Identification of sequence variants in the CCL3 chemokine gene family in the HapMap West African reference population.

Academic Article

Abstract

  • Gene copy number variation (CNV) of the CC Chemokine ligand 3-Like-1 (CCL3L1) gene located on chromosome 17q12 has been associated with many diseases, including viral infections and autoimmune diseases. High sequence homology between CCL3L1 and three other related genes within the same cluster, CCL3, CCL3L2, and CCL3L3, make it difficult to determine the copy number of each gene as well as distinguishing variants within each gene versus between genes. We identified a total of 50SNPs, 31 known and 19 novel SNPs, in a subset of West Africa Reference (Yoruba individuals from Ibadan, Nigeria (YRI)) samples from HapMap. One of these previously unidentified variations is a non-synonymous change while several other unreported variations are located near potential regulatory sites. The variations identified in these immune-related genes from this study will shed light in the understanding of both structural and nucleotide polymorphisms that can be used in association studies of diseases in populations.
  • Published In

  • Human Immunology  Journal
  • Keywords

  • CCL3 gene family, CCL3L1/CCL3L3, Chemokine, Copy number variation, Sequence variants, African Continental Ancestry Group, Chemokine CCL3, Gene Dosage, HapMap Project, Humans, Nigeria, Polymorphism, Single Nucleotide
  • Digital Object Identifier (doi)

    Authorlist

  • Perry RT; Nyaku MK; Aissani B; Shrestha S
  • Start Page

  • 854
  • End Page

  • 858
  • Volume

  • 75
  • Issue

  • 8