Abstract 49: A Genome-wide Meta-analysis of the Combined Influence of Physical Activity and Genetic Variants on Body Fat Distribution in 94,779 Individuals of European Descent

Circulation ◽  
2014 ◽  
Vol 129 (suppl_1) ◽  
Author(s):  
Mariaelisa Graff ◽  
L Xue ◽  
Tuomas O Kilpeläinen ◽  
Anne Justice ◽  
Thomas Winkler ◽  
...  

Central adiposity, assessed by waist-to-hip ratio (WHR), has been associated with increased risk for cardiovascular disease. Both genetic and lifestyle factors, including physical inactivity, have been independently associated with WHR adjusted for BMI (WHRadjBMI). Physical activity (PA) is an important component of interventions for reducing or preventing central adiposity and has been shown to attenuate genetic influences on adiposity. However, the influence of PA on loci associated with central fat, independent of total body fat, is unknown. Our objective was to identify genetic variants whose effects on WHRadjBMI are modified by PA. To this end, we performed a meta-analysis of 36 genome-wide association studies, including 94,779 individuals of European ancestry. PA was standardized within each study (physically active and inactive) with the lowest quintile being defined as inactive. WHR was adjusted for BMI, age, and age 2 in men and women separately. Each study tested the SNP x PA interaction alone, and also tested the joint effects of both the interaction and SNP main effect using a two degree of freedom (2df) test. We pooled the results from individual studies using fixed-effects inverse variance weighted meta-analysis in men and women combined and separately. The 2df joint test reached genome-wide significance (p<5e -8 ) for 23 loci, which included 11 novel loci for WHRadjBMI. Of these 11 loci, 7 were identified in women only, and one in men only. For each of the 23 loci, the association of the joint test was primarily driven by the SNP main effect on WHRadjBMI, rather than its interaction with PA. When we examined the interaction effects of the 23 loci, separately from main effect, the interaction reached nominal significance for 11 loci (5 of these were novel): e.g. established loci in/near LYPLAL1 (p=1.0e -7 ), VEGFA (p=3.8e -4 ), TBX15 (p=2.1e -5 in women), and RSPO3 (p=5.5e -3 ), and novel (in women only), in/near TMEM131 (p =3.2e -4 ), FAM186A (p=4.1e -4 ), and FLJ45974 (p=1.9e -3 ). In each case, the effect of the WHRadjBMI-increasing allele was smaller in the active group than in the inactive group; e.g. for the SNP near LYPLAL1 , in the active versus inactive: β[SE] = 0.024(0.036) vs 0.215(0.084), respectively. For the interaction term alone, no loci reached genome-wide significance, but a search at P<1e -6 revealed 3 additional novel loci; 2 in men and women combined (in/near MYO18B and COX11P ) and 1 in men only (in SNW1 ). Our findings suggest that joint tests of main and interaction effects help elucidate the genetic basis of abdominal obesity and that genetic effects are larger in physically inactive compared to active individuals. To follow-up our initial findings, we are currently collecting data from 25 additional studies with genome-wide or Metabochip data.

2012 ◽  
Vol 141 (1) ◽  
pp. 40-47 ◽  
Author(s):  
Rui Zhang ◽  
Ji-Dong Yan ◽  
Robert K. Valenzuela ◽  
She-Min Lu ◽  
Xiao-Yun Du ◽  
...  

2018 ◽  
Vol 28 (1) ◽  
pp. 166-174 ◽  
Author(s):  
Sara L Pulit ◽  
Charli Stoneman ◽  
Andrew P Morris ◽  
Andrew R Wood ◽  
Craig A Glastonbury ◽  
...  

