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                    U.S. DEPARTMENT OF AGRICULTURE
 Virus and Prion Research: Ames, IA
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ARS Home Midwest Area Ames, Iowa National Animal Disease Center Virus and Prion Research People & Locations







Tavis  Anderson
                        Virus and Prion Research

                        




                        
                        Research Biologist
                        Phone: (515) 337-6821
                        
                        
                        Fax: (Employee information on this page comes from the REE Directory. Please contact your front office staff to update the REE Directory.)
                            ProjectsOnline Algorithms to Identify Reassortment and Genetic Novelty in Genomic Influenza A Virus Surveillance Data
                                                    Cooperative Agreement
                                                                    (A)Accession Number: 444740Intervention Strategies to Control Endemic and New and Emerging Influenza A Virus Infections in Swine
                                                    In-House Appropriated
                                                                    (D)Accession Number: 441145USDA Influenza A Virus in Swine Surveillance System – Genomic Epidemiology and Evolution
                                                    Interagency Reimbursable Agreement
                                                                    (I)Accession Number: 444750The Study of Influenza A Viruses in the Swine Host
                                                    Interagency Reimbursable Agreement
                                                                    (I)Accession Number: 441001mRNA-LNP Vaccines for Pandemic Preparedness
                                                    Reimbursable Cooperative Agreement
                                                                    (R)Accession Number: 444776Evolution of Influenza A Virus in Swine in Brazil
                                                    Non-Assistance Cooperative Agreement
                                                                    (S)Accession Number: 438844Algorithms to Identify Novel Influenza A Viruses in Genomic Surveillance Data
                                                    Non-Assistance Cooperative Agreement
                                                                    (S)Accession Number: 442620Epidemiological Fitness Assessment of Segmented RNA Viruses
                                                    Non-Assistance Cooperative Agreement
                                                                    (S)Accession Number: 442875Characterization of Influenza at the Human and Swine Interface
                                                    Non-Assistance Cooperative Agreement
                                                                    (S)Accession Number: 444004**Publications**
                                                (Clicking on the reprint icon
                                                    Reprint Icon
                                                    will take you to the publication reprint.)Assessment of swine H1 strains reveals a potential pandemic risk of circulating a-H1N2 viruses

- (Peer Reviewed Journal)Divergent pathogenesis and transmission among avian and mammalian isolates of highly pathogenic avian influenza A (H5N1) in swine

- (Proceedings)Divergent Pathogenesis and Transmission of Highly Pathogenic Avian Influenza A(H5N1) in Swine
                                                        

- (Peer Reviewed Journal)Arruda, B.L., Baker, A.L., Devries, A.C., Anderson, T.K., Torachetti, M., Hines Bergeson, N., Killian, M.L., Lantz, K. 2024. Divergent pathogenesis and transmission among avian and mammalian isolates of highly pathogenic avian influenza A (H5N1) in swine. Emerging Infectious Diseases. https://doi.org/10.3201/eid3004.231141.Amino acid 138 in the HA of a H3N2 subtype influenza A virus increases affinity for the lower respiratory tract and alveolar macrophages in pigs
                                                        

- (Peer Reviewed Journal)Cardenas, M., Seibert, B., Cowan, B., Fraiha, A.S., Carnaccini, S., Gay, C.L., Faccin, F., Caceres, J.C., Anderson, T.K., Baker, A.L., Perez, D.R., Rajao, D.S. 2024. Amino acid 138 in the HA of a H3N2 subtype influenza A virus increases affinity for the lower respiratory tract and alveolar macrophages in pigs. PLoS Pathogens. https://doi.org/10.1371/journal.ppat.1012026.Nucleoprotein reassortment enhanced transmissibility of H3 1990.4.a clade influenza A virus in swine
                                                        

- (Peer Reviewed Journal)Thomas, M.N., Ciacci Zanella, G., Cowan, B., Caceres, J.C., Rajao, D.S., Perez, D.R., Gauger, P.C., Baker, A.L., Anderson, T.K. 2024. Nucleoprotein reassortment enhanced transmissibility of H3 1990.4.a clade influenza A virus in swine. Journal of Virology. https://doi.org/10.1128/jvi.01703-23.Asymmetric cluster-based measures for comparative phylogenetics
                                                        

- (Peer Reviewed Journal)Wagle, S., Markin, A., Gorecki, P., Anderson, T.K., Eulenstein, O. 2024. Asymmetric cluster-based measures for comparative phylogenetics. Journal of Computational Biology. https://doi.org/10.1089/cmb.2023.0338.classLog: Logistic regression for the classification of genetic sequences
                                                        

- (Peer Reviewed Journal)Zeller, M.A., Arendsee, Z.W., Smith, G.J., Anderson, T.K. 2023. classLog: Logistic regression for the classification of genetic sequences. Frontiers in Virology. https://doi.org/10.3389/fviro.2023.1215012.Refining PRRSV-2 genetic classification based on global ORF5 sequences and investigation of their geographic distributions and temporal changes
                                                        

- (Peer Reviewed Journal)Yim-Im, W., Anderson, T.K., Paploski, I.A., Vanderwaal, K., Gauger, P.C., Krueger, K., Shi, M., Main, R., Zhang, J. 2023. Refining PRRSV-2 genetic classification based on global ORF5 sequences and investigation of their geographic distributions and temporal changes. Microbiology Spectrum. https://doi.org/10.1128/spectrum.02916-23.Human-to-swine introductions and onward transmission of 2009 H1N1 pandemic influenza viruses in Brazil
                                                        

- (Peer Reviewed Journal)Junqueira, D.M., Tochetto, C., Anderson, T.K., Gava, D., Haach, V., Cantao, M.E., Baker, A.L., Schaefer, R. 2023. Human-to-swine introductions and onward transmission of 2009 H1N1 pandemic influenza viruses in Brazil. Frontiers in Microbiology. 14. https://doi.org/10.3389/fmicb.2023.1243567.Reverse-zoonoses of 2009 H1N1 pandemic influenza A viruses and evolution in United States swine results in viruses with zoonotic potential
                                                        

- (Peer Reviewed Journal)Markin, A., Ciacci Zanella, G., Arendsee, Z.W., Zhang, J., Krueger, K.M., Gauger, P.C., Baker, A.L., Anderson, T.K. 2023. Reverse-zoonoses of 2009 H1N1 pandemic influenza A viruses and evolution in United States swine results in viruses with zoonotic potential. PLoS Pathogens. 19(7). Article e1011476. https://doi.org/10.1371/journal.ppat.1011476.Mucin 4 is a cellular biomarker of necrotizing bronchiolitis in influenza A virus infection
                                                        

- (Peer Reviewed Journal)Arruda, B.L., Kanefsky, R.A., Hau, S.J., Janzen, G.M., Anderson, T.K., Baker, A.L. 2023. Mucin 4 is a cellular biomarker of necrotizing bronchiolitis in influenza A virus infection. Microbes and Infection. e105169. https://doi.org/10.1016/j.micinf.2023.105169.PARNAS: Objectively selecting the most representative taxa on a phylogeny
                                                        

- (Peer Reviewed Journal)Markin, A., Wagle, S., Grover, S., Baker, A.L., Eulenstein, O., Anderson, T.K. 2023. PARNAS: Objectively selecting the most representative taxa on a phylogeny. Systematic Biology. esyad028. https://doi.org/10.1093/sysbio/syad028.Phylogenetic diversity statistics for all clades in a phylogeny
                                                        

- (Peer Reviewed Journal)Grover, S., Markin, A., Anderson, T.K., Eulenstein, O. 2023. Phylogenetic diversity statistics for all clades in a phylogeny. Bioinformatics. 39(1):i177-i184. https://doi.org/10.1093/bioinformatics/btad263.The asymmetric cluster affinity cost
                                                        

