal of Virology 84 (13): 6825–6833. https://doi.org/10.1128/JVI.02737-09.
   PubMed Web of Science ®Google Scholar
• Cilloniz, C., M. J. Pantin-Jackwood, C. Ni, V. S. Carter, M. J. Korth, D. E. Swayne, T. M. Tumpey, and M. G. Katze. 2012. “Molecular Signatures Associated with Mx1-Mediated Resistance to Highly Pathogenic Influenza Virus Infection: Mechanisms of Survival.” Journal of Virology 86 (5): 2437–2446. https://doi.org/10.1128/JVI.06156-11.
   PubMed Web of Science ®Google Scholar
• Coloma, R., J. M. Valpuesta, R. Arranz, J. L. Carrascosa, J. Ortín, J. Martín-Benito, and F. A. Rey. 2009. “The Structure of a Biologically Active Influenza Virus Ribonucleoprotein Complex.” PLoS Pathogens 5 (6): e1000491. https://doi.org/10.1371/journal.ppat.1000491.
   PubMed Web of Science ®Google Scholar
• Connor, R. J., Y. Kawaoka, R. G. Webster, and J. C. Paulson. 1994. “Receptor Specificity in Human, Avian, and Equine H2 and H3 Influenza Virus Isolates.” Virology 205 (1): 17–23. https://doi.org/10.1006/viro.1994.1615.
   PubMed Web of Science ®Google Scholar
• Dharmayanti, N. L. P. I., R. Hartawan, H. W. Pudjiatmoko, A. B. Hardiman, R. Donis, C. T. Davis, and G. J. E. I. D. Samaan. 2014. “Genetic Characterization of Clade 2.3. 2.1 Avian Influenza a (H5N1) Viruses, Indonesia, 2012.” Emerging Infectious Diseases 20 (4): 671–674. https://doi.org/10.3201/eid2004.130517.
   PubMed Web of Science ®Google Scholar
• Fan, S., G. Deng, J. Song, G. Tian, Y. Suo, Y. Jiang, Y. Guan, Z. Bu, Y. Kawaoka, and H. Chen. 2009. “Two Amino Acid Residues in the Matrix Protein M1 Contribute to the Virulence Difference of H5N1 Avian Influenza Viruses in Mice.” Virology 384 (1): 28–32. https://doi.org/10.1016/j.virol.2008.11.044.
   PubMed Web of Science ®Google Scholar
• Finkelstein, D. B., S. Mukatira, P. K. Mehta, J. C. Obenauer, X. Su, R. G. Webster, and C. W. Naeve. 2007. “Persistent Host Markers in Pandemic and H5N1 Influenza Viruses.” Journal of Virology 81 (19): 10292–10299. https://doi.org/10.1128/JVI.00921-07.
   PubMed Web of Science ®Google Scholar
• Foeglein, Á., E. M. Loucaides, M. Mura, H. M. Wise, W. S. Barclay, and P. Digard. 2011. “Influence of PB2 Host-Range Determinants on the Intranuclear Mobility of the Influenza a Virus Polymerase.” The Journal of General Virology 92 (7): 1650–1661. https://doi.org/10.1099/vir.0.031492-0.
   PubMedGoogle Scholar
• Gabriel, G., M. Abram, B. Keiner, R. Wagner, H. D. Klenk, and J. Stech. 2007. “Differential Polymerase Activity in Avian and Mammalian Cells Determines Host Range of Influenza Virus.” Journal of Virology 81 (17): 9601–9604. https://doi.org/10.1128/JVI.00666-07.
   PubMed Web of Science ®Google Scholar
• Gabriel, G., B. Dauber, T. Wolff, O. Planz, H. D. Klenk, and J. Stech. 2005. “The Viral Polymerase Mediates Adaptation of an Avian Influenza Virus to a Mammalian Host.” Proceedings of the National Academy of Sciences of the United States of America 102 (51): 18590–18595. https://doi.org/10.1073/pnas.0507415102.
   PubMed Web of Science ®Google Scholar
• Gabriel, G., A. Herwig, H.-D. J. P. P. Klenk, and Y. Kawaoka. 2008. “Interaction of Polymerase Subunit PB2 and NP with Importin α1 is a Determinant of Host Range of Influenza a Virus.” PLoS Pathogens 4 (2): e11. https://doi.org/10.1371/journal.ppat.0040011.
