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Functionally Significant Variants in Genes Associated with Abdominal Obesity: A Review. J Pers Med 2023; 13:jpm13030460. [PMID: 36983642 PMCID: PMC10056771 DOI: 10.3390/jpm13030460] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/15/2022] [Revised: 02/23/2023] [Accepted: 02/26/2023] [Indexed: 03/05/2023] Open
Abstract
The high prevalence of obesity and of its associated diseases is a major problem worldwide. Genetic predisposition and the influence of environmental factors contribute to the development of obesity. Changes in the structure and functional activity of genes encoding adipocytokines are involved in the predisposition to weight gain and obesity. In this review, variants in genes associated with adipocyte function are examined, as are variants in genes associated with metabolic aberrations and the accompanying disorders in visceral obesity.
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Starling AP, Wood C, Liu C, Kechris K, Yang IV, Friedman C, Thomas DSK, Peel JL, Adgate JL, Magzamen S, Martenies SE, Allshouse WB, Dabelea D. Ambient air pollution during pregnancy and DNA methylation in umbilical cord blood, with potential mediation of associations with infant adiposity: The Healthy Start study. ENVIRONMENTAL RESEARCH 2022; 214:113881. [PMID: 35835166 PMCID: PMC10402394 DOI: 10.1016/j.envres.2022.113881] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/18/2021] [Revised: 06/11/2022] [Accepted: 07/06/2022] [Indexed: 06/15/2023]
Abstract
BACKGROUND Prenatal exposure to ambient air pollution has been associated with adverse offspring health outcomes. Childhood health effects of prenatal exposures may be mediated through changes to DNA methylation detectable at birth. METHODS Among 429 non-smoking women in a cohort study of mother-infant pairs in Colorado, USA, we estimated associations between prenatal exposure to ambient fine particulate matter (PM2.5) and ozone (O3), and epigenome-wide DNA methylation of umbilical cord blood cells at delivery (2010-2014). We calculated average PM2.5 and O3 in each trimester of pregnancy and the full pregnancy using inverse-distance-weighted interpolation. We fit linear regression models adjusted for potential confounders and cell proportions to estimate associations between air pollutants and methylation at each of 432,943 CpGs. Differentially methylated regions (DMRs) were identified using comb-p. Previously in this cohort, we reported positive associations between 3rd trimester O3 exposure and infant adiposity at 5 months of age. Here, we quantified the potential for mediation of that association by changes in DNA methylation in cord blood. RESULTS We identified several DMRs for each pollutant and period of pregnancy. The greatest number of significant DMRs were associated with third trimester PM2.5 (21 DMRs). No single CpGs were associated with air pollutants at a false discovery rate <0.05. We found that up to 8% of the effect of 3rd trimester O3 on 5-month adiposity may be mediated by locus-specific methylation changes, but mediation estimates were not statistically significant. CONCLUSIONS Differentially methylated regions in cord blood were identified in association with maternal exposure to PM2.5 and O3. Genes annotated to the significant sites played roles in cardiometabolic disease, immune function and inflammation, and neurologic disorders. We found limited evidence of mediation by DNA methylation of associations between third trimester O3 exposure and 5-month infant adiposity.
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Affiliation(s)
- Anne P Starling
- Department of Epidemiology, Colorado School of Public Health, University of Colorado Anschutz Medical Campus, Aurora, CO, USA; Lifecourse Epidemiology of Adiposity and Diabetes (LEAD) Center, University of Colorado Anschutz Medical Campus, Aurora, CO, USA.
| | - Cheyret Wood
- Department of Biostatistics and Informatics, Colorado School of Public Health, University of Colorado Anschutz Medical Campus, Aurora, CO, USA
| | - Cuining Liu
- Department of Biostatistics and Informatics, Colorado School of Public Health, University of Colorado Anschutz Medical Campus, Aurora, CO, USA
| | - Katerina Kechris
- Department of Biostatistics and Informatics, Colorado School of Public Health, University of Colorado Anschutz Medical Campus, Aurora, CO, USA
| | - Ivana V Yang
- Department of Epidemiology, Colorado School of Public Health, University of Colorado Anschutz Medical Campus, Aurora, CO, USA; Division of Biomedical Informatics and Personalized Medicine, Department of Medicine, University of Colorado School of Medicine, Aurora, CO, USA; Center for Genes, Environment and Health, National Jewish Health, Denver, CO, USA
| | - Chloe Friedman
- Department of Epidemiology, Colorado School of Public Health, University of Colorado Anschutz Medical Campus, Aurora, CO, USA; Lifecourse Epidemiology of Adiposity and Diabetes (LEAD) Center, University of Colorado Anschutz Medical Campus, Aurora, CO, USA
| | - Deborah S K Thomas
- Department of Geography and Earth Sciences, University of North Carolina Charlotte, NC, USA
| | - Jennifer L Peel
- Department of Environmental and Radiological Health Sciences, Colorado State University, Fort Collins, CO, USA
| | - John L Adgate
- Department of Environmental and Occupational Health, Colorado School of Public Health, University of Colorado Anschutz Medical Campus, Aurora, CO, USA
| | - Sheryl Magzamen
