Comparative analysis of murine T-cell receptor repertoires

Mark Izraelson, Tatiana O. Nakonechnaya, Bruno Moltedo, Evgeniy S. Egorov, Sofya A. Kasatskaya, Ekaterina V. Putintseva, Ilgar Z. Mamedov, Dmitriy B. Staroverov, Irina I. Shemiakina, Maria Y. Zakharova, Alexey N. Davydov, Dmitriy A. Bolotin, Mikhail Shugay, Dmitriy M. Chudakov, Alexander Y. Rudensky, Olga V. Britanova

    Research output: Contribution to journalReview articlepeer-review

    30 Citations (Scopus)

    Abstract

    For understanding the rules and laws of adaptive immunity, high-throughput profiling of T-cell receptor (TCR) repertoires becomes a powerful tool. The structure of TCR repertoires is instructive even before the antigen specificity of each particular receptor becomes available. It embodies information about the thymic and peripheral selection of T cells; the readiness of an adaptive immunity to withstand new challenges; the character, magnitude and memory of immune responses; and the aetiological and functional proximity of T-cell subsets. Here, we describe our current analytical approaches for the comparative analysis of murine TCR repertoires, and show several examples of how these approaches can be applied for particular experimental settings. We analyse the efficiency of different metrics used for estimation of repertoire diversity, repertoire overlap, V-gene and J-gene segments usage similarity, and amino acid composition of CDR3. We discuss basic differences of these metrics and their advantages and limitations in different experimental models, and we provide guidelines for choosing an efficient way to lead a comparative analysis of TCR repertoires. Applied to the various known and newly developed mouse models, such analysis should allow us to disentangle multiple sophisticated puzzles in adaptive immunity.

    Original languageEnglish
    Pages (from-to)133-144
    Number of pages12
    JournalImmunology
    Volume153
    Issue number2
    DOIs
    Publication statusPublished - 1 Feb 2018

    Keywords

    • aging
    • diversity
    • functional T-cell subsets
    • T cell
    • T-cell receptor repertoires

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