High Frequency of Shared Clonotypes in Human T Cell Receptor Repertoires.

Cell Reports
Cinque SotoJames E Crowe

Abstract

The collection of T cell receptors (TCRs) generated by somatic recombination is large but unknown. We generate large TCR repertoire datasets as a resource to facilitate detailed studies of the role of TCR clonotypes and repertoires in health and disease. We estimate the size of individual human recombined and expressed TCRs by sequence analysis and determine the extent of sharing between individual repertoires. Our experiments reveal that each blood sample contains between 5 million and 21 million TCR clonotypes. Three individuals share 8% of TCRβ- or 11% of TCRα-chain clonotypes. Sorting by T cell phenotypes in four individuals shows that 5% of naive CD4+ and 3.5% of naive CD8+ subsets share their TCRβ clonotypes, whereas memory CD4+ and CD8+ subsets share 2.3% and 0.4% of their clonotypes, respectively. We identify the sequences of these shared TCR clonotypes that are of interest for studies of human T cell biology.

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Datasets Mentioned

BETA
PRJNA511481

Methods Mentioned

BETA
amplicon
PCR
amplicon sequencing
blood draws
leukapheresis
density gradient centrifugation
flow cytometry
Illumina sequencing

Software Mentioned

ORIGIN
compute
OLGA
BBMap
Python
MiXCR
Numpy
PyIR
AbHelix
MongoDB

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