- Department of Environmental and Radiological Health Sciences, Colorado State University, Fort Collins, CO, USA; Department of Epidemiology, Colorado School of Public Health, Colorado State University, Fort Collins, CO, USA
| | - Sheena E Martenies
- Department of Environmental and Radiological Health Sciences, Colorado State University, Fort Collins, CO, USA; Department of Kinesiology and Community Health, University of Illinois at Urbana-Champaign, Urbana, IL, USA
| | - William B Allshouse
- Department of Environmental and Occupational Health, Colorado School of Public Health, University of Colorado Anschutz Medical Campus, Aurora, CO, USA
| | - Dana Dabelea
- Department of Epidemiology, Colorado School of Public Health, University of Colorado Anschutz Medical Campus, Aurora, CO, USA; Lifecourse Epidemiology of Adiposity and Diabetes (LEAD) Center, University of Colorado Anschutz Medical Campus, Aurora, CO, USA; Department of Pediatrics, School of Medicine, University of Colorado Anschutz Medical Campus, Aurora, CO, USA
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Wagner A, Schosserer M. The epitranscriptome in ageing and stress resistance: A systematic review. Ageing Res Rev 2022; 81:101700. [PMID: 35908668 DOI: 10.1016/j.arr.2022.101700] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2022] [Revised: 07/15/2022] [Accepted: 07/25/2022] [Indexed: 01/31/2023]
Abstract
Modifications of RNA, collectively called the "epitranscriptome", might provide novel biomarkers and innovative targets for interventions in geroscience but are just beginning to be studied in the context of ageing and stress resistance. RNA modifications modulate gene expression by affecting translation initiation and speed, miRNA binding, RNA stability, and RNA degradation. Nonetheless, the precise underlying molecular mechanisms and physiological consequences of most alterations of the epitranscriptome are still only poorly understood. We here systematically review different types of modifications of rRNA, tRNA and mRNA, the methodology to analyze them, current challenges in the field, and human disease associations. Furthermore, we compiled evidence for a connection between individual enzymes, which install RNA modifications, and lifespan in yeast, worm and fly. We also included resistance to different stressors and competitive fitness as search criteria for genes potentially relevant to ageing. Promising candidates identified by this approach include RCM1/NSUN5, RRP8, and F33A8.4/ZCCHC4 that introduce base methylations in rRNA, the methyltransferases DNMT2 and TRM9/ALKBH8, as well as factors involved in the thiolation or A to I editing in tRNA, and finally the m6A machinery for mRNA.
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Affiliation(s)
- Anja Wagner
- Institute of Molecular Biotechnology, University of Natural Resources and Life Sciences, Vienna, Austria
| | - Markus Schosserer
- Institute of Molecular Biotechnology, University of Natural Resources and Life Sciences, Vienna, Austria; Institute of Medical Genetics, Center for Pathobiochemistry and Genetics, Medical University of Vienna, Vienna, Austria; Austrian Cluster for Tissue Regeneration, Vienna, Austria.
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Senabouth A, Daniszewski M, Lidgerwood GE, Liang HH, Hernández D, Mirzaei M, Keenan SN, Zhang R, Han X, Neavin D, Rooney L, Lopez Sanchez MIG, Gulluyan L, Paulo JA, Clarke L, Kearns LS, Gnanasambandapillai V, Chan CL, Nguyen U, Steinmann AM, McCloy RA, Farbehi N, Gupta VK, Mackey DA, Bylsma G, Verma N, MacGregor S, Watt MJ, Guymer RH, Powell JE, Hewitt AW, Pébay A. Transcriptomic and proteomic retinal pigment epithelium signatures of age-related macular degeneration. Nat Commun 2022; 13:4233. [PMID: 35882847 PMCID: PMC9325891 DOI: 10.1038/s41467-022-31707-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/04/2021] [Accepted: 06/29/2022] [Indexed: 11/08/2022] Open
Abstract
There are currently no treatments for geographic atrophy, the advanced form of age-related macular degeneration. Hence, innovative studies are needed to model this condition and prevent or delay its progression. Induced pluripotent stem cells generated from patients with geographic atrophy and healthy individuals were differentiated to retinal pigment epithelium. Integrating transcriptional profiles of 127,659 retinal pigment epithelium cells generated from 43 individuals with geographic atrophy and 36 controls with genotype data, we identify 445 expression quantitative trait loci in cis that are asssociated with disease status and specific to retinal pigment epithelium subpopulations. Transcriptomics and proteomics approaches identify molecular pathways significantly upregulated in geographic atrophy, including in mitochondrial functions, metabolic pathways and extracellular cellular matrix reorganization. Five significant protein quantitative trait loci that regulate protein expression in the retinal pigment epithelium and in geographic atrophy are identified - two of which share variants with cis- expression quantitative trait loci, including proteins involved in mitochondrial biology and neurodegeneration. Investigation of mitochondrial metabolism confirms mitochondrial dysfunction as a core constitutive difference of the retinal pigment epithelium from patients with geographic atrophy. This study uncovers important differences in retinal pigment epithelium homeostasis associated with geographic atrophy.