- (Peer Reviewed Journal)Wagle, S., Markin, A., Gorecki, P., Anderson, T.K., Eulenstein, O. 2023. The asymmetric cluster affinity cost. Research Computational Molecular Biology (RECOMB). 13883:131-145. https://doi.org/10.1007/978-3-031-36911-7_9.Characterizing a century of genetic diversity and contemporary antigenic diversity of N1 neuraminidase in influenza A virus from North American swine
                                                        

- (Peer Reviewed Journal)Hufnagel, D.E., Young, K.M., Arendsee, Z., Gay, L.C., Caceres, C.J., Rajao, D., Perez, D.R., Baker, A.L., Anderson, T.K. 2023. Characterizing a century of genetic diversity and contemporary antigenic diversity of N1 neuraminidase in influenza A virus from North American swine. Virus Evolution. 9(1). Article 10.1093. https://doi.org/10.1093/ve/vead015.Introductions of human-origin seasonal H3N2, H1N2, and pre-2009 H1N1 influenza viruses to swine in Brazil
                                                        

- (Peer Reviewed Journal)Tochetto, C., Junqueira, D.M., Anderson, T.K., Gava, D., Haach, V., Cantao, M.E., Baker, A.L., Schaefer, R. 2023. Introductions of human-origin seasonal H3N2, H1N2, and pre-2009 H1N1 influenza viruses to swine in Brazil. Viruses. 15(2). Article 576. https://doi.org/10.3390/v15020576.Swine-to-ferret transmission of antigenically drifted contemporary swine H3N2 influenza A virus is an indicator of zoonotic risk to humans
                                                        

- (Peer Reviewed Journal)Souza, C.K., Kimble, J.B., Anderson, T.K., Arendsee, Z.W., Hufnagel, D.E., Young, K.M., Gauger, P.C., Lewis, N.S., Davis, C.T., Sharmi, T., Baker, A.L. 2023. Swine-to-ferret transmission of antigenically drifted contemporary swine H3N2 influenza A virus is an indicator of zoonotic risk to humans. Viruses. 15(2). Article 331. https://doi.org/10.3390/v15020331.Live attenuated influenza A virus vaccine expressing an IgA-inducing protein protects pigs against replication and transmission.
                                                        

- (Peer Reviewed Journal)Rajoa, D.S., Zanella, G.C., Brand, M.W., Khan, S., Miller, M.E., Ferreri, L.M., Caceres, C., Cadernas-Garcia, S., Souza, C.K., Anderson, T.K., Gauger, P.C., Baker, A.L., Perez, D.R. 2023. Live attenuated influenza A virus vaccine expressing an IgA-inducing protein protects pigs against replication and transmission.. Frontiers in Virology. 3. Article 1042724. https://doi.org/10.3389/fviro.2023.1042724.Fine-Scale Analysis of Influenza A Virus in Swine Reveals Persistent Clade Circulation and  Limited Clade Diversity within Owners

- (Proceedings)Arruda, B.L., Neveau, M., Baker, A.L., Anderson, T.K., De-Sousa-E-Silva, G., Gauger, P.C. 2023. Fine-Scale Analysis of Influenza A Virus in Swine Reveals Persistent Clade Circulation and  Limited Clade Diversity within Owners. American Association of Swine Veterinarians Annual Meeting. American Association of Swine Veterinarians Annual Meeting, March 4-7, 2023, Aurora, Colorado.smot: a python package and CLI tool for contextual phylogenetic subsampling
                                                        

- (Peer Reviewed Journal)Arendsee, Z.W., Baker, A.L., Anderson, T.K. 2022. smot: a python package and CLI tool for contextual phylogenetic subsampling. Journal of Open Source Software. 7(80). Article 4193. https://doi.org/10.21105/joss.04193.Swine influenza A viruses and pandemic preparedness

- (Peer Reviewed Journal)Anderson, T.K., Baker, A.L. 2022. Swine influenza A viruses and pandemic preparedness. Council for Agricultural Science and Technology Issue Paper. SP33:26-28.Interspecies transmission from pigs to ferrets of antigenically distinct swine H1 Influenza A viruses with reduced reactivity to candidate vaccine virus antisera as measures of relative zoonotic risk
                                                        

- (Peer Reviewed Journal)Kimble, J., Souza, C.K., Anderson, T.K., Arendsee, Z.W., Hufnagel, D.E., Young, K.M., Lewis, N.S., Davis, C., Thor, S., Baker, A.L. 2022. Interspecies transmission from pigs to ferrets of antigenically distinct swine H1 Influenza A viruses with reduced reactivity to candidate vaccine virus antisera as measures of relative zoonotic risk. Viruses. 14(11). Article 2398. https://doi.org/10.3390/v14112398.Antigenic characterization and pandemic risk assessment of North American H1 influenza A viruses circulating in swine
                                                        

- (Peer Reviewed Journal)Venkatesh, D., Anderson, T.K., Chang, J., Lopes, S., Kimble, B., Souza, C.K., Pekosz, A., Rothman, R.E., Chen, K., Baker, A.L., Lewis, N.S. 2022. Antigenic characterization and pandemic risk assessment of North American H1 influenza A viruses circulating in swine. Microbiology Spectrum. 10(6). Article e01781-22. https://doi.org/10.1128/spectrum.01781-22.Changes in the hemagglutinin and internal gene segments were needed for human seasonal H3 influenza A virus to efficiently infect and replicate in swine
                                                        

- (Peer Reviewed Journal)Rajao, D., Abente, E.J., Powell, J.D., Bolton, M.J., Gauger, P.C., Arruda, B.L., Anderson, T.K., Sutton, T., Perez, D.R., Baker, A.L. 2022. Changes in the hemagglutinin and internal gene segments were needed for human seasonal H3 influenza A virus to efficiently infect and replicate in swine. Pathogens. 11(9). Article 967. https://doi.org/10.3390/pathogens11090967.Bivalent hemagglutinin and neuraminidase influenza replicon particle vaccines protect pigs against influenza a virus without causing vaccine associated enhanced respiratory disease
                                                        

- (Peer Reviewed Journal)Wymore Brand, M., Anderson, T.K., Kitikoon, P., Kimble, B.J., Otis, N.J., Gauger, P.C., Souza, C.K., Kaplan, B.S., Mogler, M., Strait, E., Baker, A.L. 2022. Bivalent hemagglutinin and neuraminidase influenza replicon particle vaccines protect pigs against influenza a virus without causing vaccine associated enhanced respiratory disease. Vaccine. 40(38): 5569-5578. https://doi.org/10.1016/j.vaccine.2022.07.042.Characterizing a century of genetic and antigenic diversity of N1 neuraminidase in influenza A virus from North American swine

- (Abstract Only)David, H.E., Young, K.M., Arendsee, Z.W., Gay, C.L., Caceres, J.C., Rajao, D.S., Perez, D.R., Baker, A.L., Anderson, T.K. 2022. Characterizing a century of genetic and antigenic diversity of N1 neuraminidase in influenza A virus from North American swine (abstract). Centers of Excellence for Influenza Research and Response (CEIRR) annual meeting. p. 144.Machine learning for sequence classification and predicting antigenic phenotype

- (Abstract Only)Anderson, T.K., Baker, A.L. 2022. Machine learning for sequence classification and predicting antigenic phenotype (abstract). The 65th Annual Meeting of the American Association of Veterinary Laboratory Diagnosticians. p.6.Use of the ISU FLUture multisequence identity tool for rapid interpretation of swine influenza A virus sequences in the United States
                                                        

