Q3 · CROSS-FIELD
ArticleOA
Author: Meade, Kelley ; Lenoir, Michael ; Sen, Saunak ; Hernandez-Pacheco, Natalia ; Avila, Pedro C ; Rodriguez-Cintron, William ; White, Marquitta J ; Kumar, Rajesh ; Oh, Sam S ; Hu, Donglei ; Mak, Angel C Y ; Brigino-Buenaventura, Emerita ; Eng, Celeste ; Flores, Carlos ; Hunstman, Scott ; Pino-Yanes, Maria ; Serebrisky, Denise ; Alonso, Santos ; Burchard, Esteban G ; Rodriguez-Santana, Jose R ; Farber, Harold J ; Thyne, Shannon M
Abstract:Skin pigmentation is a complex trait that varies largely among populations. Most genome-wide association studies of this trait have been performed in Europeans and Asians. We aimed to uncover genes influencing skin colour in African-admixed individuals. We performed a genome-wide association study of melanin levels in 285 Hispanic/Latino individuals from Puerto Rico, analyzing 14 million genetic variants. A total of 82 variants with p-value ≤1 × 10−5 were followed up in 373 African Americans. Fourteen single nucleotide polymorphisms were replicated, of which nine were associated with skin colour at genome-wide significance in a meta-analysis across the two studies. These results validated the association of two previously known skin pigmentation genes, SLC24A5 (minimum p = 2.62 × 10−14, rs1426654) and SLC45A2 (minimum p = 9.71 × 10−10, rs16891982), and revealed the intergenic region of BEND7 and PRPF18 as a novel locus associated with this trait (minimum p = 4.58 × 10−9, rs6602666). The most significant variant within this region is common among African-descent populations but not among Europeans or Native Americans. Our findings support the advantages of analyzing African-admixed populations to discover new genes influencing skin pigmentation.