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Affiliation(s)
- Anne Senabouth
- Garvan-Weizmann Centre for Cellular Genomics, Garvan Institute of Medical Research, Sydney, NSW, 2010, Australia
| | - Maciej Daniszewski
- Department of Anatomy and Physiology, The University of Melbourne, Parkville, VIC, 3010, Australia
- Centre for Eye Research Australia, Royal Victorian Eye and Ear Hospital, East Melbourne, VIC, 3002, Australia
| | - Grace E Lidgerwood
- Department of Anatomy and Physiology, The University of Melbourne, Parkville, VIC, 3010, Australia
- Centre for Eye Research Australia, Royal Victorian Eye and Ear Hospital, East Melbourne, VIC, 3002, Australia
| | - Helena H Liang
- Centre for Eye Research Australia, Royal Victorian Eye and Ear Hospital, East Melbourne, VIC, 3002, Australia
| | - Damián Hernández
- Department of Anatomy and Physiology, The University of Melbourne, Parkville, VIC, 3010, Australia
- Centre for Eye Research Australia, Royal Victorian Eye and Ear Hospital, East Melbourne, VIC, 3002, Australia
| | - Mehdi Mirzaei
- Macquarie Medical School, Faculty of Medicine, Health and Human Sciences, Macquarie University, Sydney, NSW, 2109, Australia
| | - Stacey N Keenan
- Department of Anatomy and Physiology, The University of Melbourne, Parkville, VIC, 3010, Australia
| | - Ran Zhang
- Garvan-Weizmann Centre for Cellular Genomics, Garvan Institute of Medical Research, Sydney, NSW, 2010, Australia
| | - Xikun Han
- QIMR Berghofer Medical Research Institute, Brisbane, QLD, 4006, Australia
| | - Drew Neavin
- Garvan-Weizmann Centre for Cellular Genomics, Garvan Institute of Medical Research, Sydney, NSW, 2010, Australia
| | - Louise Rooney
- Department of Anatomy and Physiology, The University of Melbourne, Parkville, VIC, 3010, Australia
| | | | - Lerna Gulluyan
- Department of Anatomy and Physiology, The University of Melbourne, Parkville, VIC, 3010, Australia
| | - Joao A Paulo
- Department of Cell Biology, Harvard Medical School, Boston, MA, 02115, USA
| | - Linda Clarke
- Centre for Eye Research Australia, Royal Victorian Eye and Ear Hospital, East Melbourne, VIC, 3002, Australia
| | - Lisa S Kearns
- Centre for Eye Research Australia, Royal Victorian Eye and Ear Hospital, East Melbourne, VIC, 3002, Australia
| | | | - Chia-Ling Chan
- Garvan-Weizmann Centre for Cellular Genomics, Garvan Institute of Medical Research, Sydney, NSW, 2010, Australia
| | - Uyen Nguyen
- Garvan-Weizmann Centre for Cellular Genomics, Garvan Institute of Medical Research, Sydney, NSW, 2010, Australia
| | - Angela M Steinmann
- Garvan-Weizmann Centre for Cellular Genomics, Garvan Institute of Medical Research, Sydney, NSW, 2010, Australia
| | - Rachael A McCloy
- Garvan-Weizmann Centre for Cellular Genomics, Garvan Institute of Medical Research, Sydney, NSW, 2010, Australia
| | - Nona Farbehi
- Garvan-Weizmann Centre for Cellular Genomics, Garvan Institute of Medical Research, Sydney, NSW, 2010, Australia
| | - Vivek K Gupta
- Macquarie Medical School, Faculty of Medicine, Health and Human Sciences, Macquarie University, Sydney, NSW, 2109, Australia
| | - David A Mackey
- Lions Eye Institute, Centre for Vision Sciences, University of Western Australia, Perth, WA, 6009, Australia
- School of Medicine, University of Tasmania, Hobart, TAS, 7005, Australia
| | - Guy Bylsma
- Lions Eye Institute, Centre for Vision Sciences, University of Western Australia, Perth, WA, 6009, Australia
| | - Nitin Verma
- School of Medicine, University of Tasmania, Hobart, TAS, 7005, Australia
| | - Stuart MacGregor
- QIMR Berghofer Medical Research Institute, Brisbane, QLD, 4006, Australia
| | - Matthew J Watt
- Department of Anatomy and Physiology, The University of Melbourne, Parkville, VIC, 3010, Australia
| | - Robyn H Guymer
- Centre for Eye Research Australia, Royal Victorian Eye and Ear Hospital, East Melbourne, VIC, 3002, Australia
- Department of Surgery, Ophthalmology, Royal Victorian Eye and Ear Hospital, The University of Melbourne, East Melbourne, VIC, 3002, Australia
| | - Joseph E Powell
- Garvan-Weizmann Centre for Cellular Genomics, Garvan Institute of Medical Research, Sydney, NSW, 2010, Australia.
- UNSW Cellular Genomics Futures Institute, University of New South Wales, Sydney, NSW, 2052, Australia.
| | - Alex W Hewitt
- Centre for Eye Research Australia, Royal Victorian Eye and Ear Hospital, East Melbourne, VIC, 3002, Australia.
- School of Medicine, University of Tasmania, Hobart, TAS, 7005, Australia.
- Department of Surgery, Ophthalmology, Royal Victorian Eye and Ear Hospital, The University of Melbourne, East Melbourne, VIC, 3002, Australia.
- Menzies Institute for Medical Research, University of Tasmania, Hobart, TAS, 7000, Australia.
| | - Alice Pébay
- Department of Anatomy and Physiology, The University of Melbourne, Parkville, VIC, 3010, Australia.
- Centre for Eye Research Australia, Royal Victorian Eye and Ear Hospital, East Melbourne, VIC, 3002, Australia.
- Department of Surgery, Royal Melbourne Hospital, The University of Melbourne, Parkville, VIC, 3010, Australia.