- (Peer Reviewed Journal)Zeller, M.A., Saxena, A., Anderson, T.K., Baker, A.L., Gauger, P.C. 2022. Use of the ISU FLUture multisequence identity tool for rapid interpretation of swine influenza A virus sequences in the United States. Journal of Veterinary Diagnostic Investigation. 34(5):874-878. https://doi.org/10.1177/10406387221111128.Characterization of Senecavirus A isolates collected from the environment of U.S. sow slaughter plants
                                                        

- (Peer Reviewed Journal)Hoffman, K., Humphrey, N., Korslund, J., Anderson, T.K., Faaberg, K., Lager, K.M., Devries, A.C. 2022. Characterization of Senecavirus A isolates collected from the environment of U.S. sow slaughter plants. Frontiers in Veterinary Science. 9. Article 923878. https://doi.org/10.3389/fvets.2022.923878.OFFLU Swine Influenza Report: July 2021 to December 2021

- (Government Publication)Markin, A., Hufnagel, D.E., Arendsee, Z., Snyder, C., Janas-Martindale, A., Inderski, B., Brown, I., Anderson, T.K., Lewis, N.S., Baker, A.L., Coggon, A., Sara, L., James, J., Mollet, B., Lewis, T. 2022. OFFLU Swine Influenza Report: July 2021 to December 2021. Technical report generated for the World Health Organization (WHO) Vaccine Consultation Meeting. p.62.Genetic and antigenic characterization of an expanding H3 influenza A virus clade in US swine visualized by Nextstrain
                                                        

- (Peer Reviewed Journal)Neveau, M.M., Zeller, M.A., Kaplan, B.S., Souza, C.K., Gauger, P.C., Baker, A.L., Anderson, T.K. 2022. Genetic and antigenic characterization of an expanding H3 influenza A virus clade in US swine visualized by Nextstrain. mSphere. 7(3). Article 00994-21. https://doi.org/10.1128/msphere.00994-21.Overview of recent USDA surveillance data

- (Proceedings)RF-Net 2: Fast inference of virus reassortment and hybridization networks
                                                        

- (Peer Reviewed Journal)Markin, A., Wagle, S., Anderson, T.K., Eulenstein, O. 2022. RF-Net 2: Fast inference of virus reassortment and hybridization networks. Bioinformatics. 38(8):2144-2152. Article btac075. https://doi.org/10.1093/bioinformatics/btac075.Characterization of a 2016-2017 human-seasonal H3 influenza A virus spillover now endemic to U.S. swine
                                                        

- (Peer Reviewed Journal)Sharma, A., Zeller, M.A., Souza, C.K., Anderson, T.K., Baker, A.L., Harmon, K., Li, G., Zhang, J., Gauger, P.C. 2022. Characterization of a 2016-2017 human-seasonal H3 influenza A virus spillover now endemic to U.S. swine. mSphere. 7(1). Article e00809-21. https://doi.org/10.1128/msphere.00809-21.The United States Swine Pathogen Database: Integrating veterinary diagnostic laboratory sequence data to monitor emerging pathogens of swine
                                                        

- (Peer Reviewed Journal)Anderson, T.K., Inderski, B., Diel, D.G., Hause, B.M., Porter, E., Clement, T., Nelson, E.A., Bai, J., Lager, K.M., Faaberg, K.S., Christopher-Hennings, J., Gauger, P.C., Zhang, J., Harmon, K.M., Main, R. 2021. The United States Swine Pathogen Database: Integrating veterinary diagnostic laboratory sequence data to monitor emerging pathogens of swine. Database: The Journal of Biological Databases and Curation. 2021. Article baab078. https://doi.org/10.1093/database/baab078.octoFLUshow: an interactive tool describing spatial and temporal trends in the genetic diversity of influenza A virus in U.S. swine
                                                        

- (Rapid Release Publication)Arendsee, Z.W., Chang, J., Hufnagel, D.E., Markin, A., Baker, A.L., Anderson, T.K. 2021. octoFLUshow: an interactive tool describing spatial and temporal trends in the genetic diversity of influenza A virus in U.S. swine. Microbiology Resource Announcements. 10(50). Article e01081-21. https://doi.org/10.1128/MRA.01081-21.Genetic and antigenic characterization of an expanding H3 influenza A virus clade in US swine visualized by Nextstrain
                                                        

- (Pre-print Publication)Neveau, M.N., Zeller, M.A., Kaplan, B.S., Souza, C.K., Gauger, P.C., Baker, A.L., Anderson, T.K. 2021. Genetic and antigenic characterization of an expanding H3 influenza A virus clade in US swine visualized by Nextstrain. bioRxiv. https://doi.org/10.1101/2021.11.17.469008.Antigenic distance between North American swine and human seasonal H3N2 influenza A viruses as an indication of zoonotic risk to humans
                                                        

- (Peer Reviewed Journal)Souza, C.K., Anderson, T.K., Chang, J., Venkatesh, D., Lewis, N.S., Pekosz, A., Shaw-Saliba, K., Rothman, R.E., Chen, K., Baker, A.L. 2022. Antigenic distance between North American swine and human seasonal H3N2 influenza A viruses as an indication of zoonotic risk to humans. Journal of Virology. 96(2). Article e01374-21. https://doi.org/10.1128/JVI.01374-21.Spatial and temporal coevolution of N2 neuraminidase and H1 and H3 hemagglutinin genes of influenza A virus in US swine
                                                        

- (Peer Reviewed Journal)Zeller, M.A., Chang, J., Baker, A.L., Gauger, P.C., Anderson, T.K. 2021. Spatial and temporal coevolution of N2 neuraminidase and H1 and H3 hemagglutinin genes of influenza A virus in US swine. Virus Evolution. 7(2). Article veab090. https://doi.org/10.1093/ve/veab090.Human-to-swine transmission and subsequent evolution of H1N1 pandemic 2009 lineage influenza A viruses in US swine

- (Abstract Only)Transmission bottlenecks during adaptation of human influenza A virus to pigs

- (Abstract Only)Evolution and antigenic advancement of N2 neuraminidase of swine influenza A viruses circulating in the United States following two separate introductions from human seasonal viruses
                                                        

- (Peer Reviewed Journal)Kaplan, B.S., Anderson, T.K., Chang, J., Santos, J., Perez, D., Lewis, N., Vincent, A.L. 2021. Evolution and antigenic advancement of N2 neuraminidase of swine influenza A viruses circulating in the United States following two separate introductions from human seasonal viruses. Journal of Virology. 95(20). https://journals.asm.org/doi/10.1128/JVI.00632-21.Tripal, a community update after 10 years of supporting open source, standards-based genetic, genomic and breeding databases
                                                        

- (Peer Reviewed Journal)Staton, M., Cannon, E.K., Sanderson, L., Wegrzyn, J., Buehler, S., Ficklin, S., Grau, E., Guignon, V., Gunoskey, J., Jung, S., Main, D., Poelchau, M.F., Ramnath, R., Cobo, I., Richter, P., West, J., Anderson, T.K., Inderski, B., Faaberg, K.S., Lager, K.M. 2021. Tripal, a community update after 10 years of supporting open source, standards-based genetic, genomic and breeding databases. Briefings in Bioinformatics. 22(6). https://doi.org/10.1093/bib/bbab238.Antigenic distance from human vaccine strains as a measure of risk to human populations from currently circulating North American swine H1 viruses

