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Fine-scale haplotype mapping of MUT, AACS, SLC6A15 and PRKCA genes indicates association with insulin resistance of metabolic syndrome and relationship with branched chain amino acid metabolism or regulation.

University of Montpellier, UMR204 NUTRIPASS (IRD, UM, SupAgro), Montpellier, France. Universitatea de Medicina si Farmacie Carol Davila, Department of Endocrinology, Bucharest, Romania. Istanbul University, Department of Internal Medicine, Istanbul, Turkey. University of Montpellier, PhyMedExp, INSERM, CNRS, Department of Biochemistry and Hormonology, CHRU Montpellier, Montpellier, France. University of Montpellier, INSERM U1198, Montpellier, France. University Claude Bernard de Lyon 1, Lyon-Bron, France. Montpellier University, UMR 95 Qualisud, Montpellier, France. Universitatea de Medicina si Farmacie Iuliu Hatieganu, Cluj-Napoca, Romania. Centre Hospitalier Regional Universitaire de Montpellier, Departement d'Endocrinologie, Diabète, Nutrition, Hôpital Lapeyronie, Montpellier, France. Mjekesise University of Tirana, Tirana, Albania. Institut d'Investigacions Biomediques August Pi i Sunyer, Barcelona, Spain. Institut Catala d'Arqueologia Classica, Tarragona, Spain. Institut biohimii i genetiki RAN, Ufa, Russian Federation. University Alma Mater Studiorum, Division of Endocrinology, Bologna, Italy. Universita degli Studi di Roma Tor Vergata, Roma, Italy. University Magna Graecia of Catanzaro, Catanzaro, Italy. Scientific Institute Casa Sollievo della Sofferenza, San Giovani Rotondo, Italy. University of Ioannina School of Medicine, Department of Endocrinology, Ioannina, Greece. Institut Pasteur de Tunis, Laboratory of Biomedical Genomics and Oncogenetics, Tunis, Tunisia. Institut Pasteur du Maroc, Casablanca, Morocco. Universite d'Alger, CHU Bab-El-Oued, Alger, Algeria. BC Platforms Ltd Oy, Espoo, Finland. Intactile Design SA, Montpellier, France. Institute for Anthropological Research, Zagreb, Croatia.

PloS one. 2019;(3):e0214122
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Abstract

Branched chain amino acids (BCAA) are essential elements of the human diet, which display increased plasma levels in obesity and regained particular interest as potential biomarkers for development of diabetes. To define determinants of insulin resistance (IR) we investigated 73 genes involved in BCAA metabolism or regulation by fine-scale haplotype mapping in two European populations with metabolic syndrome. French and Romanians (n = 465) were genotyped for SNPs (Affymetrix) and enriched by imputation (BEAGLE 4.1) at 1000 genome project density. Initial association hits detected by sliding window were refined (HAPLOVIEW 3.1 and PHASE 2.1) and correlated to homeostasis model assessment (HOMAIR) index, in vivo insulin sensitivity (SI) and BCAA plasma levels (ANOVA). Four genomic regions were associated with IR located downstream of MUT, AACS, SLC6A15 and PRKCA genes (P between 9.3 and 3.7 x 10-5). Inferred haplotypes up to 13 SNPs length were associated with IR (e.g. MUT gene with P < 4.9 x 10-5; Bonferroni 1.3 x 10-3) and synergistic to HOMAIR. SNPs in the same regions were also associated with one order of magnitude lower P values (e.g. rs20167284 in the MUT gene with P < 1.27 x 10-4) and replicated in Mediterranean samples (n = 832). In French, influential haplotypes (OR > 2.0) were correlated with in vivo insulin sensitivity (1/SI) except for SLC6A15 gene. Association of these genes with BCAA levels was variable, but influential haplotypes confirmed implication of MUT from BCAA metabolism as well as a role of regulatory genes (AACS and PRKCA) and suggested potential changes in transcriptional activity. These data drive attention towards new regulatory regions involved in IR in relation with BCAA and show the ability of haplotypes in phased DNA to detect signals complimentary to SNPs, which may be useful in designing genetic markers for clinical applications in ethnic populations.

Methodological quality

Publication Type : Clinical Trial ; Multicenter Study

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