   PubMed Web of Science ®Google Scholar
• Gao, Y., Y. Zhang, K. Shinya, G. Deng, Y. Jiang, Z. Li, Y. Guan, et al. 2009a. “Identification of Amino Acids in HA and PB2 Critical for the Transmission of H5N1 Avian Influenza Viruses in a Mammalian Host.” PLoS Pathogens 5 (12): e1000709. https://doi.org/10.1371/journal.ppat.1000709.
   PubMed Web of Science ®Google Scholar
• Gao, Y., Y. Zhang, K. Shinya, G. Deng, Y. Jiang, Z. Li, Y. Guan, et al. 2009b. “Identification of Amino Acids in HA and PB2 Critical for the Transmission of H5N1 Avian Influenza Viruses in a Mammalian Host.” PLoS Pathogens 5 (12): e1000709. https://doi.org/10.1371/journal.ppat.1000709.
   PubMed Web of Science ®Google Scholar
• Govorkova, E. A., J. E. Rehg, S. Krauss, H.-L. Yen, Y. Guan, M. Peiris, T. D. Nguyen, T. H. Hanh, P. Puthavathana, and H. T. Long. 2005. “Lethality to Ferrets of H5N1 Influenza Viruses Isolated from Humans and Poultry in 2004.” Journal of Virology 79 (4): 2191–2198. https://doi.org/10.1128/JVI.79.4.2191-2198.2005.
   PubMed Web of Science ®Google Scholar
• Harder, T. C., and T. W. Vahlenkamp. 2010. “Influenza Virus Infections in Dogs and Cats.” Veterinary Immunology and Immunopathology 134 (1–2): 54–60. https://doi.org/10.1016/j.vetimm.2009.10.009.
   PubMed Web of Science ®Google Scholar
• Harvey, R., A. C. Martin, M. Zambon, and W. S. Barclay. 2004. “Restrictions to the Adaptation of Influenza a Virus H5 Hemagglutinin to the Human Host.” Journal of Virology 78 (1): 502–507. https://doi.org/10.1128/jvi.78.1.502-507.2004.
   PubMed Web of Science ®Google Scholar
• Hatta, M., Y. Hatta, J. H. Kim, S. Watanabe, K. Shinya, T. Nguyen, P. S. Lien, Q. M. Le, Y. Kawaoka, and E. C. Holmes. 2007. “Growth of H5N1 Influenza a Viruses in the Upper Respiratory Tracts of Mice.” PLoS Pathogens 3 (10): 1374–1379. https://doi.org/10.1371/journal.ppat.0030133.
   PubMed Web of Science ®Google Scholar
• Herfst, S., S. Chutinimitkul, J. Ye, E. de Wit, V. J. Munster, E. J. Schrauwen, T. M. Bestebroer, et al. 2010. “Introduction of Virulence Markers in PB2 of Pandemic Swine-Origin Influenza Virus Does Not Result in Enhanced Virulence or Transmission.” Journal of Virology 84 (8): 3752–3758. https://doi.org/10.1128/JVI.02634-09.
   PubMed Web of Science ®Google Scholar
• Herfst, S., E. J. Schrauwen, M. Linster, S. Chutinimitkul, E. De Wit, V. J. Munster, E. M. Sorrell, T. M. Bestebroer, D. F. Burke, and D. Smith. 2012. “Airborne Transmission of Influenza A/H5N1 Virus Between Ferrets.” Science (New York, NY) 336 (6088): 1534–1541. https://doi.org/10.1126/science.1213362.
   Google Scholar
• Horimoto, T., and Y. Kawaoka. 2001. “Pandemic Threat Posed by Avian Influenza a Viruses.” Clinical Microbiology Reviews 14 (1): 129–149. https://doi.org/10.1128/CMR.14.1.129-149.2001.
   PubMed Web of Science ®Google Scholar
• Hulse-Post, D., J. Franks, K. Boyd, R. Salomon, E. Hoffmann, H. Yen, R. Webby, D. Walker, T. Nguyen, and R. Webster. 2007. “Molecular Changes in the Polymerase Genes (PA and PB1) Associated with High Pathogenicity of H5N1 Influenza Virus in Mallard Ducks.” Journal of Virology 81 (16): 8515–8524. https://doi.org/10.1128/JVI.00435-07.