- (Abstract Only)Venkatesh, D., Kimble, B., Kunzler-Souza, C., Anderson, T.K., Chang, J., Detmer, S., Mena, I., Garcia-Sastre, A., Lewis, N., Vincent, A.L. 2021. Antigenic distance from human vaccine strains as a measure of risk to human populations from currently circulating North American swine H1 viruses [abstract]. Applied Bioinformatics and Public Health Microbiology Conference. P. none assigned.The United States Swine Pathogen Database: Integrating veterinary diagnostic laboratory sequence data to monitor emerging pathogens of swine
                                                        

- (Pre-print Publication)Anderson, T.K., Inderski, B., Diel, D.G., Hause, B.M., Porter, E., Clement, T., Nelson, E.A., Bai, J., Lager, K.M., Faaberg, K.S., Christopher-Hennings, J., Gauger, P.C., Zhang, J., Harmon, K.M., Main, R. 2021. The United States Swine Pathogen Database: Integrating veterinary diagnostic laboratory sequence data to monitor emerging pathogens of swine. bioRxiv. https://doi.org/10.1101/2021.04.16.439882.Genetic and antigenic characterization of the expanding H3 Cluster IV-A influenza A virus clade in US swine

- (Abstract Only)Neveau, M.N., Zeller, M.A., Souza, C.K., Gauger, P.C., Vincent, A.L., Anderson, T.K. 2021. Genetic and antigenic characterization of the expanding H3 Cluster IV-A influenza A virus clade in US swine [abstract].  Iowa State University Graduate and Professional Student Conference. P. none assigned.Human-to-swine spillovers of H3N2 influenza A virus detected in United States pigs in 2018-2019

- (Abstract Only)Powell, J.D., Zeller, M.A., Gauger, P.C., Anderson, T.K., Vincent, A.L. 2021. Human-to-swine spillovers of H3N2 influenza A virus detected in United States pigs in 2018-2019 [abstract].  American Society for Virology Meeting. Talk no. W21-6.Inference of Reticulations in Phylogenetic Networks

- (Abstract Only)Wagle, S., Markin, A., Anderson, T.K., Eulenstein, O. 2021. Inference of Reticulations in Phylogenetic Networks [abstract]. Annual Bioinformatics and Computational Biology Symposium. P. none assigned.Genetic and antigenic characterization of the expanding H3 Cluster IV-A influenza A virus clade in US swine

- (Abstract Only)Neveau, M.N., Zeller, M.A., Zouza, C.K., Gauder, P.C., Vincent, A.L., Anderson, T.K. 2021. Genetic and antigenic characterization of the expanding H3 Cluster IV-A influenza A virus clade in US swine [abstract]. Annual Bioinformatics and Computational Biology Symposium. P. none assigned.OFFLU Animal Influenza Report: July 2020 to December 2020

- (Government Publication)Arendsee, Z., Young, K., Hufnagel, D.E., Markin, A., Kimble, B., Kunzler-Souza, C., Brown, I., Lewis, N., Anderson, T.K., Vincent, A.L. 2021. OFFLU Animal Influenza Report: July 2020 to December 2020 [Abstract]. Technical report generated for the World Health Organization (WHO) Vaccine Consultation Meeting (VCM).Machine learning prediction and experimental validation of antigenic drift in H3 influenza A viruses in swine
                                                        

- (Peer Reviewed Journal)Zeller, M.A., Gauger, P.C., Arendsee, Z.W., Souza, C.K., Vincent, A.L., Anderson, T.K. 2021. Machine learning prediction and experimental validation of antigenic drift in H3 influenza A viruses in swine. mSphere. 6(2). https://doi.org/10.1128/mSphere.00920-20.Comparative virulence and genomic analysis of streptococcus suis isolates
                                                        

- (Peer Reviewed Journal)Nicholson, T.L., Waack, U., Anderson, T.K., Bayles, D.O., Zaia, S.R., Goertz, I., Eppinger, M., Hau, S.J., Brockmeier, S., Shore, S. 2021. Comparative virulence and genomic analysis of streptococcus suis isolates. Frontiers in Microbiology. 11. Article 620843. https://doi.org/10.3389/fmicb.2020.620843.Characterization of contemporary 2010.1 H3N2 swine influenza A viruses circulating in United States pigs
                                                        

- (Peer Reviewed Journal)Powell, J.D., Abente, E.J., Chang, J., Souza, C.K., Rajao, D.S., Anderson, T.K., Zeller, M.A., Gauger, P.C., Lewis, N.S., Vincent, A.L. 2021. Characterization of contemporary 2010.1 H3N2 swine influenza A viruses circulating in United States pigs. Virology. 553:94-101. https://doi.org/10.1016/j.virol.2020.11.006.Cross-reactivity of contemporary US swine H1NX viruses to current seasonal and candidate vaccine viruses as a measure of risk to humans

- (Abstract Only)Kimble, B.J., Souza, C.K., Anderson, T.K., Hufnagel, D.E., Arendsee, Z.W., Young, K.M., Lewis, N.S., Davis, T.C., Vincent, A.L. 2021. Cross-reactivity of contemporary US swine H1NX viruses to current seasonal and candidate vaccine viruses as a measure of risk to humans. Centers of Excellence for Influenza Research and Surveillance Annual Network Meeting [abstract]. Poster No. 74.Antigenic characterization of contemporary US swine H3N2 strains and transmission from swine to ferrets as an indication of risk to humans

- (Abstract Only)Souza, K, C., Kimble, B.J., Anderson, T.K., Arendsee, Z.W., Hufnagel, D.E., Young, K.M., Lewis, N.S., Davis, T.C., Vincent, A.L. 2021. Antigenic characterization of contemporary US swine H3N2 strains and transmission from swine to ferrets as an indication of risk to humans [Abstract]. 2021 Centers of Excellence for Influenza Research and Surveillance Annual Network Meeting. Poster no. 76.N1 neuraminidase evolution and reassortment of influenza A virus in US swine

- (Abstract Only)Hufnagel, D.E., Arendsee, Z.W., Vincent, A.L., Anderson, T.K. 2020. N1 neuraminidase evolution and reassortment of influenza A virus in US swine [abstract]. Centers of Excellence for Influenza Research and Surveillance Annual Network Meeting. Poster No. 109.Visualizing spatial and temporal trends in influenza A virus in US swine with octoFLUshow

- (Abstract Only)Arendsee, Z.W., Chang, J., Hufnagel, D.E., Anderson, T.K., Vincent, A.L. 2021. Visualizing spatial and temporal trends in influenza A virus in US swine with octoFLUshow[abstract]. 2021 Centers of Excellence for Influenza Research and Surveillance Annual Network Meeting. Poster No. 101.Increased H3 Cluster IV-A influenza A virus detection in US swine is associated with reassortment and antigenic drift

- (Abstract Only)Neveau, M.N., Zeller, M.A., Gauger, P.C., Vincent, A.L., Anderson, T.K. 2021. Increased H3 Cluster IV-A influenza A virus detection in US swine is associated with reassortment and antigenic drift [abstract]. Centers of Excellence for Influenza Research and Surveillance Annual Network Meeting. Poster No. 114.OFFLU animal influenza report: February 2020 to September 2020

- (Government Publication)Anderson, T.K., Arendsee, Z.W., Hufnagel, D., Young, K., Souza, C.K., Kimble, B., Brown, I., Essen, S., Lewis, N., Vincent, A.L., Collins, S., Byrne, A., Patapiou, P. 2020. OFFLU animal influenza report: February 2020 to September 2020. World Health Organization. p. 58.Aerosol transmission from infected swine to ferrets of a swine H3N2 virus collected from an agricultural fair and associated with human variant infections
                                                        