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Chou HH, Hsu LA, Juang JMJ, Chiang FT, Teng MS, Wu S, Ko YL. Synergistic Effects of Weighted Genetic Risk Scores and Resistin and sST2 Levels on the Prognostication of Long-Term Outcomes in Patients with Coronary Artery Disease. Int J Mol Sci 2022; 23:ijms23084292. [PMID: 35457109 PMCID: PMC9025936 DOI: 10.3390/ijms23084292] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/20/2022] [Revised: 04/10/2022] [Accepted: 04/11/2022] [Indexed: 02/04/2023] Open
Abstract
Resistin and soluble suppression of tumorigenicity 2 (sST2) are useful predictors in patients with coronary artery disease (CAD). Their serum levels are significantly attributed to variations in RETN and IL1RL1 loci. We investigated candidate variants in the RETN locus for resistin levels and those in the IL1RL1 locus for sST2 levels and evaluated the prognostication of these two biomarkers and the corresponding variants for long-term outcomes in the patients with CAD. We included 4652, 557, and 512 Chinese participants from the Taiwan Biobank (TWB), cardiovascular health examination (CH), and CAD cohorts, respectively. Candidate variants in RETN and IL1RL1 were investigated using whole-genome sequence (WGS) and genome-wide association study (GWAS) data in the TWB cohort. The weighted genetic risk scores (WGRS) of RETN and IL1RL1 with resistin and sST2 levels were calculated. Kaplan–Meier curves were used to analyze the prognostication of resistin and sST2 levels, WGRS of RETN and IL1RL1, and their combinations. Three RETN variants (rs3219175, rs370006313, and rs3745368) and two IL1RL1 variants (rs10183388 and rs4142132) were independently associated with resistin and sST2 levels as per the WGS and GWAS data in the TWB cohort and were further validated in the CH and CAD cohorts. In combination, these variants explained 53.7% and 28.0% of the variation in resistin and sST2 levels, respectively. In the CAD cohort, higher resistin and sST2 levels predicted higher rates of all-cause mortality and major adverse cardiac events (MACEs) during long-term follow-up, but WGRS of RETN and IL1RL1 variants had no impact on these outcomes. A synergistic effect of certain combinations of biomarkers with RETN and IL1RL1 variants was found on the prognostication of long-term outcomes: Patients with high resistin levels/low RETN WGRS and those with high sST2 levels/low IL1RL1 WGRS had significantly higher all-cause mortality and MACEs rates, and those with both these combinations had the poorest outcomes. Both higher resistin and sST2 levels, but not RETN and IL1RL1 variants, predict poor long-term outcomes in patients with CAD. Furthermore, combining resistin and sST2 levels with the WGRS of RETN and IL1RL1 genotyping exerts a synergistic effect on the prognostication of CAD outcomes. Future studies including a large sample size of participants with different ethnic populations are needed to verify this finding.
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Affiliation(s)
- Hsin-Hua Chou
- Division of Cardiology, Department of Internal Medicine, Taipei Tzu Chi Hospital, Buddhist Tzu Chi Medical Foundation, New Taipei City 23142, Taiwan;
- School of Medicine, Tzu Chi University, Hualien 97004, Taiwan
| | - Lung-An Hsu
- Cardiovascular Division, Department of Internal Medicine, Chang Gung Memorial Hospital, Chang Gung University College of Medicine, Taoyuan 33305, Taiwan;
| | - Jyh-Ming Jimmy Juang
- Cardiovascular Center and Division of Cardiology, Department of Internal Medicine, National Taiwan University Hospital, Taipei 10002, Taiwan; (J.-M.J.J.); (F.-T.C.)
- College of Medicine, National Taiwan University, Taipei 10051, Taiwan
| | - Fu-Tien Chiang
- Cardiovascular Center and Division of Cardiology, Department of Internal Medicine, National Taiwan University Hospital, Taipei 10002, Taiwan; (J.-M.J.J.); (F.-T.C.)
- College of Medicine, National Taiwan University, Taipei 10051, Taiwan
- Cardiovascular Center and Division of Cardiology, Fu-Jen Catholic University Hospital, New Taipei City 24352, Taiwan
| | - Ming-Sheng Teng
- Department of Research, Taipei Tzu Chi Hospital, Buddhist Tzu Chi Medical Foundation, New Taipei City 23142, Taiwan; (M.-S.T.); (S.W.)
| | - Semon Wu
- Department of Research, Taipei Tzu Chi Hospital, Buddhist Tzu Chi Medical Foundation, New Taipei City 23142, Taiwan; (M.-S.T.); (S.W.)
- Department of Life Science, Chinese Culture University, Taipei 11114, Taiwan
| | - Yu-Lin Ko
- Division of Cardiology, Department of Internal Medicine, Taipei Tzu Chi Hospital, Buddhist Tzu Chi Medical Foundation, New Taipei City 23142, Taiwan;
- School of Medicine, Tzu Chi University, Hualien 97004, Taiwan
- Department of Research, Taipei Tzu Chi Hospital, Buddhist Tzu Chi Medical Foundation, New Taipei City 23142, Taiwan; (M.-S.T.); (S.W.)
- Correspondence: ; Tel.: +886-2-6628-9779 (ext. 5355); Fax: +886-2-6628-9009
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Yumi Noronha N, da Silva Rodrigues G, Harumi Yonehara Noma I, Fernanda Cunha Brandao C, Pereira Rodrigues K, Colello Bruno A, Sae-Lee C, Moriguchi Watanabe L, Augusta de Souza Pinhel M, Mello Schineider I, Luciano de Almeida M, Barbosa Júnior F, Araújo Morais D, Tavares de Sousa Júnior W, Plösch T, Roberto Bueno Junior C, Barbosa Nonino C. 14-weeks combined exercise epigenetically modulated 118 genes of menopausal women with prediabetes. Front Endocrinol (Lausanne) 2022; 13:895489. [PMID: 36046788 PMCID: PMC9423096 DOI: 10.3389/fendo.2022.895489] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 03/13/2022] [Accepted: 07/19/2022] [Indexed: 11/19/2022] Open
Abstract
BACKGROUND Pre-diabetes precedes Diabetes Mellitus (DM) disease and is a critical period for hyperglycemia treatment, especially for menopausal women, considering all metabolic alterations due to hormonal changes. Recently, the literature has demonstrated the role of physical exercise in epigenetic reprogramming to modulate the gene expression patterns of metabolic conditions, such as hyperglycemia, and prevent DM development. In the present study, we hypothesized that physical exercise training could modify the epigenetic patterns of women with poor glycemic control. METHODS 48 post-menopause women aged 60.3 ± 4.5 years were divided according to their fasting blood glucose levels into two groups: Prediabetes Group, PG (n=24), and Normal Glucose Group, NGG (n=24). All participants performed 14 weeks of physical exercise three times a week. The Infinium Methylation EPIC BeadChip measured the participants' Different Methylated Regions (DMRs). RESULTS Before the intervention, the PG group had 12 DMRs compared to NGG. After the intervention, five DMRs remained different. Interestingly, when comparing the PG group before and after training, 118 DMRs were found. The enrichment analysis revealed that the genes were related to different biological functions such as energy metabolism, cell differentiation, and tumor suppression. CONCLUSION Physical exercise is a relevant alternative in treating hyperglycemia and preventing DM in post-menopause women with poor glycemic control.
