scRNA-seq of MHCII-KO and WT B cells during influenza infection

To evaluate the programming of B cells subsets that arise in the absence of CD4 T cell interactions we adoptively transferred wild-type (WT) and majorhistocompatibility class II (MHC-II) knockout B cells into WT hosts and infected the mice with influenza PR8. All activated responding transferred B cells were profiled at day 14, a time point when T cell independent memory responses arise, and scRNA-seq and BCR-seq performed to understand the transcriptional programming that is dependent on CD4 T cell interactions. We identified minimal differences between WT and KO B cells, with a diverse number of memory B cell clusters identified that were populated by cells fron both cohorts of mice. These data indicate that the memory B cells that form early, likely extrafollicularly, do not depend on CD4 T cells for their programming and diversity. Overall design: 2 biological replicates of MHCII-KO and WT B cells that are responding to influenza infection were isolated at day 14 for scRNA-seq coupled to BCR-seq.