   PubMed Web of Science ®Google Scholar
• Hutchinson, E. C. 2018. “Influenza Virus.” Trends in Microbiology 26 (9): 809–810. https://doi.org/10.1016/j.tim.2018.05.013.
   PubMed Web of Science ®Google Scholar
• Ilyushina, N. A., E. A. Govorkova, T. E. Gray, N. V. Bovin, R. G. Webster, and R. A. M. Fouchier. 2008. “Human-Like Receptor Specificity Does Not Affect the Neuraminidase-Inhibitor Susceptibility of H5N1 Influenza Viruses.” PLoS Pathogens 4 (4): e1000043. https://doi.org/10.1371/journal.ppat.1000043.
   PubMed Web of Science ®Google Scholar
• Imai, M., T. Watanabe, M. Hatta, S. C. Das, M. Ozawa, K. Shinya, G. Zhong, et al. 2012. “Experimental Adaptation of an Influenza H5 HA Confers Respiratory Droplet Transmission to a Reassortant H5 HA/H1N1 Virus in Ferrets.” Nature Australia 486 (7403): 420–428. https://doi.org/10.1038/nature10831.
   Google Scholar
• Itoh, Y., H. Ozaki, H. Tsuchiya, K. Okamoto, R. Torii, Y. Sakoda, Y. Kawaoka, K. Ogasawara, and H. Kida. 2008. “A Vaccine Prepared from a Non-Pathogenic H5N1 Avian Influenza Virus Strain Confers Protective Immunity Against Highly Pathogenic Avian Influenza Virus Infection in Cynomolgus Macaques.” Vaccine: X 26 (4): 562–572. https://doi.org/10.1016/j.vaccine.2007.11.031.
   Google Scholar
• Jackson, D., M. J. Hossain, D. Hickman, D. R. Perez, and R. A. Lamb. 2008. “A New Influenza Virus Virulence Determinant: The NS1 Protein Four C-Terminal Residues Modulate Pathogenicity.” Proceedings of the National Academy of Sciences of the United States of America 5 (11): 4381–4386. https://doi.org/10.1073/pnas.0800482105.
   Google Scholar
• Katz, J. M., X. Lu, T. M. Tumpey, C. B. Smith, M. W. Shaw, and K. Subbarao. 2000. “Molecular Correlates of Influenza a H5N1 Virus Pathogenesis in Mice.” Journal of Virology 74 (22): 10807–10810. https://doi.org/10.1128/jvi.74.22.10807-10810.2000.
   PubMed Web of Science ®Google Scholar
• Kongchanagul, A., O. Suptawiwat, P. Kanrai, M. Uiprasertkul, P. Puthavathana, and P. Auewarakul. 2008. “Positive Selection at the Receptor-Binding Site of Haemagglutinin H5 in Viral Sequences Derived from Human Tissues.” The Journal of General Virology 89 (8): 1805–1810. https://doi.org/10.1099/vir.0.2008/002469-0.
   PubMedGoogle Scholar
• Kuiken, T., R. Fouchier, G. Rimmelzwaan, J. Van Den Brand, D. Van Riel, and A. Osterhaus. 2011. “Pigs, Poultry, and Pandemic Influenza: How Zoonotic Pathogens Threaten Human Health.” Advances in Experimental Medicine and Biology 719:59–66. https://doi.org/10.1007/978-1-4614-0204-6_6.
   PubMed Web of Science ®Google Scholar
• Kwon, Y., A. Lipatov, and D. Swayne. 2009. “Bronchointerstitial Pneumonia in Guinea Pigs Following Inoculation with H5N1 High Pathogenicity Avian Influenza Virus Veterinary Pathology.” Veterinary Pathology 46 (1): 138–141. https://doi.org/10.1354/vp.46-1-138.
   PubMed Web of Science ®Google Scholar
• Lee, M. S., M. C. Deng, Y. J. Lin, C. Y. Chang, H. K. Shieh, J. Z. Shiau, and C. C. Huang. 2007. “Characterization of an H5N1 Avian Influenza Virus from Taiwan.” Veterinary Microbiology 124 (3–4): 193–201. https://doi.org/10.1016/j.vetmic.2007.04.021.
