Pilot genome-wide association study identifying novel risk loci for type 2 diabetes in a Maya population

• Published in: Gene Vol. 677; pp. 324 - 331
• Main Authors: Domínguez-Cruz, Miriam Givisay, Muñoz, María de Lourdes, Totomoch-Serra, Armando, García-Escalante, María Guadalupe, Burgueño, Juan, Valadez-González, Nina, Pinto-Escalantes, Doris, Díaz-Badillo, Álvaro
• Format: Journal Article
• Language: English
• Published: Netherlands Elsevier B.V 30.11.2018
• Subjects: Gene; Maya population; Microarray; Single nucleotide polymorphism; Type 2 diabetes mellitus; GWAS; ANKRD34C; lncRNA; ARL15; VEGF; T2D; Ho; MTUS1; ADAMTS9-AS2; Type 2 diabetes mellitus; Microarray; ncRNAs; Maya population; ITGA1-ITGA2; MAF; Gene; HNF4A; HWE; SNPs; AGTR2; Single nucleotide polymorphism; He
• ISSN: 0378-1119; 1879-0038
• DOI: 10.1016/j.gene.2018.08.041

Type 2 diabetes mellitus (T2D) is one of the two leading causes of mortality in Mexico. However, most studies have focused on Caucasians or Asians, and there are a small number of studies investigating Maya populations. Furthermore, to the best of our knowledge, there is no information on isolated Maya communities with T2D frequencies of 20% that are primarily attributed to ethnicity. Consequently, this study focused on assessing which genetic risk variants could be involved in the high rates of T2D in 92 individuals with Maya ancestry; 47 were diagnosed with T2D, and 45 were classified as healthy individuals. A pilot genome-wide association study was performed using the Affymetrix Axiom Genome-wide LAT1 array. The population structure was determined with the ADMIXTURE software using 1289 Latin American selected polymorphisms, and 39 polymorphisms associated with T2D were included for replication. Association tests were performed using the Statistical Analysis System (SAS) using the allelic, genotype and Armitage trend tests. The results indicated that population structure analysis displayed no differences between T2D patients and healthy individuals; 24 loci located were identified for probable association with T2D (p > 1.288 × 10−7 and p < 1.348 × 10−4); the polymorphism AGTR2 rs1914711 in chromosome X was identified by the allele test (OR = 6.824; p = 1.448 × 10−9) as a candidate gene for association with T2D; and ARL15 rs4311394 was associated as a T2D protector by genotype and the Armitage trend test (OR = 0.318; p = 0.001). In conclusion, this study proposes 24 candidate SNPs associated with T2D for replication studies and one for protective association with T2D. •Twenty-four SNPs are suggestive of replication for association with T2D in Maya.•There is no ancestral difference between the rural and urban contemporaneous Maya.•ARL15 rs4311394 is associated as a protector factor with T2D in Maya.