Systematic study of human αβ T cell receptor V segments shows allelic variations resulting in a large number of distinct T cell receptor haplotypes

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Abstract
The variation of the αβ T cell receptor (TCR) results mainly from rearrangements of germ‐line V, D and J elements combined with the processes of N‐ and P‐region addition. In addition to this extensive diversity, diallelic polymorphism is also recognized in V regions of β loci. Four such polymorphisms have previously been defined, but the full extent of such variation has not yet been established. To investigate allelic polymorphism, we used a strategy based on V locus‐specific polymerase chain reaction and single‐strand conformation polymorphisms. Studying the two Vβ 2 loci and the Vα8.1 locus, we found that all exhibited a coding polymorphism. One of the Vβ 2 loci proved to be the first multiallele segment to be recognized, with three common variants. The second Vβ 2 locus, for which none of the two alleles has been identified in cDNA, appeared in fact to be a Vβ orphon, in abnormal location on the chromosome 9. A yeast artificial chromosome containing part of the TCRB locus allowed us to place the first Vβ 2 segment on the known map to define haplotypes with two other polymorphic segments: Vβ 1 and Vβ 6.7. Multiple distinct haplotypes result from combinations between these polymorphic loci, showing that Vβ regions are highly variable between individuals. Two alleles exist at the Vα8.1 segment and both are expressed. This represents the first example of a frequent coding polymorphism for TCRA gene. The distribution of allele frequencies for these segments suggest the action of balancing selection. These data add a further dimension to TCR polymorphism and suggest new candidates to explore TCR‐encoded susceptibility to autoimmune diseases.