   PubMed Web of Science ®Google Scholar
• Lee, C.-W., and Y. M. Saif. 2009. “Avian Influenza Virus.” Comparative Immunology, Microbiology and Infectious Diseases 32 (4): 301–310. https://doi.org/10.1016/j.cimid.2008.01.007.
   PubMed Web of Science ®Google Scholar
• Leung, B. W., H. Chen, and G. G. Brownlee. 2010. “Correlation Between Polymerase Activity and Pathogenicity in Two Duck H5N1 Influenza Viruses Suggests That the Polymerase Contributes to Pathogenicity.” Virology 401 (1): 96–106. https://doi.org/10.1016/j.virol.2010.01.036.
   PubMed Web of Science ®Google Scholar
• Li, J., Y. Li, Y. Hu, G. Chang, W. Sun, Y. Yang, X. Kang, X. Wu, and Q. Zhu. 2011. “PB1-Mediated Virulence Attenuation of H5N1 Influenza Virus in Mice is Associated with PB2.” The Journal of General Virology 92 (6): 1435–1444. https://doi.org/10.1099/vir.0.030718-0.
   PubMedGoogle Scholar
• Lipatov, A. S., Y. K. Kwon, M. J. Pantin-Jackwood, and D. E. Swayne. 2009. “Pathogenesis of H5N1 Influenza Virus Infections in Mice and Ferret Models Differs According to Respiratory Tract or Digestive System Exposure.” The Journal of Infectious Diseases 199 (5): 717–725. https://doi.org/10.1086/596740.
   PubMed Web of Science ®Google Scholar
• Long, J. S., B. Mistry, S. M. Haslam, and W. S. J. J. O. V. Barclay. 2019. “Host and Viral Determinants of Influenza a Virus Species Specificity.” Nature Reviews Microbiology 17 (2): 67–81. https://doi.org/10.1038/s41579-018-0115-z.
   PubMed Web of Science ®Google Scholar
• Lowen, A. C., S. Mubareka, J. Steel, P. Palese, and R. S. Baric. 2007. “Influenza Virus Transmission is Dependent on Relative Humidity and Temperature.” PLoS Pathogens 3 (10): 1470–1476. https://doi.org/10.1371/journal.ppat.0030151.
   PubMed Web of Science ®Google Scholar
• Lycett, S. J., M. J. Ward, F. I. Lewis, A. F. Poon, S. L. Kosakovsky Pond, and A. J. Brown. 2009. “Detection of Mammalian Virulence Determinants in Highly Pathogenic Avian Influenza H5N1 Viruses: Multivariate Analysis of Published Data.” Journal of Virology 83 (19): 9901–9910. https://doi.org/10.1128/JVI.00608-09.
   PubMed Web of Science ®Google Scholar
• Maines, T. R., L.-M. Chen, N. Van Hoeven, T. M. Tumpey, O. Blixt, J. A. Belser, K. M. Gustin, M. B. Pearce, C. Pappas, and J. Stevens. 2011. “Effect of Receptor Binding Domain Mutations on Receptor Binding and Transmissibility of Avian Influenza H5N1 Viruses.” Virology 413 (1): 139–147. https://doi.org/10.1016/j.virol.2011.02.015.
   PubMed Web of Science ®Google Scholar
• Manzoor, R., Y. Sakoda, N. Nomura, Y. Tsuda, H. Ozaki, M. Okamatsu, and H. Kida. 2009. “PB2 Protein of a Highly Pathogenic Avian Influenza Virus Strain A/Chicken/Yamaguchi/7/2004 (H5N1) Determines Its Replication Potential in Pigs.” Journal of Virology 83 (4): 1572–1578. https://doi.org/10.1128/JVI.01879-08.
   PubMed Web of Science ®Google Scholar
• Marjuki, H., C. Scholtissek, J. Franks, N. J. Negovetich, J. R. Aldridge, R. Salomon, D. Finkelstein, and R. G. Webster. 2010. “Three Amino Acid Changes in PB1-F2 of Highly Pathogenic H5N1 Avian Influenza Virus Affect Pathogenicity in Mallard Ducks.” Archives of Virology 155 (6): 925–934. https://doi.org/10.1007/s00705-010-0666-4.