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Affiliation(s)
- Natália Yumi Noronha
- Department of Internal Medicine, Ribeirão Preto Medical School, Ribeirão Preto, São Paulo, Brazil
| | - Guilherme da Silva Rodrigues
- Department of Internal Medicine, Ribeirão Preto Medical School, Ribeirão Preto, São Paulo, Brazil
- *Correspondence: Guilherme da Silva Rodrigues,
| | - Isabella Harumi Yonehara Noma
- Department of Clinical and Toxicological Analyses, School of Pharmaceutical Sciences, University of São Paulo, São Paulo, Brazil
| | - Camila Fernanda Cunha Brandao
- Department of Internal Medicine, Ribeirão Preto Medical School, Ribeirão Preto, São Paulo, Brazil
- Physical Education School, Minas Gerais State University, Divinópolis, Minas Gerais, Brazil
| | - Karine Pereira Rodrigues
- Department of Internal Medicine, Ribeirão Preto Medical School, Ribeirão Preto, São Paulo, Brazil
| | - Alexandre Colello Bruno
- Department of Radiotherapy, Ribeirão Preto Medical School Hospital and Clinics, University of São Paulo, Ribeirão Preto, São Paulo, Brazil
| | - Chanachai Sae-Lee
- Research Division, Faculty of Medicine, Siriraj Hospital, Mahidol University, Bangkok, Thailand
| | | | - Marcela Augusta de Souza Pinhel
- Department of Internal Medicine, Ribeirão Preto Medical School, Ribeirão Preto, São Paulo, Brazil
- Department of Molecular Biology, São José do Rio Preto Medical School, São José do Rio Preto, SP, Brazil
| | | | | | - Fernando Barbosa Júnior
- Department of Clinical Analysis, Toxicology and Food Sciences, School of Pharmaceutical Sciences of Ribeirão Preto, University of São Paulo, Ribeirão Preto, Brazil
| | - Déborah Araújo Morais
- Department of Clinical Analysis, Toxicology and Food Sciences, School of Pharmaceutical Sciences of Ribeirão Preto, University of São Paulo, Ribeirão Preto, Brazil
| | - Wellington Tavares de Sousa Júnior
- Department of Clinical Analysis, Toxicology and Food Sciences, School of Pharmaceutical Sciences of Ribeirão Preto, University of São Paulo, Ribeirão Preto, Brazil
| | - Torsten Plösch
- University Medical Center Groningen, Groningen, Netherlands
| | - Carlos Roberto Bueno Junior
- Department of Internal Medicine, Ribeirão Preto Medical School, Ribeirão Preto, São Paulo, Brazil
- Ribeirão Preto School of Physical Education and Sport, University of São Paulo, São Paulo, Brazil
| | - Carla Barbosa Nonino
- Department of Internal Medicine, Ribeirão Preto Medical School, Ribeirão Preto, São Paulo, Brazil
- Department of Health Sciences, Ribeirão Preto Medical School, Ribeirão Preto, São Paulo, Brazil
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Tariq S, Tariq S, Khaliq S, Lone KP. Serum Resistin Levels and Related Genetic Variants Are Associated With Bone Mineral Density in Postmenopausal Women. Front Endocrinol (Lausanne) 2022; 13:868120. [PMID: 35992125 PMCID: PMC9389046 DOI: 10.3389/fendo.2022.868120] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 02/17/2022] [Accepted: 06/20/2022] [Indexed: 11/13/2022] Open
Abstract
BACKGROUND Osteoporosis is a multifactorial disorder and a number of genetic variants or loci responsible for bone mineral density (BMD) have been identified. Resistin, a novel adipokine has diverse role in human body including its function in bone remodeling. The objective of this study was to see the association of serum resistin levels and related genetic variants (rs3931020, rs13144478) with BMD in postmenopausal females. METHODS This comparative analytical study was conducted on postmenopausal osteoporotic (n=101), osteopenic (n=77) and non-osteoporotic (n=74) females. For comparison and correlational analysis, Kruskal-Wallis test and Spearman's rho correlation were used respectively. Hardy-Weinberg equilibrium (HWE) was calculated by using Chi-square test (χ2). RESULTS There was significant difference in the serum levels of resistin (p <0.001), among the three groups. Significant negative correlation of resistin was observed with BMD at various sites. Serum resistin levels were significantly low in the rs3931020 AA homozygous genotype (p = 0.010), and significantly high in the rs13144478 AT heterozygous genotype (p = 0.020), BMD at all sites except left femoral neck was significantly high in rs3931020 AA genotype, while BMD at lumbar spine, left hip and total BMD were significantly low in the rs13144478 TT homozygotes. CONCLUSION High serum resistin levels are associated with low BMD and single nucleotide variation in rs3931020 and rs13144478 may lead to high serum resistin levels and low bone mineral density. Resistin can serve as a new genetic marker, potential therapeutic target and predictor of osteoporosis.