- (Peer Reviewed Journal)Kaplan, B.S., Kimble, J.B., Chang, J., Anderson, T.K., Gauger, P., Janas-Martindale, A., Killian, M., Bowman, A.S., Vincent, A.L. 2020. Aerosol transmission from infected swine to ferrets of a swine H3N2 virus collected from an agricultural fair and associated with human variant infections. Journal of Virology. https://doi.org//10.1128/JVI.01009-20.Comparative virulence and genomic analysis of streptococcus suis isolates

- (Abstract Only)OFFLU Animal Influenza Report: September 2019 to February 2020

- (Government Publication)Anderson, T.K., Arendsee, Z., Chang, J., Kimble, B., Kunzler-Souza, C., Brown, I., Essen, S., Collins, S., Lewis, N., Vincent, A.L., Venkatesh, D. 2020. OFFLU Animal Influenza Report: September 2019 to February 2020. World Health Organization. p. 1-60.Influenza A virus field surveillance at a swine-human interface
                                                        

- (Peer Reviewed Journal)Rambo-Martin, B.L., Keller, M.W., Wilson, M.M., Nolting, J.M., Anderson, T.K., Vincent, A.L., Bagal, U., Jang, Y., Neuhaus, E.B., Davis, C.T., Bowman, A.A., Wentworth, D.E., Barnes, J.R. 2020. Influenza A virus field surveillance at a swine-human interface. mSphere. 5(1):e00822-19. https://doi.org/10.1128/mSphere.00822-19.The United States swine pathogen database: integrating diagnostic sequence data of emerging pathogens of swine

- (Abstract Only)Inderski, B., Anderson, T.K., Faaberg, K.S. 2020. The United States swine pathogen database: integrating diagnostic sequence data of emerging pathogens of swine [abstract]. The International Plant and Animal Genome XXVIII Conference. Abstract No. W1097.Diagnostic detection of live attenuated influenza virus vaccine virus and evidence of reassortment in United States swine
                                                        

- (Peer Reviewed Journal)Sharma, A., Zeller, M.A., Li, G., Harmon, K., Zhang, J., Hoang, H., Anderson, T.K., Vincent, A.L., Gauger, P.C. 2020. Detection of live attenuated influenza vaccine virus and evidence of reassortment in U.S. swine population. Journal of Veterinary Diagnostic Investigation. 32(2):301-311. https://doi.org/10.1177/1040638720907918.Swine influenza A viruses and the tangled relationship with humans
                                                        

- (Book / Chapter)Anderson, T.K., Chang, J., Arendsee, Z., Vekatesh, D., Souza, C.K., Kimble, B., Lewis, N., Davis, C., Vincent, A.L. 2020. Swine influenza A viruses and the tangled relationship with humans. In:Neumann, G. , Kawaoka, Y., editors. Influenza: The Cutting Edge. Cold Spring Harbor Perspectives in Medicine. Cold Spring Harbor Laboratory Press.10(7):p.a038737. https://doi.org/10.1101/cshperspect.a038737.Ten years after the 2009 H1N1 pandemic – what have we learned about the swine-human interface of influenza?

- (Abstract Only)Vincent, A.L., Anderson, T.K., Chang, J., Arendsee, Z.W., Venkatesh, D., Souza, C.K., Kimble, B.J., Lewis, N.S., Davis, T. 2019. Ten years after the 2009 H1N1 pandemic – what have we learned about the swine-human interface of influenza? [abstract]. The 100th Annual Conference of Research Workers in Animal Diseases (CRWAD),2019t. Abstract No. 103.An overview of research at the National Animal Disease Center on endemic and emerging viral diseases of swine

- (Abstract Only)Anderson, T.K., Buckley, A.C., Miller, L.C., Fleming, D.S., Inderski, B., Lager, K.M., Faaberg, K.S. 2019. An overview of research at the National Animal Disease Center on endemic and emerging viral diseases of swine. Meeting Abstract. p. 80.OFFLU animal influenza report: February 2019-September 2019

- (Government Publication)Anderson, T.K., Arendsee, Z., Chang, J., Kimble, B., Kunzler-Souza, C., Brown, I., Essen, S., Colins, S., Lewis, N., Vincent, A.L., Venkatesh, D. 2019. OFFLU animal influenza report: February 2019-September 2019. World Health Organization. p. 1-7.PhyloVirus: Inferring virus reassortment and recombination, and a visualization tool for phylogenetic networks

- (Abstract Only)Mubaraki, F., Anderson, T.K., Markin, A., Miller, L., Eulenstein, O. 2019. PhyloVirus: Inferring virus reassortment and recombination, and a visualization tool for phylogenetic networks [abstract].The 100th Annual Conference of Research Workers in Animal Diseases.Abstract No. 182.The status of PRRSV in North America and the influence of vaccines

- (Abstract Only)Evolutionary diversification of clade 1A.3.3.3 H1 swine influenza A viruses and zoonotic risk in the United States

- (Abstract Only)Anderson, T.K., Hewitt, K.F., Chang, J., Zeller, M.A., Venkatesh, D., Lewis, N.S., Vincent, A.L. 2019. Evolutionary diversification of clade 1A.3.3.3 H1 swine influenza A viruses and zoonotic risk in the United States [abstract]. Conference of Research Workers in Animal Diseases. Abstract No. 181.Characterization of a novel human seasonal H3 influenza A virus spillover endemic in US swine

- (Abstract Only)Sharma, A., Zeller, M.A., Anderson, T.K., Vincent, A.L., Harmon, K., Li, G., Zhang, J., Gauger, P.C. 2019. Characterization of a novel human seasonal H3 influenza A virus spillover endemic in US swine [abstract]. Conference of Research Workers in Animal Diseases . Abstract No. P178.OctoFlu: Automated classification of influenza A virus gene sequences detected in U.S. swine to evolutionary origin
                                                        

- (Peer Reviewed Journal)Chang, J., Anderson, T.K., Zeller, M.A., Gauger, P.C., Vincent, A.L. 2019. OctoFlu: Automated classification of influenza A virus gene sequences detected in U.S. swine to evolutionary origin. Microbiology Resource Announcements. 8(32):e00673-19. https://doi.org/10.1128/MRA.00673-19.Comparison of multilocus sequence types found among recent North American isolates of Mycoplasma bovis from cattle, bison and deer
                                                        

- (Peer Reviewed Journal)Register, K.B., Jelinski, M., Waldner, M., Boatwright Jr, W.D., Anderson, T.K., Hunter, D., Hamilton, R., Burrage, P., Shury, T., Bildfell, R., Wolff, P., Miskimins, D., Derscheid, R., Woodbury, M. 2019. Comparison of multilocus sequence types found among North American isolates of Mycoplasma bovis from cattle, bison and deer, 2007-2017. Journal of Veterinary Diagnostic Investigation. 31(6):899-904. https://doi.org/10.1177/1040638719874848.An automated annotation tool and unified nomenclature system for H3 hemagglutinin genes from swine influenza A viruses

- (Abstract Only)Mitigating pandemic risk with influenza A virus field surveillance: mia (mobile influenza analysis)

- (Abstract Only)Barnes, J.R., Rambo-Martin, B.L., Keller, M.W., Wilson, M.M., Nolting, J.M., Anderson, T.K., Bagal, U., Jang, Y., Davis, C.T., Bowman, A.A., Wentworth, D.E., Vincent, A.L. 2019. Mitigating pandemic risk with influenza A virus field surveillance: mia (mobile influenza analysis) [abstract]. Options for the Control of Influenza Conference. Abstract No. 10960.Characterization of a novel human seasonal H3 influenza A virus spillover that is now endemic in US swine