   PubMed Web of Science ®Google Scholar
• Matrosovich, M., A. Tuzikov, N. Bovin, A. Gambaryan, A. Klimov, M. R. Castrucci, I. Donatelli, and Y. Kawaoka. 2000. “Early Alterations of the Receptor-Binding Properties of H1, H2, and H3 Avian Influenza Virus Hemagglutinins After Their Introduction into Mammals.” Journal of Virology 74 (18): 8502–8512. https://doi.org/10.1128/jvi.74.18.8502-8512.2000.
   PubMed Web of Science ®Google Scholar
• Mcdermott, J. E., H. Shankaran, A. J. Eisfeld, S. E. Belisle, G. Neuman, C. LI, S. McWeeney, C. Sabourin, Y. Kawaoka, and M. G. Katze. 2011. “Conserved Host Response to Highly Pathogenic Avian Influenza Virus Infection in Human Cell Culture, Mouse and Macaque Model Systems.” BMC Systems Biology 5 (1): 190. https://doi.org/10.1186/1752-0509-5-190.
   PubMedGoogle Scholar
• Mertens, E., V. G. Dugan, T. B. Stockwell, L. L. Lindsay, M. Plancarte, and W. M. Boyce. 2013. “Evaluation of Phenotypic Markers in Full Genome Sequences of Avian Influenza Isolates from California.” Comparative Immunology, Microbiology and Infectious Diseases 36 (5): 521–536. https://doi.org/10.1016/j.cimid.2013.06.003.
   PubMed Web of Science ®Google Scholar
• Naughtin, M., J. C. Dyason, S. Mardy, S. Sorn, M. von Itzstein, and P. Buchy. 2011. “Neuraminidase Inhibitor Sensitivity and Receptor-Binding Specificity of Cambodian Clade 1 Highly Pathogenic H5N1 Influenza Virus.” Antimicrobial Agents and Chemotherapy 55 (5): 2004–2010. https://doi.org/10.1128/AAC.01773-10.
   PubMed Web of Science ®Google Scholar
• Pepin, K. M., S. Lass, J. R. Pulliam, A. F. Read, and J. O. Lloyd-Smith. 2010. “Identifying Genetic Markers of Adaptation for Surveillance of Viral Host Jumps.” Nature Reviews Microbiology 8 (11): 802–813. https://doi.org/10.1038/nrmicro2440.
   PubMed Web of Science ®Google Scholar
• Perry, B., K. M. Isa, and C. Tarazona. 2009. “Independent Evaluation of Fao’s Participatory Disease Surveillance and Response Programme in Indonesia.” Journal of FAO Evaluation Service 92.
   Google Scholar
• Rehman, S., M. H. Effendi, A. Shehzad, A. Rahman, J. Rahmahani, A. M. Witaningrum, and M. Bilal. 2022. “Prevalence and Associated Risk Factors of Avian Influenza a Virus Subtypes H5N1 and H9N2 in LBMs of East Java Province, Indonesia: A Cross-Sectional Study.” Journal of PeerJ 10:e14095. https://doi.org/10.7717/peerj.14095.
   Web of Science ®Google Scholar
• Rehman, S., R. R. Prasetya, K. Rahardjo, M. H. Effendi, F. A. Rantam, J. Rahmahani, A. M. Witaningrum, A. M. NastrI, J. R. Dewantari, and Y. Mori. 2023a. “Whole-Genome Sequence and Genesis of an Avian Influenza Virus H5N1 Isolated from a Healthy Chicken in a Live Bird Market in Indonesia: Accumulation of Mammalian Adaptation Markers in Avian Hosts.” Journal of PeerJ 11:e14917. https://doi.org/10.7717/peerj.14917.
   PubMed Web of Science ®Google Scholar
• Rehman, S., R. R. Prasetya, K. Rahardjo, M. H. Effendi, F. A. Rantam, J. Rahmahani, A. M. Witaningrum, A. M. NastrI, J. R. Dewantari, and Y. Mori. 2023b. “Whole-Genome Sequence and Genesis of an Avian Influenza Virus H5N1 Isolated from a Healthy Chicken in a Live Bird Market in Indonesia: Accumulation of Mammalian Adaptation Markers in Avian Hosts.” PeerJ 11:e14917. https://doi.org/10.7717/peerj.14917.
