Diversity and impact of rare variants in genes encoding the platelet G protein-coupled receptors

Matthew L Jones, Jane E Norman, Neil V Morgan, Stuart J Mundell, Marie Lordkipanidzé, Gillian C Lowe, Martina E Daly, Michael A Simpson, Sian Drake, Steve P Watson, Andrew D Mumford, UK GAPP Study Group

Research output: Contribution to journalArticle (Academic Journal)peer-review

15 Citations (Scopus)

Abstract

Platelet responses to activating agonists are influenced by common population variants within or near G protein-coupled receptor (GPCR) genes that affect receptor activity. However, the impact of rare GPCR gene variants is unknown. We describe the rare single nucleotide variants (SNVs) in the coding and splice regions of 18 GPCR genes in 7,595 exomes from the 1,000-genomes and Exome Sequencing Project databases and in 31 cases with inherited platelet function disorders (IPFDs). In the population databases, the GPCR gene target regions contained 740 SNVs (318 synonymous, 410 missense, 7 stop gain and 6 splice region) of which 70 % had global minor allele frequency (MAF) < 0.05 %. Functional annotation using six computational algorithms, experimental evidence and structural data identified 156/740 (21 %) SNVs as potentially damaging to GPCR function, most commonly in regions encoding the transmembrane and C-terminal intracellular receptor domains. In 31 index cases with IPFDs (Gi-pathway defect n=15; secretion defect n=11; thromboxane pathway defect n=3 and complex defect n=2) there were 256 SNVs in the target regions of 15 stimulatory platelet GPCRs (34 unique; 12 with MAF< 1 % and 22 with MAF≥ 1 %). These included rare variants predicting R122H, P258T and V207A substitutions in the P2Y12 receptor that were annotated as potentially damaging, but only partially explained the platelet function defects in each case. Our data highlight that potentially damaging variants in platelet GPCR genes have low individual frequencies, but are collectively abundant in the population. Potentially damaging variants are also present in pedigrees with IPFDs and may contribute to complex laboratory phenotypes.

Original languageEnglish
Pages (from-to)826-37
Number of pages12
JournalThrombosis & Haemostasis
Volume113
Issue number4
DOIs
Publication statusPublished - Apr 2015

Keywords

  • Blood Platelet Disorders
  • Blood Platelets
  • Computational Biology
  • Databases, Genetic
  • Exome
  • Female
  • Gene Frequency
  • Genetic Predisposition to Disease
  • HEK293 Cells
  • Heredity
  • Humans
  • Male
  • Pedigree
  • Phenotype
  • Platelet Function Tests
  • Polymorphism, Single Nucleotide
  • Receptors, G-Protein-Coupled
  • Receptors, Purinergic P2Y12
  • Transfection

Fingerprint Dive into the research topics of 'Diversity and impact of rare variants in genes encoding the platelet G protein-coupled receptors'. Together they form a unique fingerprint.

Cite this