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Affiliation(s)
- Sundus Tariq
- Physiology, University Medical & Dental College, The University of Faisalabad, Faisalabad, Pakistan
- Physiology and Cell Biology, University of Health Sciences, Lahore, Pakistan
- *Correspondence: Saba Tariq, ; Sundus Tariq,
| | - Saba Tariq
- Pharmacology and Therapeutics, University Medical & Dental College, The University of Faisalabad, Faisalabad, Pakistan
- Pharmacology and Therapeutics, University of Health Sciences, Lahore, Pakistan
- *Correspondence: Saba Tariq, ; Sundus Tariq,
| | - Saba Khaliq
- Physiology and Cell Biology, University of Health Sciences, Lahore, Pakistan
| | - Khalid Parvez Lone
- Physiology/Metabolic Disorders, Government College University, Lahore, Pakistan
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Xu X, Li H, Wei Q, Li X, Shen Y, Guo G, Chen Y, He K, Liu C. Novel Targets in a High-Altitude Pulmonary Hypertension Rat Model Based on RNA-seq and Proteomics. Front Med (Lausanne) 2021; 8:742436. [PMID: 34805208 PMCID: PMC8595261 DOI: 10.3389/fmed.2021.742436] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/16/2021] [Accepted: 10/11/2021] [Indexed: 11/21/2022] Open
Abstract
High-altitude pulmonary hypertension (HAPH) is a complication arising from an inability to acclimatize to high altitude and is associated with high morbidity and mortality. We aimed to analyze the effects of macitentan, selexipag, riociguat, and reoxygenation on HAPH, and to screen possible targets of these treatments for future drug screening. Rats were subjected to hypobaric hypoxia for 35 days to induce HAPH, and treated with vehicle or selexipag, macitentan, riociguat, or with reoxygenation, from days 21 to 35. Selexipag, macitentan, and reoxygenation prevented an increase in mean pulmonary artery pressure and hypoxia-induced right ventricular hypertrophy, compared to the vehicle. Riociguat had little effect. RNA-seq and proteomics revealed strong correlations between responses to the three drugs, which had almost identical effects. GO-enrichment revealed that the differentially expressed genes included those involved in metabolic regulation, transcription, and translation. Various molecular pathways were annotated. Selexipag, macitentan, and reoxygenation ameliorated HAPH. Serpina1, Cryz, and Cmc1 were identified, via multi-omics screening, as key genes involved in HAPH. These findings provide new insights into the targeted drug mechanisms in HAPH.
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Affiliation(s)
- Xiang Xu
- Laboratory of Translational Medicine, Medical Innovation Research Division of Chinese PLA General Hospital, Beijing, China
| | - Hanlu Li
- Laboratory of Translational Medicine, Medical Innovation Research Division of Chinese PLA General Hospital, Beijing, China
| | - Qingxia Wei
- Laboratory of Translational Medicine, Medical Innovation Research Division of Chinese PLA General Hospital, Beijing, China
| | - Xin Li
- Laboratory of Translational Medicine, Medical Innovation Research Division of Chinese PLA General Hospital, Beijing, China.,Beijing Key Laboratory of Chronic Heart Failure Precision Medicine, Chinese PLA General Hospital, Beijing, China
| | - Yanying Shen
- Laboratory of Translational Medicine, Medical Innovation Research Division of Chinese PLA General Hospital, Beijing, China
| | - Ge Guo
- Laboratory of Translational Medicine, Medical Innovation Research Division of Chinese PLA General Hospital, Beijing, China
| | - Yibing Chen
- Laboratory of Translational Medicine, Medical Innovation Research Division of Chinese PLA General Hospital, Beijing, China
| | - Kunlun He
- Laboratory of Translational Medicine, Medical Innovation Research Division of Chinese PLA General Hospital, Beijing, China.,Beijing Key Laboratory of Chronic Heart Failure Precision Medicine, Chinese PLA General Hospital, Beijing, China
| | - Chunlei Liu
- Laboratory of Translational Medicine, Medical Innovation Research Division of Chinese PLA General Hospital, Beijing, China.,Beijing Key Laboratory of Chronic Heart Failure Precision Medicine, Chinese PLA General Hospital, Beijing, China
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9
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Nudel R, Appadurai V, Buil A, Nordentoft M, Werge T. Pleiotropy between language impairment and broader behavioral disorders-an investigation of both common and rare genetic variants. J Neurodev Disord 2021; 13:54. [PMID: 34773992 PMCID: PMC8590378 DOI: 10.1186/s11689-021-09403-z] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 10/15/2020] [Accepted: 10/22/2021] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND Language plays a major role in human behavior. For this reason, neurodevelopmental and psychiatric disorders in which linguistic ability is impaired could have a big impact on the individual's social interaction and general wellbeing. Such disorders tend to have a strong genetic component, but most past studies examined mostly the linguistic overlaps across these disorders; investigations into their genetic overlaps are limited. The aim of this study was to assess the potential genetic overlap between language impairment and broader behavioral disorders employing methods capturing both common and rare genetic variants. METHODS We employ polygenic risk scores (PRS) trained on specific language impairment (SLI) to evaluate genetic overlap across several disorders in a large case-cohort sample comprising ~13,000 autism spectrum disorder (ASD) cases, including cases of childhood autism and Asperger's syndrome, ~15,000 attention deficit/hyperactivity disorder (ADHD) cases, ~3000 schizophrenia cases, and ~21,000 population controls. We also examine rare variants in SLI/language-related genes in a subset of the sample that was exome-sequenced using the SKAT-O method. RESULTS We find that there is little evidence for genetic overlap between SLI and ADHD, schizophrenia, and ASD, the latter being in line with results of linguistic analyses in past studies. However, we observe a small, significant genetic overlap between SLI and childhood autism specifically, which we do not observe for SLI and Asperger's syndrome. Moreover, we observe that childhood autism cases have significantly higher SLI-trained PRS compared to Asperger's syndrome cases; these results correspond well to the linguistic profiles of both disorders. Our rare variant analyses provide suggestive evidence of association for specific genes with ASD, childhood autism, and schizophrenia. CONCLUSIONS Our study provides, for the first time, to our knowledge, genetic evidence for ASD subtypes based on risk variants for language impairment.