   PubMed Web of Science ®Google Scholar
• Rehman, S., A. Shehzad, L. D. Andriyani, M. H. EffendI, Z. U. Abadeen, M. I. Khan, and M. J. P. Bilal. 2023c. “A Cross-Sectional Survey of Avian Influenza Knowledge Among Poultry Farmworkers in Indonesia.” PeerJ 11:e14600. https://doi.org/10.7717/peerj.14600.
   PubMed Web of Science ®Google Scholar
• Reich, S., D. Guilligay, A. Pflug, H. Malet, I. Berger, T. Crépin, D. Hart, T. Lunardi, M. Nanao, and R. W. Ruigrok. 2014. “Structural Insight into Cap-Snatching and RNA Synthesis by Influenza Polymerase.” Nature 516 (7531): 361–366. https://doi.org/10.1038/nature14009.
   PubMed Web of Science ®Google Scholar
• Rimmelzwaan, G., T. Kuiken, G. Van Amerongen, T. Bestebroer, R. Fouchier, and A. Osterhaus. 2001. “Pathogenesis of Influenza a (H5N1) Virus Infection in a Primate Model.” Journal of Virology 75 (14): 6687–6691. https://doi.org/10.1128/JVI.75.14.6687-6691.2001.
   PubMed Web of Science ®Google Scholar
• Roos, R. 2012. “Fouchier Study Reveals Changes Enabling Airborne Spread of H5N1.” Center for Infectious Disease Research and Policy (CIDRAP) News, June 21:2012.
   Google Scholar
• Ruat, C., C. Caillet, A. Bidaut, J. Simon, and A. D. Osterhaus. 2008. “Vaccination of Macaques with Adjuvanted Formalin-Inactivated Influenza a Virus (H5N1) Vaccines: Protection Against H5N1 Challenge without Disease Enhancement.” Journal of Virology 82 (5): 2565–2569. https://doi.org/10.1128/JVI.01928-07.
   PubMed Web of Science ®Google Scholar
• Salomon, R., J. Franks, E. A. Govorkova, N. A. Ilyushina, H.-L. Yen, D. J. Hulse-Post, J. Humberd, M. Trichet, J. E. Rehg, and R. J. Webby. 2006. “The Polymerase Complex Genes Contribute to the High Virulence of the Human H5N1 Influenza Virus Isolate A/Vietnam/1203/04.” The Journal of Experimental Medicine 203 (3): 689–697. https://doi.org/10.1084/jem.20051938.
   PubMed Web of Science ®Google Scholar
• Schrauwen, E. J., and R. A. Fouchier. 2014. “Host Adaptation and Transmission of Influenza a Viruses in Mammals.” Emerging Microbes & Infections 3 (2): e9. https://doi.org/10.1038/emi.2014.9.
   PubMedGoogle Scholar
• Shaw, M., L. Cooper, X. Xu, W. Thompson, S. Krauss, Y. Guan, N. Zhou, et al. 2002. “Molecular Changes Associated with the Transmission of Avian Influenza a H5N1 and H9N2 Viruses to Humans.” Journal of Medical Virology 66 (1): 107–114. https://doi.org/10.1002/jmv.2118.
   PubMed Web of Science ®Google Scholar
• Shimizu, K., L. Wulandari, E. D. Poetranto, R. A. Setyoningrum, R. YudhawatI, A. Sholikhah, A. M. Nastri, A. L. Poetranto, A. Y. Candra, and E. F. Puruhito. 2016. “Seroevidence for a High Prevalence of Subclinical Infection with Avian Influenza a (H5N1) Virus Among Workers in a Live-Poultry Market in Indonesia.” The Journal of Infectious Diseases 214 (12): 1929–1936. https://doi.org/10.1093/infdis/jiw478.
   PubMed Web of Science ®Google Scholar
• Shinya, K., Y. Gao, C. Cilloniz, Y. Suzuki, M. Fujie, G. Deng, Q. Zhu, S. Fan, A. Makino, and Y. Muramoto. 2012. “Integrated Clinical, Pathologic, Virologic, and Transcriptomic Analysis of H5N1 Influenza Virus-Induced Viral Pneumonia in the Rhesus Macaque.” Journal of Virology 86 (11): 6055–6066. https://doi.org/10.1128/JVI.00365-12.
