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Autoimmune variant PTPN22 C1858T is associated with impaired responses to influenza virus vaccination Juliet N Crabtree1,2, Wenqian He4, Weihua Guan3, Mark Flage1, Matthew S Miller5, Erik J Peterson1,2 1 Center for Immunology 2 Division of Rheumatic and Autoimmune Diseases, Department of Medicine, University of Minnesota Medical School 3 Division of Biostatistics, School of Public Health, University of Minnesota Minneapolis, MN USA 4 Department of Microbiology, School of Graduate Studies, Icahn School of Medicine at Mount Sinai, New York, NY, USA 5 Department of Biochemistry and Biomedical Sciences, Institute for Infectious Diseases Research, McMaster Immunology Research Center, McMaster University Hamilton ON, Canada Abstract High-affinity antibody production, T cell activation, and Interferon upregulation all contribute to protective immunity that occurs in humans following influenza immunization. Hematopoietic cell-specific PTPN22 encodes Lymphoid Phosphatase (Lyp), which regulates lymphocyte antigen receptor and Pattern Recognition Receptor (PRR) signaling. A PTPN22 variant R620W (LypW) predisposes to autoimmune and infectious disease, and confers altered signaling through antigen receptors and PRRs. We tested the hypothesis that LypWbearing humans would have diminished immune response to trivalent influenza vaccine (TIV). LypW carriers exhibited decreased induction of influenza-specific CD4 T cells expressing effector cytokines, and failed to increase antibody affinity following TIV. No differences between LypW carriers and non-carriers were observed in virus-specific CD8 T cell responses, early interferon transcriptional responses, or myeloid APC costimulatory molecule upregulation. LypW association with defects in TIV-induced CD4 T cell expansion and antibody affinity maturation suggests that LypW may predispose to diminished capacity to generate protective immunity against influenza.