Fig. 8

Comparison of Publicity Profiles and Shared Public Clones between ISA Brown and PA12 White Leghorn Chickens. A) Publicity was defined as a CDR3 nucleotide sequence present in 100%, 80% and 60% of birds in any tissue at any frequency in ISA Brown and PA12 chicken lines (n = 5/group). Publicity values were compared within TRGV genes and displayed as a proportion of all the clones within the population of TCRs defined by each TRGV. Due to a high level of identity some TRGV genes have been grouped. P values are comparisons between the ‘100% of Birds’ category of the two lines, and were calculated using an FDR corrected unpaired Wilcoxon signed rank test. *** p value < 0.001, ** p value < 0.01, * p value < 0.05. TRGV2.13 was only detected in the repertoire of the ISA Brown birds. B) The proportion of the overall public repertoire shared between the two lines was calculated. A public clone was considered to be shared between the two lines if it was present at the same publicity level or higher. These proportions are depicted for the 100%, 80% and 60% publicity categories for each line. C) The number of public clones that were shared were identified using the same definition as in B. The proportion of shared clones are depicted for the 100%, 80% and 60% publicity categories for each line