   PubMed Web of Science ®Google Scholar
• Short, K. R., M. Richard, J. H. Verhagen, D. Van Riel, E. J. Schrauwen, J. M. Van Den Brand, B. Mänz, R. Bodewes, and S. Herfst. 2015. “One Health, Multiple Challenges: The Inter-Species Transmission of Influenza a Virus.” One Health (Amsterdam, Netherlands) 1:1–13. https://doi.org/10.1016/j.onehlt.2015.03.001.
   PubMed Web of Science ®Google Scholar
• Steel, J., A. C. Lowen, S. Mubareka, P. Palese, and R. S. Baric. 2009. “Transmission of Influenza Virus in a Mammalian Host is Increased by PB2 Amino Acids 627K or 627E/701N.” PLoS Pathogens 5 (1): e1000252. https://doi.org/10.1371/journal.ppat.1000252.
   PubMed Web of Science ®Google Scholar
• Subbarao, K., and M. W. Shaw. 2000. “Molecular Aspects of Avian Influenza (H5N1) Viruses Isolated from Humans.” Reviews in Medical Virology 10 (5): 337–348. https://doi.org/10.1002/1099-1654(200009/10)10:5<337:AID-RMV292>3.0.CO;2-V.
   PubMed Web of Science ®Google Scholar
• Suzuki, Y., H. Kato, C. W. Naeve, and R. G. Webster. 1989. “Single-Amino-Acid Substitution in an Antigenic Site of Influenza Virus Hemagglutinin Can Alter the Specificity of Binding to Cell Membrane-Associated Gangliosides.” Journal of Virology 63 (10): 4298–4302. https://doi.org/10.1128/JVI.63.10.4298-4302.1989.
   PubMed Web of Science ®Google Scholar
• Taubenberger, J., and D. Morens. 2009. “Pandemic Influenza–Including a Risk Assessment of H5N1.” Revue scientifique et technique (International Office of Epizootics) 28 (1): 187–202. https://doi.org/10.20506/rst.28.1.1879.
   PubMed Web of Science ®Google Scholar
• Taubenberger, J. K., and D. M. Morens. 2010. “Influenza: The Once and Future Pandemic.” Public Health Reports 125 (3_suppl): 15–26. https://doi.org/10.1177/00333549101250S305.
   Google Scholar
• Taubenberger, J. K., A. H. Reid, R. M. Lourens, R. Wang, G. JIN, and T. G. Fanning. 2005. “Characterization of the 1918 Influenza Virus Polymerase Genes.” Nature 437 (7060): 889–893. https://doi.org/10.1038/nature04230.
   PubMed Web of Science ®Google Scholar
• Uyeki, T. M., J. M. Katz, and D. B. Jernigan. 2017. “Novel Influenza a Viruses and Pandemic Threats.” Lancet 389 (10085): 2172–2174. https://doi.org/10.1016/S0140-6736(17)31274-6.
   PubMed Web of Science ®Google Scholar
• Van Hoeven, N., J. A. Belser, K. J. Szretter, H. Zeng, P. Staeheli, D. E. Swayne, J. M. Katz, and T. M. Tumpey. 2009. “Pathogenesis of 1918 Pandemic and H5N1 Influenza Virus Infections in a Guinea Pig Model: Antiviral Potential of Exogenous Alpha Interferon to Reduce Virus Shedding.” Journal of Virology 83 (7): 2851–2861. https://doi.org/10.1128/JVI.02174-08.
   PubMed Web of Science ®Google Scholar
• Verhagen, J. H., P. Lexmond, O. Vuong, M. Schutten, J. Guldemeester, A. D. Osterhaus, A. R. Elbers, R. Slaterus, M. Hornman, and G. Koch. 2017. “Discordant Detection of Avian Influenza Virus Subtypes in Time and Space Between Poultry and Wild Birds; Towards Improvement of Surveillance Programs.” PloS One 12 (3): e0173470. https://doi.org/10.1371/journal.pone.0173470.
   PubMed Web of Science ®Google Scholar
• Vines, A., K. Wells, M. Matrosovich, M. R. Castrucci, T. Ito, and Y. Kawaoka. 1998. “The Role of Influenza a Virus Hemagglutinin Residues 226 and 228 in Receptor Specificity and Host Range Restriction.” Journal of Virology 72 (9): 7626–7631. https://doi.org/10.1128/JVI.72.9.7626-7631.1998.
