Exome sequencing reveals novel genetic loci influencing obesity-related traits in Hispanic children.

TitleExome sequencing reveals novel genetic loci influencing obesity-related traits in Hispanic children.
Publication TypeJournal Article
Year of Publication2017
AuthorsSabo, A, Mishra, P, Dugan-Perez, S, V Voruganti, S, Kent, JW, Kalra, D, Cole, SA, Comuzzie, AG, Muzny, DM, Gibbs, RA, Butte, NF
JournalObesity (Silver Spring)
Volume25
Issue7
Pagination1270-1276
Date Published2017 07
ISSN1930-739X
KeywordsAdolescent, ATPases Associated with Diverse Cellular Activities, Body Mass Index, Body Weight, Child, Child, Preschool, Cohort Studies, Exome, Genetic Loci, Genome-Wide Association Study, Hispanic Americans, Humans, Membrane Proteins, Pediatric Obesity, Polymorphism, Single Nucleotide, Risk Factors, Sequence Analysis, DNA, Software, Waist Circumference, Young Adult
Abstract

OBJECTIVE: To perform whole exome sequencing in 928 Hispanic children and identify variants and genes associated with childhood obesity.

METHODS: Single-nucleotide variants (SNVs) were identified from Illumina whole exome sequencing data using integrated read mapping, variant calling, and an annotation pipeline (Mercury). Association analyses of 74 obesity-related traits and exonic variants were performed using SeqMeta software. Rare autosomal variants were analyzed using gene-based association analyses, and common autosomal variants were analyzed at the SNV level.

RESULTS: (1) Rare exonic variants in 10 genes and 16 common SNVs in 11 genes that were associated with obesity traits in a cohort of Hispanic children were identified, (2) novel rare variants in peroxisome biogenesis factor 1 (PEX1) associated with several obesity traits (weight, weight z score, BMI, BMI z score, waist circumference, fat mass, trunk fat mass) were discovered, and (3) previously reported SNVs associated with childhood obesity were replicated.

CONCLUSIONS: Convergence of whole exome sequencing, a family-based design, and extensive phenotyping discovered novel rare and common variants associated with childhood obesity. Linking PEX1 to obesity phenotypes poses a novel mechanism of peroxisomal biogenesis and metabolism underlying the development of childhood obesity.

DOI10.1002/oby.21869
Alternate JournalObesity (Silver Spring)
PubMed ID28508493
PubMed Central IDPMC5687071
Grant ListR01 DK059264 / DK / NIDDK NIH HHS / United States
C06 RR017515 / RR / NCRR NIH HHS / United States
U54 HG003273 / HG / NHGRI NIH HHS / United States
C06 RR013556 / RR / NCRR NIH HHS / United States
R01 DK092238 / DK / NIDDK NIH HHS / United States
R01 DK080457 / DK / NIDDK NIH HHS / United States
P30 DK056350 / DK / NIDDK NIH HHS / United States
UM1 HG008898 / HG / NHGRI NIH HHS / United States
R01 DK074387 / DK / NIDDK NIH HHS / United States