Development of a novel multiplex PCR assay to detect functional subtypes of KIR3DL1 alleles Journal Article

Authors: Boudreau, J. E.; Le Luduec, J. B.; Hsu, K. C.
Article Title: Development of a novel multiplex PCR assay to detect functional subtypes of KIR3DL1 alleles
Abstract: Among NK cell receptor-ligand partnerships, KIR3DL1 and HLA-Bw4 demonstrate the greatest diversity; permutations of their allelic combinations titrate NK reactivity. Balancing selection has maintained distinct subtypes of KIR3DL1 alleles in global populations, implying that each may provide unique fitness advantages and variably influence disease processes. Though approaches exist for determining HLA-B allotypes, practical methods for identifying KIR3DL1 alleles are lacking. We have developed a PCR-based approach that identifies functional subtypes of KIR3DL1 alleles; it is suitable for research and may have clinical application. Six allele subsets were identified based on expression characteristics of the eleven most common KIR3DL1 alleles represented in reported populations. The remaining 62 low-frequency alleles were distributed into these groups based on sequence homology to coding regions. Subtype-specific SNPs were found in exons 3, 4, and 7, and used as priming sites for five multiplex PCR reactions. Genomic DNA derived from 175 unrelated donors and 52 related individuals from 6 families demonstrated >99.5% concordance between sequence-based typing and our novel approach. Finally, PCR-based typing accurately predicted NK phenotypes obtained by flow cytometry after staining with DX9 and Z27 monoclonal antibodies. This novel approach facilitates high-throughput analysis of KIR3DL1 allotypes to enable a broader understanding of KIR3DL1 and HLA-Bw4 interaction in health and disease. © 2014 Boudreau et al.
Keywords: child; controlled study; gene sequence; human cell; sequence analysis; single nucleotide polymorphism; exon; validation process; flow cytometry; sensitivity analysis; allele; gene frequency; gene identification; natural killer cell; sequence homology; hla b antigen; genomic dna; process optimization; unrelated donors; multiplex polymerase chain reaction; killer cell immunoglobulin like receptor 3dl1; gene segregation; measurement accuracy; human; article; allotype; kir3dl1 gene
Journal Title: PLoS ONE
Volume: 9
Issue: 6
ISSN: 1932-6203
Publisher: Public Library of Science  
Date Published: 2014-06-11
Start Page: e99543
Language: English
DOI: 10.1371/journal.pone.0099543
PROVIDER: scopus
PMCID: PMC4053526
PUBMED: 24919192
Notes: Export Date: 1 August 2014 -- CODEN: POLNC -- Source: Scopus
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MSK Authors
  1. Katharine C Hsu
    141 Hsu