- (Abstract Only)Sharma, A., Zeller, M., Anderson, T.K., Vincent, A.L., Harmon, K., Li, G., Zhang, J., Gauger, P.C. 2019. Characterization of a novel human seasonal H3 influenza A virus spillover that is now endemic in US swine [abstract]. American Association of Veterinary Laboratory Diagnosticians Annual Meeting. p. 13.An automated annotation tool and unified nomenclature system for H3 hemagglutinin genes from swine influenza A viruses

- (Abstract Only)Anderson, T.K., Zhang, Y., Macken, C.A., Swine Flu Work Group, Scheuermann, R.H., Vincent, A.L. 1019. An automated annotation tool and unified nomenclature system for H3 hemagglutinin genes from swine influenza A viruses [abstract].  Centers of Excellence for Influenza Research and Surveillance. Abstract No. 42.Antigenic differences between the two N2 neuraminidase lineages of North American swine influenza A viruses

- (Abstract Only)Kaplan, B.S., Anderson, T.K., Santos, J., Perez, D., Lewis, N., Vincent, A.L. 2019. Antigenic differences between the two N2 neuraminidase lineages of North American swine influenza A viruses [abstract]. p. none assigned.Antigenic differences between the two N2 neuraminidase lineages of North American swine influenza A viruses

- (Abstract Only)Kaplan, B.S., Anderson, T.K., Santos, J., Perez, D., Lewis, N., Vincent, A.L. 2019. Antigenic differences between the two N2 neuraminidase lineages of North American swine influenza A viruses [abstract]. CEIRS Network Meeting.  p. none assigned.Spatial and temporal patterns of swine IAV gene constellations and reassortment in the USA from 2009 to 2019

- (Abstract Only)Chang, J., Anderson, T.K., Vincent, A.L. 2019. Spatial and temporal patterns of swine IAV gene constellations and reassortment in the USA from 2009 to 2019 [abstract] . CEIRS Network Meeting. p. none assigned.Antigenic distance of North American swine influenza A virus (H3N2) and human seasonal vaccine strains as an indication of risk to human populations

- (Abstract Only)Souza, C.K., Venkatesh, D., Anderson, T.K., Chang, J., Lewis, N.S., Detmer, S.E., Mena, I., Culhane, M., Nelson, M., Garcia-Sastre, A., Vincent, A.L. 2019. Antigenic distance of North American swine influenza A virus (H3N2) and human seasonal vaccine strains as an indication of risk to human populations. CEIRS Annual Network Meeting [abstract].  p. none assigned.Molecular determinants facilitating sustained interspecies transmission of human H3N2 influenza A virus in United States pigs

- (Abstract Only)Powell, J.D., Abente, E.J., Souza, C.K., Chang, J., Rajao, D.S., Anderson, T.K., Vincent, A.L. 2019. Molecular determinants facilitating sustained interspecies transmission of human H3N2 influenza A virus in United States pigs [abstract]. Centers of Excellence Influenza Research and Surveillance (CEIRS) meeting. p. none assigned.A brief introduction to influenza A virus in swine
                                                        

- (Book / Chapter)Vincent, A.L., Anderson, T.K., Lager, K.M. 2020. A brief introduction to influenza A virus in swine. Animal Influenza Virus. p. 249-271. https://doi.org/10.1007/978-1-0716-0346-8_18.Comparison of Multilocus Sequence Types Found Among Recent North American Isolates of Mycoplasma bovis from Cattle, Bison and Deer

- (Abstract Only)Swine influenza A viruses: quantifying genetic diversity with phylogenetics and the octoFLU pipeline

- (Proceedings)Anderson, T.K., Chang, J., Arendsee, Z.W., Vincent, A.L. 2020. Swine influenza A viruses: quantifying genetic diversity with phylogenetics and the octoFLU pipeline. Proceedings of American Association of Swine Veterinarians Annual Meeting. Seminar No. 9.Complete genome sequences of two novel human-like H3N2 influenza A viruses A/swine/Oklahoma/65980/2017(H3N2) and A/swine/Oklahoma/65260/2017(H3N2) detected in swine in the United States
                                                        

- (Peer Reviewed Journal)Zeller, M.A., Li, G., Harmon, K.M., Zhang, J., Vincent, A.L., Anderson, T.K., Gauger, P.C. 2018. Complete genome sequences of two novel human-like H3N2 influenza A viruses A/swine/Oklahoma/65980/2017(H3N2) and A/swine/Oklahoma/65260/2017(H3N2) detected in swine in the United States. Microbiology Resource Announcements. 7(20):e01203-18. https://doi.org/10.1128/MRA.01203-18.N2 NA and HA coordinated evolution increases influenza A virus genetic diversity in swine

- (Abstract Only)Zeller, M.A., Anderson, T.K., Vincent, A.L., Gauger, P.C. 2018. N2 NA and HA coordinated evolution increases influenza A virus genetic diversity in swine [abstract]. Research Workers in Animal Diseases Conference Proceedings. p. none assigned.Spatial and temporal patterns of swine IAV gene constellations in the USA from 2010 to 2018

- (Abstract Only)Chang, J., Anderson, T.K., Vincent, A.L. 2018. Spatial and temporal patterns of swine IAV gene constellations in the USA from 2010 to 2018 [abstract]. Research Workers in Animal Diseases Conference Proceedings. p. none assigned.ISU FLUture: a veterinary diagnostic laboratory web-based platform to monitor the temporal genetic patterns of influenza A virus in swine
                                                        

- (Peer Reviewed Journal)Zeller, M.A., Anderson, T.K., Walia, R.W., Vincent, A.L., Gauger, P.C. 2018. ISU FLUture: a veterinary diagnostic laboratory web-based platform to monitor the temporal genetic patterns of influenza A virus in swine. BMC Bioinformatics. 19:397. https://doi.org/10.1186/s12859-018-2408-7.The United States Swine Pathogen Database: integrating veterinary diagnostic laboratory sequence data to monitor emerging pathogens of swine

- (Abstract Only)Anderson, T.K., Inderski, B., Diel, D.G., Porter, E., Clement, T., Nelson, E.A., Bai, J., Christopher-Hennings, J., Lager, K.M., Faaberg, K.S. 2018. The United States Swine Pathogen Database: integrating veterinary diagnostic laboratory sequence data to monitor emerging pathogens of swine [abstract]. Research Workers in Animal Diseases Conference Proceedings. Abstract No. 199.The United States Swine Pathogen Database: integrating veterinary diagnostic laboratory sequence data to monitor emerging pathogens of swine

- (Abstract Only)Anderson, T.K., Inderski, B., Diel, D.G., Porter, E., Clement, T., Nelson, E.A., Bai, J., Christopher-Hennings, J., Lager, K.M., Faaberg, K.S. 2018. The United States Swine Pathogen Database: integrating veterinary diagnostic laboratory sequence data to monitor emerging pathogens of swine [abstract]. North American Porcine Reproductive and Respiratory Syndrome (NA-PRRS) Symposium. Abstract No. 199.Antigenic evolution of H3N2 influenza A viruses in swine in the United States, 2012–16
                                                        

- (Peer Reviewed Journal)Bolton, M.J., Abente, E.J., Venkatesh, D., Stratton, J.A., Zeller, M., Anderson, T.K., Lewis, N.S., Vincent, A.L. 2018. Antigenic evolution of H3N2 influenza A viruses in swine in the United States from 2012–2016. Influenza and Other Respiratory Viruses. 13:83-90. https://doi.org/10.1111/irv.12610.Comparative genomic and virulence analysis of Streptococcus suis isolates

- (Abstract Only)Regional Patterns of Genetic Diversity in Swine Influenza A Viruses in The United States From 2010 to 2016
                                                        