Abstract More than one in three adults worldwide is either overweight or obese. Epidemiological studies indicate that the location and distribution of excess fat, rather than general adiposity, are more informative for predicting risk of obesity sequelae, including cardiometabolic disease and cancer. We performed a genome-wide association study meta-analysis of body fat distribution, measured by waist-to-hip ratio (WHR) adjusted for body mass index (WHRadjBMI), and identified 463 signals in 346 loci. Heritability and variant effects were generally stronger in women than men, and we found approximately one-third of all signals to be sexually dimorphic. The 5% of individuals carrying the most WHRadjBMI-increasing alleles were 1.62 times more likely than the bottom 5% to have a WHR above the thresholds used for metabolic syndrome. These data, made publicly available, will inform the biology of body fat distribution and its relationship with disease.


2018 ◽  
pp. 57-69 ◽  
Author(s):  
Till F. M. Andlauer ◽  
Bertram Müller-Myhsok ◽  
Stephan Ripke

Over more than the last decade, hypothesis-free genome-wide association studies (GWAS) have been widely used to detect genetic factors influencing phenotypes of interest. The basic principle of GWAS has been unchanged since the beginning: a series of univariate tests is conducted on all genetic variants available across the genome. We present study designs and commonly used methods for genome-wide studies, with a focus on the analysis of common variants. The basic concepts required for an application of GWAS in psychiatric genetics are introduced, from power calculation to meta-analysis. This chapter will help the reader in gaining the knowledge required for participation in and realization of GWAS of both qualitative and quantitative traits.


2019 ◽  
Vol 20 (10) ◽  
pp. 765-780 ◽  
Author(s):  
Diana Cruz ◽  
Ricardo Pinto ◽  
Margarida Freitas-Silva ◽  
José Pedro Nunes ◽  
Rui Medeiros

Atrial fibrillation (AF) and stroke are included in a group of complex traits that have been approached regarding of their study by susceptibility genetic determinants. Since 2007, several genome-wide association studies (GWAS) aiming to identify genetic variants modulating AF risk have been conducted. Thus, 11 GWAS have identified 26 SNPs (p < 5 × 10-2), of which 19 reached genome-wide significance (p < 5 × 10-8). From those variants, seven were also associated with cardioembolic stroke and three reached genome-wide significance in stroke GWAS. These associations may shed a light on putative shared etiologic mechanisms between AF and cardioembolic stroke. Additionally, some of these identified variants have been incorporated in genetic risk scores in order to elucidate new approaches of stroke prediction, prevention and treatment.


2020 ◽  
Vol 105 (12) ◽  
pp. 3854-3864
Author(s):  
Jin-Fang Chai ◽  
Shih-Ling Kao ◽  
Chaolong Wang ◽  
Victor Jun-Yu Lim ◽  
Ing Wei Khor ◽  
...  

Abstract Context Glycated hemoglobin A1c (HbA1c) level is used to screen and diagnose diabetes. Genetic determinants of HbA1c can vary across populations and many of the genetic variants influencing HbA1c level were specific to populations. Objective To discover genetic variants associated with HbA1c level in nondiabetic Malay individuals. Design and Participants We conducted a genome-wide association study (GWAS) analysis for HbA1c using 2 Malay studies, the Singapore Malay Eye Study (SiMES, N = 1721 on GWAS array) and the Living Biobank study (N = 983 on GWAS array and whole-exome sequenced). We built a Malay-specific reference panel to impute ethnic-specific variants and validate the associations with HbA1c at ethnic-specific variants. Results Meta-analysis of the 1000 Genomes imputed array data identified 4 loci at genome-wide significance (P &lt; 5 × 10-8). Of the 4 loci, 3 (ADAM15, LINC02226, JUP) were novel for HbA1c associations. At the previously reported HbA1c locus ATXN7L3-G6PC3, association analysis using the exome data fine-mapped the HbA1c associations to a 27-bp deletion (rs769664228) at SLC4A1 that reduced HbA1c by 0.38 ± 0.06% (P = 3.5 × 10-10). Further imputation of this variant in SiMES confirmed the association with HbA1c at SLC4A1. We also showed that these genetic variants influence HbA1c level independent of glucose level. Conclusion We identified a deletion at SLC4A1 associated with HbA1c in Malay. The nonglycemic lowering of HbA1c at rs769664228 might cause individuals carrying this variant to be underdiagnosed for diabetes or prediabetes when HbA1c is used as the only diagnostic test for diabetes.


