Clonal expansion, dissemination, and SHM at the post-6 time point in different immune compartments. (A) Number of variants traced in each immune compartment, defining a lineage as successfully traced when at least two clonally related variants were identified in the Rep-seq data (data from one independent experiment). (B) Bubble plot showing the relative distribution and expansion of Env-specific B cell lineages in blood (red), BM (blue), draining iLN (gray), spleen (green), and gut (ileum; purple). The sizes of the bubbles correspond to the number of somatic variants identified for each lineage (data from one independent experiment). (C) Intraclonal analysis of SHM shown as percentage divergence from the assigned germline V gene sequence at the nucleotide level. Each box shows one clonal lineage, with each variant of the lineage identified in the Rep-seq represented as one dot (data from one independent experiment). Data from Rep-seq libraries generated from blood (red), BM (blue), draining iLN (gray), and spleen (green). The experiment was performed once, and the analyses, at least twice.