- (Peer Reviewed Journal)Walia, R.R., Anderson, T.K., Vincent, A.L. 2018. Regional patterns of genetic diversity in swine influenza A viruses in the United States from 2010 to 2016. Influenza and Other Respiratory Viruses. https://doi.org/10.1111/irv.12559.An automated annotation tool and unified nomenclature system for H3 hemagglutinin genes from swine influenza A viruses

- (Abstract Only)Anderson, T.K., Zhang, Y., Macken, C.A., Offlu Swine, I., Scheuermann, R.H., Vincent, A.L. 2018. An automated annotation tool and unified nomenclature system for H3 hemagglutinin genes from swine influenza A viruses [abstract].International Symposium on Neglected Influenza Viruses. Abstract No. P2.The other influenza surface glycoprotein: probing the antigenic differences between N2 neuraminidase lineages of North American swine influenza a viruses

- (Abstract Only)Kaplan, B.S., Anderson, T.K., Santos, J., Perez, D., Lewis, N., Vincent, A.L. 2018. The other influenza surface glycoprotein: probing the antigenic differences between N2 neuraminidase lineages of North American swine influenza a viruses [abstract]. International Symposium on Neglected Influenza Viruses. Abstract No. O16.Antigenic distance of swine H3N2 and human seasonal strains as an indication of risk to human populations

- (Abstract Only)Souza, C.K., Anderson, T.K., Venkatesh, D., Bolton, M., Abente, E.J., Lewis, N., Vincent, A.L. 2018. Antigenic distance of swine H3N2 and human seasonal strains as an indication of risk to human populations [abstract]. International Symposium on Neglected Influenza Viruses.  Abstract No. P23.Pathogenesis and transmission in the swine host of influenza A viruses with dominant H1 genome constellations found in U.S. swine herds

- (Abstract Only)Souza, C.K., Anderson, T.K., Kaplan, B.S., Gauger, P.C., Abente, E.J., Vincent, A.L. 2018. Pathogenesis and transmission in the swine host of influenza A viruses with dominant H1 genome constellations found in U.S. swine herds [abstract]. International Symposium on Neglected Influenza Viruses. Abstract No.O10.Antigenic and genetic evolution of contemporary swine H1 influenza viruses in the United States
                                                        

- (Peer Reviewed Journal)Rajao, D.S., Anderson, T.K., Kitikoon, P., Stratton, J., Lewis, N.S., Vincent, A.L. 2018. Antigenic and genetic evolution of contemporary swine H1 influenza viruses in the United States. Virology. 518:45-54. https://doi.10.1016/j.virol.2018.02.006.Porcine reproductive and respiratory disease virus: evolution and recombination yields distinct ORF5 RFLP 1-7-4 viruses with individual pathogenicity

- (Peer Reviewed Journal)van Geelen, A.G.M., Anderson, T.K., Lager, K.M., Das, P.B., Otis, N.J., Montiel, N.A., Miller, L.C., Kulshreshtha, V., Buckley, A.C., Brockmeier, S.L., Zhang, J., Gauger, P.C., Harmon, K.M., Faaberg, K.S. 2018. Porcine reproductive and respiratory disease virus: evolution and recombination yields distinct ORF5 RFLP 1-7-4 viruses with individual pathogenicity. Virology. 513:168-179.The genomic evolution of H1 influenza A viruses from swine detected in the United States between 2009 and 2016

- (Peer Reviewed Journal)Gao, S., Anderson, T.K., Walia, R.R., Dorman, K.S., Janas-Martindale, A., Vincent, A.L. 2017. The genomic evolution of H1 influenza A viruses from swine detected in the United States between 2009 and 2016. Journal of General Virology. 98(8):2001-2010.Influenza A (H3N2) virus in swine at agricultural fairs and transmission to humans, Michigan and Ohio, USA, 2016
                                                        

- (Peer Reviewed Journal)Bowman, A.S., Walia, R.R., Nolting, J.M., Vincent, A.L., Killian, M.L., Zentkovich, M.M., Lorbach, J.N., Lauterbach, S.E., Anderson, T.K., Davis, C.T., Zanders, N., Jones, J., Yang, Y., Lynch, B., Rodriguez, M.R., Blanton, L., Lindstrom, S.E., Wentworth, D.E., Schiltz, J., Averill, J.J., Forshey, T. 2017. Influenza A (H3N2) virus in swine at agricultural fairs and transmission to humans, Michigan and Ohio, USA, 2016. Emerging Infectious Diseases. 23(9):1551-1555. https://doi.org/10.3201/eid2309.170847.A highly pathogenic avian influenza virus H5N1 with 2009 pandemic H1N1 internal genes demonstrated increased replication and transmission in pigs

- (Peer Reviewed Journal)Abente, E.J., Kitikoon, P., Lager, K.M., Gauger, P.C., Anderson, T.K., Vincent, A.L. 2017. A highly pathogenic avian-derived influenza virus H5N1 with 2009 pandemic H1N1 internal genes demonstrates increased replication and transmission in pigs. Journal of General Virology. 98(1):18-30.The future of influenza A virus vaccines for swine

- (Review Article)Vincent, A.L., Perez, D.R., Rajao, D., Anderson, T.K., Abente, E.J., Walia, R.R., Lewis, N.S. 2016. Influenza A virus vaccines for swine. Veterinary Microbiology. 206:35-44.A phylogeny-based global nomenclature system and automated annotation tool for H1 hemagglutinin genes from swine influenza A viruses

- (Peer Reviewed Journal)Anderson, T.K., Macken, C.A., Lewis, N.S., Scheuermann, R.H., Van Reeth, K., Brown, I.H., Swenson, S.L., Simon, G., Saito, T., Berhane, Y., Ciacci-Zanella, J., Pereda, A., Davis, C.T., Donis, R.O., Webby, R.J., Vincent, A.L. 2016. A phylogeny-based global nomenclature system and automated annotation tool for H1 hemagglutinin genes from swine influenza A viruses. mSphere. 1(6):e00275-16. doi:10.1128/mSphere.00275-16.Influenza research database: an integrated bioinformatics resource for influenza virus research

- (Peer Reviewed Journal)Zhang, Y., Aevermann, B., Anderson, T.K., Burke, D.F., Dauphin, G., Gu, Z., He, S., Kumar, S., Larsen, C.N., Lee, A.J., Li, X., Macken, C., Mahaffey, C., Pickett, B.E., Reardon, B., Smith, T., Stewart, L., Suloway, C., Sun, G., Tong, L., Vincent, A.L., Walters, B., Zaremba, S., Zhao, H., Zhou, L., Zmasek, C., Klem, E.B., Scheuermann, R.H. 2017. Influenza research database: an integrated bioinformatics resource for influenza virus research. Nucleic Acids Research. 45(D1):D466-D474. doi:10.1093/nar/gkw857.The genetic diversity of contemporary swine influenza A viruses in the United States

- (Popular Publication)Walia, R.R., Anderson, T.K., Vincent, A.L. 2016. The genetic diversity of contemporary swine influenza A viruses in the United States. Available: https://www.pig333.com/swine-influenza/.The molecular determinants of antibody recognition and antigenic drift in the H3 hemagglutinin of swine influenza A virus

- (Peer Reviewed Journal)Abente, E.J., Santos, J., Lewis, N.S., Gauger, P.C., Stratton, J., Skepner, E., Anderson, T.K., Rajao, D.S., Perez, D.R., Vincent, A.L. 2016. The molecular determinants of antibody recognition and antigenic drift in the H3 hemagglutinin of swine influenza A virus. Journal of Virology. 90(18):8266-8280.The avian-origin H3N2 canine influenza virus has limited replication in swine