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Affiliation(s)
- Ron Nudel
- Institute of Biological Psychiatry, Mental Health Centre Sct. Hans, Mental Health Services Copenhagen, Roskilde, Denmark
- The Lundbeck Foundation Initiative for Integrative Psychiatric Research, iPSYCH, Aarhus, Denmark
- CORE - Copenhagen Research Centre for Mental Health, Mental Health Centre Copenhagen, Copenhagen University Hospital, Copenhagen, Denmark
| | - Vivek Appadurai
- Institute of Biological Psychiatry, Mental Health Centre Sct. Hans, Mental Health Services Copenhagen, Roskilde, Denmark
- The Lundbeck Foundation Initiative for Integrative Psychiatric Research, iPSYCH, Aarhus, Denmark
| | - Alfonso Buil
- Institute of Biological Psychiatry, Mental Health Centre Sct. Hans, Mental Health Services Copenhagen, Roskilde, Denmark
- The Lundbeck Foundation Initiative for Integrative Psychiatric Research, iPSYCH, Aarhus, Denmark
| | - Merete Nordentoft
- The Lundbeck Foundation Initiative for Integrative Psychiatric Research, iPSYCH, Aarhus, Denmark
- CORE - Copenhagen Research Centre for Mental Health, Mental Health Centre Copenhagen, Copenhagen University Hospital, Copenhagen, Denmark
- Department of Clinical Medicine, Faculty of Health and Medical Sciences, University of Copenhagen, Copenhagen, Denmark
| | - Thomas Werge
- Institute of Biological Psychiatry, Mental Health Centre Sct. Hans, Mental Health Services Copenhagen, Roskilde, Denmark.
- The Lundbeck Foundation Initiative for Integrative Psychiatric Research, iPSYCH, Aarhus, Denmark.
- Department of Clinical Medicine, Faculty of Health and Medical Sciences, University of Copenhagen, Copenhagen, Denmark.
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10
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Meeks KAC, Bentley AR, Gouveia MH, Chen G, Zhou J, Lei L, Adeyemo AA, Doumatey AP, Rotimi CN. Genome-wide analyses of multiple obesity-related cytokines and hormones informs biology of cardiometabolic traits. Genome Med 2021; 13:156. [PMID: 34620218 PMCID: PMC8499470 DOI: 10.1186/s13073-021-00971-2] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/13/2020] [Accepted: 09/16/2021] [Indexed: 12/15/2022] Open
Abstract
BACKGROUND A complex set of perturbations occur in cytokines and hormones in the etiopathogenesis of obesity and related cardiometabolic conditions such as type 2 diabetes (T2D). Evidence for the genetic regulation of these cytokines and hormones is limited, particularly in African-ancestry populations. In order to improve our understanding of the biology of cardiometabolic traits, we investigated the genetic architecture of a large panel of obesity- related cytokines and hormones among Africans with replication analyses in African Americans. METHODS We performed genome-wide association studies (GWAS) in 4432 continental Africans, enrolled from Ghana, Kenya, and Nigeria as part of the Africa America Diabetes Mellitus (AADM) study, for 13 obesity-related cytokines and hormones, including adipsin, glucose-dependent insulinotropic peptide (GIP), glucagon-like peptide-1 (GLP-1), interleukin-1 receptor antagonist (IL1-RA), interleukin-6 (IL-6), interleukin-10 (IL-10), leptin, plasminogen activator inhibitor-1 (PAI-1), resistin, visfatin, insulin, glucagon, and ghrelin. Exact and local replication analyses were conducted in African Americans (n = 7990). The effects of sex, body mass index (BMI), and T2D on results were investigated through stratified analyses. RESULTS GWAS identified 39 significant (P value < 5 × 10-8) loci across all 13 traits. Notably, 14 loci were African-ancestry specific. In this first GWAS for adipsin and ghrelin, we detected 13 and 4 genome-wide significant loci respectively. Stratified analyses by sex, BMI, and T2D showed a strong effect of these variables on detected loci. Eight novel loci were successfully replicated: adipsin (3), GIP (1), GLP-1 (1), and insulin (3). Annotation of these loci revealed promising links between these adipocytokines and cardiometabolic outcomes as illustrated by rs201751833 for adipsin and blood pressure and locus rs759790 for insulin level and T2D in lean individuals. CONCLUSIONS Our study identified genetic variants underlying variation in multiple adipocytokines, including the first loci for adipsin and ghrelin. We identified population differences in variants associated with adipocytokines and highlight the importance of stratification for discovery of loci. The high number of African-specific loci detected emphasizes the need for GWAS in African-ancestry populations, as these loci could not have been detected in other populations. Overall, our work contributes to the understanding of the biology linking adipocytokines to cardiometabolic traits.
