Population matched (pm) germline allelic variants of immunoglobulin (IG) loci
Relevance in infectious diseases and vaccination studies in human populations
Indu Khatri (Leiden University Medical Center)
Magdalena A. Berkowska (Leiden University Medical Center)
Erik Ben Van Den Akker (TU Delft - Pattern Recognition and Bioinformatics, Leiden University Medical Center)
Cristina Teodosio (Leiden University Medical Center)
Marcel J. T. Reinders (TU Delft - Pattern Recognition and Bioinformatics, Leiden University Medical Center)
Jacques J.M. van Dongen (Leiden University Medical Center)
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Abstract
Immunoglobulin (IG) loci harbor inter-individual allelic variants in many different germline IG variable, diversity and joining genes of the IG heavy (IGH), kappa (IGK) and lambda (IGL) loci, which together form the genetic basis of the highly diverse antigen-specific B-cell receptors. These allelic variants can be shared between or be specific to human populations. The current immunogenetics resources gather the germline alleles, however, lack the population specificity of the alleles which poses limitations for disease-association studies related to immune responses in different human populations. Therefore, we systematically identified germline alleles from 26 different human populations around the world, profiled by “1000 Genomes” data. We identified 409 IGHV, 179 IGKV, and 199 IGLV germline alleles supported by at least seven haplotypes. The diversity of germline alleles is the highest in Africans. Remarkably, the variants in the identified novel alleles show strikingly conserved patterns, the same as found in other IG databases, suggesting over-time evolutionary selection processes. We could relate the genetic variants to population-specific immune responses, e.g. IGHV1-69 for flu in Africans. The population matched IG (pmIG) resource will enhance our understanding of the SHM-related B-cell receptor selection processes in (infectious) diseases and vaccination within and between different human populations.
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