   PubMed Web of Science ®Google Scholar
• Wang, W., B. Lu, H. Zhou, A. L. Suguitan Jr, X. Cheng, K. Subbarao, G. Kemble, and H. Jin. 2010. “Glycosylation at 158N of the Hemagglutinin Protein and Receptor Binding Specificity Synergistically Affect the Antigenicity and Immunogenicity of a Live Attenuated H5N1 A/Vietnam/1203/2004 Vaccine Virus in Ferrets.” Journal of Virology 84 (13): 6570–6577. https://doi.org/10.1128/JVI.00221-10.
   PubMed Web of Science ®Google Scholar
• Watanabe, Y., M. S. Ibrahim, H. F. Ellakany, N. Kawashita, R. Mizuike, H. Hiramatsu, N. Sriwilaijaroen, et al. 2011. “Acquisition of Human-Type Receptor Binding Specificity by New H5N1 Influenza Virus Sublineages During Their Emergence in Birds in Egypt.” PLoS Pathogens 7 (5): e1002068. https://doi.org/10.1371/journal.ppat.1002068.
   PubMed Web of Science ®Google Scholar
• Webster, R. G., W. J. Bean, O. T. Gorman, T. M. Chambers, and Y. Kawaoka. 1992. “Evolution and Ecology of Influenza a Viruses.” Microbiological Reviews 56 (1): 152–179. https://doi.org/10.1128/mr.56.1.152-179.1992.
   PubMedGoogle Scholar
• WHO 2014. “Cumulative Number of Confirmed Human Cases of Avian Influenza A/(H5N1) Reported to WHO.” Accessed March 2014. http://www.oie.int/wahis/public.php?page=home.
   Google Scholar
• WHO, 2015. Cumulative Number of Confirmed Human Cases for Avian Influenza a (H5N1) Reported to WHO, 2003–2015. J World Health Organization, Geneva, Switzerland.
   Google Scholar
• WHO, 2019. “Cumulative Number of Confirmed Human Cases for Avian Influenza a (H5N1) Reported to WHO, 2003–2019.” Accessed March 2018.
   Google Scholar
• WHO, 2021. Cumulative Number of Confirmed Human Cases for Avian Influenza a (H5N1) Reported to WHO, 2003‐2021. J WHO, Geneva, 3.
   Google Scholar
• Wu, W. L., Y. Chen, P. Wang, W. Song, S. Y. Lau, J. M. Rayner, G. J. Smith, et al. 2008. “Antigenic Profile of Avian H5N1 Viruses in Asia from 2002 to 2007.” Journal of Virology 82 (4): 1798–1807. https://doi.org/10.1128/JVI.02256-07.
   PubMed Web of Science ®Google Scholar
• Yamada, S., Y. Suzuki, T. Suzuki, M. Q. Le, C. A. Nidom, Y. Sakai-Tagawa, Y. Muramoto, M. Ito, M. Kiso, and T. J. N. Horimoto. 2006. “Haemagglutinin Mutations Responsible for the Binding of H5N1 Influenza a Viruses to Human-Type Receptors.” Nature 444 (7117): 378–382. https://doi.org/10.1038/nature05264.
   PubMed Web of Science ®Google Scholar
• Yen, H. L., J. R. Aldridge, A. C. Boon, N. A. Ilyushina, R. Salomon, D. J. Hulse-Post, H. Marjuki, et al. 2009. “Changes in H5N1 Influenza Virus Hemagglutinin Receptor Binding Domain Affect Systemic Spread.” Proceedings of the National Academy of Sciences of the United States of America 106 (1): 286–291. https://doi.org/10.1073/pnas.0811052106.
   PubMed Web of Science ®Google Scholar
• Yudhawati, R., R. R. Prasetya, J. R. Dewantari, A. M. Nastri, K. Rahardjo, A. N. Novianti, M. Amin, F. A. Rantam, E. Poetranto, and L. Wulandari. 2020. “Comparison of Virulence and Lethality in Mice for Two Avian Influenza A/H5N1 and One A/H3N6 Viruses Isolated from Poultry During 2013 to 2014 in Indonesia.” Japanese Journal of Infectious Diseases 73 (5): 336–342. https://doi.org/10.7883/yoken.JJID.2020.052.
   PubMed Web of Science ®Google Scholar