Extended Data Fig. 3: Ctsl-deficiency results in an altered repertoire in TCRβFixed mice.
a, CD4SP cell number ± SEM in TCRβFixed Ctsl+/+ (n = 10) and TCRβFixed CtslΔTEC mice (n = 9). b, Representative flow cytometry plots of CD4 versus CD8 and percentage ± SEM of CD4+ T cells in lymph nodes from TCRβFixed Ctsl+/+ (n = 5) and TCRβFixed CtslΔTEC mice (n = 4). c, Cell number ± SEM of CD4+ T cells in lymph nodes from TCRβFixed Ctsl+/+ (n = 7) and TCRβFixed CtslΔTEC mice (n = 5). d, (left) V-element (Trav gene) usage in recurrent TCRα clones detected exclusively in Fixed-β Ctsl+/+ TCRα inventories (n = 3) (blue; ‘Ctsl+/+-only’ Ctsl-dependent TCRs), or exclusively in Fixed-β CtslΔTEC TCRα inventories (n = 3) (red; ‘CtslΔTEC-only’ newcomer TCRs). Curves show the cumulative proportion of TCR cDNAs using the respective Trav segment ordered from proximal to distal. (right) Area under the curve (Mean ± SEM), determined by dividing the sum of the cumulative proportions by the number of distinct Trav segments detected. e, (left) J-element (Traj gene) usage in ‘Ctsl+/+-only’ TCRα clones or ‘CtslΔTEC-only’ newcomer TCRα clones as in (d). (right) Area under the curve (Mean ± SEM), determined by dividing the sum of the cumulative proportions by the number of distinct Traj segments detected. f, (left) Cumulative proportion of TCRα cDNAs whose V-J junction was modified by deletion or addition of the number of nucleotides specified on the x-axis. (right) Area under the curve (Mean ± SEM), determined by dividing the sum of the cumulative proportions by the number of nucleotide deletion/addition categories (17 possibilities in total). Data in d-f are from n = 3 biological replicates per genotype; each replicate represents pooled cells from 2 or 3 mice. All P-values by Student’s two-tailed t-test.
