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Neveau, M.N., Zeller, M.A., Kaplan, B.S., Souza, C.K., Gauger, P.C., Vincent, A.L., and Anderson, T.K. Genetic and antigenic characterization of an expanding H3 influenza A virus clade in US swine visualized by Nextstrain. bioRxiv 2021.11.17.469008

Markin, A., Wagle, S., Anderson, T.K., and Eulenstein, O.E. RF-Net 2: Fast Inference of Virus Reassortment and Hybridization Networks. bioRxiv 2021.05.05.442676.


72. Sharma, A., Zeller, M.A., Souza, C., Anderson, T.K., Vincent, A.L., Harmon, K., Li, G., Zhang, J., and Gauger, P.C. (in press). Characterization of a 2016-17 human-seasonal H3 influenza A virus spillover now endemic in United States swine. mSphere XX:XX.

71. Arendsee, Z.W., Chang, J., Hufnagel, D.E., Markin, A., Janas-Martindale, A., Vincent, A.L., and Anderson, T.K. (in press). octoFLUshow: an interactive tool describing spatial and temporal trends in the genetic diversity of influenza A virus in U.S. swine. Microbiology Resource Announcements XX:XX. octoFLUshow interactive tool available at

70. Anderson, T.K., Inderski, B., Diel, D., Hause, B., Porter, E., Clement, T., Nelson, E., Bai, J., Christopher-Hennings, J., Gauger, P., Zhang, J., Harmon, K., Main, R., Lager, K., and Faaberg, K. The United States Swine Pathogen Database: integrating veterinary diagnostic laboratory sequence data to monitor emerging pathogens of swine. (in press). Database XX:XX. bioRxiv 2021.04.16.439882.

69. Souza, C.K., Anderson, T.K., Chang, J., Venkatesh, D., Lewis, N.S., Pekosz, A., Shaw-Saliba, K., Rothman, R.E., Chen, K-F, Vincent, A.L. (in press). Antigenic distance between North American swine and human seasonal H3N2 influenza A viruses as an indication of zoonotic risk to humans. Journal of Virology XX: XX.

68. Zeller, M.A., Chang, J., Vincent, A.L., Gauger, P.C., and Anderson, T.K. (in press). Spatial and temporal coevolution of N2 neuraminidase and H1 and H3 hemagglutinin genes of influenza A virus in United States swine. Virus Evolution XX: XX. bioRxiv 2020.05.29.123828.

67. Staton, M., Cannon, E., Sanderson, L., Wegrzyn, J., Anderson, T.K., Buehler, S., Cobo-Simon, I. Faaberg, K., Grau, E., Guignon, V., Gunoskey, J., Inderksi, B., Jung, S., Lager, K., Main, D., Poelchau,m M., Ramnath, R., Richter, P., West., J., and Ficklin, S. (in press). Tripal, a community update after 10 years of supporting open source, standards-based genetic, genomic, and breeding databases. Briefings in Bioinformatics XX:XX.

66. Kaplan, B.S., Anderson, T.K., Chang, J., Santos, J., Perez, D., Lewis, N.S., and Vincent, A.L. (in press). Evolution and antigenic advancement of N2 neuraminidase of swine influenza A viruses circulating in the United States following two separate introductions from humans seasonal viruses. Journal of Virology XX:XX.

65. Zeller, M.A., Gauger, P.C., Arendsee, Z.W., Souza, C.K., Vincent, A.L., and Anderson, T.K. (2021). Machine learning prediction and experimental validation of antigenic drift in H3 influenza A viruses in swine. mSphere 6(2): e00920-20.  bioRxiv 2020.08.07.238279;

64. Powell, J.D., Abente, E.J., Chang, J., Souza, C.K., Rajao, D.S., Anderson, T.K., Zeller, M.A., Gauger, P.G., Lewis, N.S., and Vincent, A.L. (2021). Characterization of contemporary 2010.1 H3N2 swine influenza A viruses circulating in United States pigs. Virology 553: 94-101.

63. Anderson, T.K., Chang, J., Arendsee, Z.W., Venkatesh, D., Souza, C.K., Kimble, J.B., Lewis, N.S., Davis, C.T., and Vincent, A.L. (2021). Swine influenza A viruses and the tangled relationship with humans. In: Influenza: The Cutting Edge (Eds. Y. Kawaoka and G. Neumann). Cold Spring Harbor Perspectives in Medicine, 11(3): a038737.


62. Nicholson, T.L., Waack, U., Anderson, T.K., Bayles, D., Zaia, S.R., Goertz, I., Eppinger, M., Hau, S.J., Brockmeier, S.L., and Shore, S.M. (2020). Comparative virulence and genomic analysis of Streptococcus suis isolates. Frontiers in Microbiology 11: 620843.

61. Kaplan, B.S., Kimble, J.B., Chang, J., Anderson, T.K., Gauger, P.C., Janas-Martindale, A., Killian, M.L., Bowman, A.S., and 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 94(16): e01009-20.

60. Sharma, A., Zeller, M.A., Li, G., Harmon, K.M., Zhang, J., Hoang, H., Anderson, T.K., Vincent, A.L., and Gauger, P.C. (2020). Diagnostic detection of live attenuated influenza vaccine virus and evidence of reassortment in United States swine. The Journal of Veterinary Diagnostic Investigation 32(2): 301-311.

59. 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.S., Wentworth, D.E., and Barnes, J.R. (2020). Influenza A virus field surveillance at a swine-human interface. mSphere 5(1): e00822-19. bioRxiv: 585588; bioRxiv Preprint.

58. Vincent, A.L., Anderson, T.K., and Lager, K.M. (2020). A brief introduction to influenza A virus in swine. In: Animal Influenza Virus (Methods in Molecular Biology 1161) (Ed. E. Spackman). pp. 249-271. Springer.

For full listing see: Google Scholar or My NCBI Collection