- (Peer Reviewed Journal)Abente, E.J., Anderson, T.K., Rajao, D.S., Swenson, S., Gauger, P.C., Vincent, A.L. 2016. The avian-origin H3N2 canine influenza virus that recently emerged in the United States has limited replication in swine. Influenza and Other Respiratory Viruses. 10(5):429-432.Quantifying the global antigenic diversity of swine influenza A viruses

- (Peer Reviewed Journal)Lewis, N.S., Russell, C.A., Langat, P., Anderson, T.K., Berger, K., Bielejec, F., Burke, D.F., Dudas, G., Fonville, J.M., Fouchier, R.A., Kellam, P., Koel, B.F., Lemey, P., Nguyen, T., Nuansrichy, B., Peiris, J.M., Saito, T., Simon, G., Skepner, E., Takemae, N., ESNIP3 consortium, Webby, R.J., van Reeth, K., Brookes, S.M., Larsen, L., Watson, S.J., Brown, I.H., Vincent, A.L. 2016. The global antigenic diversity of swine influenza A viruses. eLife. 5:e12217.Current trends from the USDA influenza a virus in swine surveillance system

- (Abstract Only)Pathogenesis and transmission of highly pathogenic avian influenza H5Nx in swine

- (Abstract Only)Pathogenesis and transmission studies: non-swine influenza A viruses in the swine host

- (Proceedings)Novel reassortant human-like H3N2 and H3N1 influenza A viruses detected in pigs are virulent and antigenically distinct from swine viruses endemic to the United States

- (Peer Reviewed Journal)Rajao, D.S., Gauger, P.C., Anderson, T.K., Lewis, N.S., Abente, E.J., Killian, M.L., Perez, D.R., Sutton, T.C., Zhang, J., Vincent, A.L. 2015. Novel reassortant human-like H3N2 and H3N1 influenza A viruses detected in pigs are virulent and antigenically distinct from swine viruses endemic to the United States. Journal of Virology. 89(22):11213-11222.Characterization of co-circulating swine influenza A viruses in North America and the identification of a novel H1 genetic clade with antigenic significance

- (Peer Reviewed Journal)Anderson, T.K., Campbell, B.A., Nelson, M.I., Lewis, N.S., Janas-Martindale, A., Killian, M., Vincent, A.L. 2015. Characterization of co-circulating swine influenza A viruses in North America and the identification of a novel H1 genetic clade with antigenic significance. Virus Research. 201:24–31.Comparative virulence of wild-type H1N1pdm09 influenza A isolates in swine

- (Peer Reviewed Journal)Henningson, J.N., Rajao, D.S., Kitikoon, P., Lorusso, A., Culhane, M.R., Lewis, N.S., Anderson, T.K., Vincent, A.L. 2015. Comparative virulence of wild-type H1N1pdm09 influenza A isolates in swine. Veterinary Microbiology. 176(1-2):40-49.A brief introduction to influenza A virus in swine

- (Book / Chapter)Vincent, A.L., Lager, K.M., Anderson, T.K. 2014. A brief introduction to influenza A virus in swine. In: Spackman, E., editor. Methods in Molecular Biology, Animal Influenza Virus. 2nd edition. New York, NY: Springer. p. 243-258.Influenza A virus pathogenesis and vaccination in swine

- (Book / Chapter)Rajao, D.S., Anderson, T.K., Gauger, P.C., Vincent, A.L. 2014. Pathogenesis and vaccination of influenza A virus in swine. In: Compans, R.W., Oldstone, M.B.A., editors. Influenza Pathogenesis and Control, Current Topics in Microbiology and Immunology. Switzerland: Springer International Publishing. p. 307-326.Substitutions near the hemagglutinin receptor-binding site determine the antigenic evolution of influenza A H3N2 viruses in U.S. swine

- (Peer Reviewed Journal)Lewis, N.S., Anderson, T.K., Kitikoon, P., Skepner, E., Burke, D.F., Vincent, A.L. 2014. Substitutions near the hemagglutinin receptor-binding site determine the antigenic evolution of influenza A H3N2 viruses in U.S. swine. Journal of Virology. 88(9):4752-4763.Connecting the dots between swine influenza A virus surveillance and vaccines

- (Proceedings)Vincent, A.L., Anderson, T.K., Kitikoon, P., Lewis, N., Rajao, D., Campbell, B.A. 2014. Connecting the dots between swine influenza A virus surveillance and vaccines. Proceedings of the 45th American Association of Swine Veterinarians Annual Meeting. p. 527-532.Swine influenza virus vaccine serologic cross-reactivity to contemporary U.S. swine H3N2 and efficacy in pigs infected with an H3N2 similar to 2011-2012 H3N2v

- (Peer Reviewed Journal)Kitikoon, P., Gauger, P.C., Anderson, T.K., Culhane, M.R., Swenson, S., Loving, C.L., Perez, D.R., Vincent, A.L. 2013. Swine influenza virus vaccine serologic cross-reactivity to contemporary US swine H3N2 and efficacy in pigs infected with an H3N2 similar to 2011-2012 H3N2v. Influenza and Other Respiratory Viruses. 7(Suppl. 4):32-41.Population dynamics of co-circulating swine influenza A viruses in the United States from 2009-2012

- (Peer Reviewed Journal)Anderson, T.K., Nelson, M.I., Kitikoon, P., Swenson, S.L., Korslund, J.A., Vincent, A.L. 2013. Population dynamics of cocirculating swine influenza A viruses in the United States from 2009 to 2012. Influenza and Other Respiratory Viruses. 7(Suppl. 4):42-51.The growing diversity of H3N2 influenza A virus in swine and the impact on control in swine and at the human animal interface

- (Proceedings)Vincent, A.L., Kitikoon, P., Anderson, T.K., Loving, C.L. 2013. The growing diversity of H3N2 influenza A virus in swine and the impact on control in swine and at the human animal interface. Proceedings of the 2013 Allen D Leman Swine Conference. p. 161-63.Efficacy of inactivated and live-attenuated influenza virus vaccines in pigs against infection and transmission of emerging H3N2 similar to the 2011-2012 H3N2v

- (Peer Reviewed Journal)Loving, C.L., Lager, K.M., Vincent, A.L., Brockmeier, S.L., Gauger, P.C., Anderson, T.K., Kitikoon, P., Perez, D.R., Kehrli, Jr., M.E. 2013. Efficacy in pigs of inactivated and live attenuated influenza virus vaccines against infection and transmission of an emerging H3N2 similar to the 2011-2012 H3N2v. Journal of Virology. 87(17):9895-903.Increased diversity of H3N2 influenza virus in pigs in the United States and implications for pigs and humans

- (Abstract Only)Genotype patterns of contemporary reassorted H3N2 virus in U.S. swine

- (Peer Reviewed Journal)Kitikoon, P., Nelson, M.I., Killian, M.L., Anderson, T.K., Koster, L., Culhane, M.R., Vincent, A.L. 2013. Genotype patterns of contemporary reassorted H3N2 virus in US swine. Journal of General Virology. 94(Pt 6):1236-1241.Overview of swine influenza virus vaccine research and technology: What's on the horizon and what do we need to move forward?

- (Proceedings)Kehrli, Jr., M.E., Vincent, A.L., Gauger, P.C., Kitikoon, P., Anderson, T.K., Loving, C.L., Lager, K.M. 2013. Overview of swine influenza virus vaccine research and technology: What's on the horizon and what do we need to move forward? In: Proceedings of 44th Annual Meeting of the American Association of Swine Veterinarians, San Diego, CA. p. 517-519.


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