2014 ◽  
Vol 51 (9) ◽  
pp. 596-604 ◽  
Author(s):  
Yolande F M Ramos ◽  
Sarah Metrustry ◽  
Nigel Arden ◽  
Anne C Bay-Jensen ◽  
Marian Beekman ◽  
...  

The Lancet ◽  
2016 ◽  
Vol 388 (10051) ◽  
pp. 1302-1310 ◽  
Author(s):  
Ulf Ekelund ◽  
Jostein Steene-Johannessen ◽  
Wendy J Brown ◽  
Morten Wang Fagerland ◽  
Neville Owen ◽  
...  

2018 ◽  
Vol 39 (04) ◽  
pp. 314-321 ◽  
Author(s):  
Stuart Kim ◽  
John Ioannidis ◽  
Marwa Ahmed ◽  
Andrew Avins ◽  
John Kleimeyer ◽  
...  

AbstractPlantar fascial disorder is comprised of plantar fasciitis and plantar fibromatosis. Plantar fasciitis is the most common cause of heel pain, especially for athletes involved in running and jumping sports. Plantar fibromatosis is a rare fibrous hyperproliferation of the deep connective tissue of the foot. To identify genetic loci associated with plantar fascial disorders, a genome-wide association screen was performed using publically available data from the Research Program in Genes, Environment and Health including 21,624 cases of plantar fascial disorders and 80,879 controls. One indel (chr5:118704153:D) and one SNP (rs62051384) showed an association with plantar fascial disorders at genome-wide significance (p<5×10−8) with small effects (odds ratios=0.93 and 1.07 per allele, respectively). The indel chr5:118704153:D is located within TNFAIP8 (encodes a protein induced by TNF alpha) and rs62051384 is located within WWP2 (which is involved in proteasomal degradation). These DNA variants may be informative in explaining why some individuals are at higher risk for plantar fascial disorders than others.


2018 ◽  
Vol 2018 ◽  
pp. 1-11 ◽  
Author(s):  
Chuan Qiu ◽  
Hui Shen ◽  
Xiaoying Fu ◽  
Chao Xu ◽  
Hongwen Deng

Osteoporosis is a serious public health issue, which is mostly characterized by low bone mineral density (BMD). To search for additional genetic susceptibility loci underlying BMD variation, an effective strategy is to focus on testing of specific variants with high potential of functional effects. Single nucleotide polymorphisms (SNPs) that introduce or disrupt CpG dinucleotides (CpG-SNPs) may alter DNA methylation levels and thus represent strong candidate functional variants. Here, we performed a targeted GWAS for 63,627 potential functional CpG-SNPs that may affect DNA methylation in bone-related cells, in five independent cohorts (n=5905). By meta-analysis, 9 CpG-SNPs achieved a genome-wide significance level (p<7.86×10−7) for association with lumbar spine BMD and additional 15 CpG-SNPs showed suggestive significant (p<5.00×10−5) association, of which 2 novel SNPs rs7231498 (NFATC1) and rs7455028 (ESR1) also reached a genome-wide significance level in the joint analysis. Several identified CpG-SNPs were mapped to genes that have not been reported for association with BMD in previous GWAS, such as NEK3 and NFATC1 genes, highlighting the enhanced power of targeted association analysis for identification of novel associations that were missed by traditional GWAS. Interestingly, several genomic regions, such as NEK3 and LRP5 regions, contained multiple significant/suggestive CpG-SNPs for lumbar spine BMD, suggesting that multiple neighboring CpG-SNPs may synergistically mediate the DNA methylation level and gene expression pattern of target genes. Furthermore, functional annotation analyses suggested a strong regulatory potential of the identified BMD-associated CpG-SNPs and a significant enrichment in biological processes associated with protein localization and protein signal transduction. Our results provided novel insights into the genetic basis of BMD variation and highlighted the close connections between genetic and epigenetic mechanisms of complex disease.


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