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Affiliation(s)
- Karlijn A C Meeks
- Center for Research on Genomics and Global Health, National Human Genome Research Institute, National Institutes of Health, 12 South Drive Bldg 12A rm 4047, Bethesda, MD, 20814, USA
| | - Amy R Bentley
- Center for Research on Genomics and Global Health, National Human Genome Research Institute, National Institutes of Health, 12 South Drive Bldg 12A rm 4047, Bethesda, MD, 20814, USA
| | - Mateus H Gouveia
- Center for Research on Genomics and Global Health, National Human Genome Research Institute, National Institutes of Health, 12 South Drive Bldg 12A rm 4047, Bethesda, MD, 20814, USA
| | - Guanjie Chen
- Center for Research on Genomics and Global Health, National Human Genome Research Institute, National Institutes of Health, 12 South Drive Bldg 12A rm 4047, Bethesda, MD, 20814, USA
| | - Jie Zhou
- Center for Research on Genomics and Global Health, National Human Genome Research Institute, National Institutes of Health, 12 South Drive Bldg 12A rm 4047, Bethesda, MD, 20814, USA
| | - Lin Lei
- Center for Research on Genomics and Global Health, National Human Genome Research Institute, National Institutes of Health, 12 South Drive Bldg 12A rm 4047, Bethesda, MD, 20814, USA
| | - Adebowale A Adeyemo
- Center for Research on Genomics and Global Health, National Human Genome Research Institute, National Institutes of Health, 12 South Drive Bldg 12A rm 4047, Bethesda, MD, 20814, USA
| | - Ayo P Doumatey
- Center for Research on Genomics and Global Health, National Human Genome Research Institute, National Institutes of Health, 12 South Drive Bldg 12A rm 4047, Bethesda, MD, 20814, USA.
| | - Charles N Rotimi
- Center for Research on Genomics and Global Health, National Human Genome Research Institute, National Institutes of Health, 12 South Drive Bldg 12A rm 4047, Bethesda, MD, 20814, USA.
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11
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EWAS of Monozygotic Twins Implicate a Role of mTOR Pathway in Pathogenesis of Tic Spectrum Disorder. Genes (Basel) 2021; 12:genes12101510. [PMID: 34680906 PMCID: PMC8535383 DOI: 10.3390/genes12101510] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2021] [Revised: 09/21/2021] [Accepted: 09/23/2021] [Indexed: 11/17/2022] Open
Abstract
Tic spectrum disorder (TSD) is an umbrella term which includes Gilles de la Tourette syndrome (GTS) and chronic tic disorder (CTD). They are considered highly heritable, yet the genetic components remain largely unknown. In this study we aimed to investigate disease-associated DNA methylation differences to identify genes and pathways which may be implicated in TSD aetiology. For this purpose, we performed an exploratory analysis of the genome-wide DNA methylation patterns in whole blood samples of 16 monozygotic twin pairs, of which eight were discordant and six concordant for TSD, while two pairs were asymptomatic. Although no sites reached genome-wide significance, we identified several sites and regions with a suggestive significance, which were located within or in the vicinity of genes with biological functions associated with neuropsychiatric disorders. The two top genes identified (TSC1 and CRYZ/TYW3) and the enriched pathways and components (phosphoinosides and PTEN pathways, and insulin receptor substrate binding) are related to, or have been associated with, the PI3K/AKT/mTOR pathway. Genes in this pathway have previously been associated with GTS, and mTOR signalling has been implicated in a range of neuropsychiatric disorders. It is thus possible that altered mTOR signalling plays a role in the complex pathogenesis of TSD.
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12
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Meeks KAC, Doumatey AP, Bentley AR, Gouveia MH, Chen G, Zhou J, Lei L, Adeyemo AA, Rotimi CN. Genetics of Circulating Resistin Level, a Biomarker for Cardiovascular Diseases, Is Informed by Mendelian Randomization and the Unique Characteristics of African Genomes. CIRCULATION-GENOMIC AND PRECISION MEDICINE 2020; 13:488-503. [PMID: 32876488 DOI: 10.1161/circgen.120.002920] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
BACKGROUND Resistin, a protein linked with inflammation and cardiometabolic diseases, is one of few proteins for which genome-wide association studies consistently report variants within and near the coding gene (RETN). Here, we took advantage of the reduced linkage disequilibrium in African populations to infer genetic causality for circulating resistin levels by performing genome-wide association studies, whole-exome analysis, fine mapping, Mendelian randomization, and transcriptomic data analyses. METHODS Genome-wide association studies and fine-mapping analyses for resistin were performed in 5621 African-ancestry individuals, including 3754 continental Africans and 1867 African Americans. Causal variants identified were subsequently used as an instrumental variable in Mendelian randomization analyses for homeostatic modeling-derived insulin resistance index, body mass index, and type 2 diabetes. RESULTS The lead variant (rs3219175, in the promoter region of RETN) for the single locus detected was the same for continental Africans (P=5.0×10-111) and for African Americans (9.5×10-38), respectively explaining 12.1% and 8.5% of variance in circulating resistin. Fine-mapping analyses and functional annotation revealed this variant as likely causal affecting circulating resistin levels as a cis-eQTL increasing RETN expression. Additional variants regulating resistin levels were upstream of RETN with genes PCP2, STXBP2, and XAB2 showing the strongest association using integrative analysis of genome-wide association studies with transcriptomic data. Mendelian randomization analyses did not provide evidence for resistin increasing insulin resistance, body mass index, or type 2 diabetes risk in African-ancestry populations. CONCLUSIONS Taking advantage of the fine-mapping resolution power of African genomes, we identified a single variant (rs3219175) as the likely causal variant responsible for most of the variability in circulating resistin levels. In contrast to findings in some other ancestry populations, we showed that resistin does not seem to increase insulin resistance and related cardiometabolic traits in African-ancestry populations.
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Affiliation(s)
- Karlijn A C Meeks
- Center for Research on Genomics and Global Health, National Human Genome Research Institute, National Institutes of Health, Bethesda, MD
| | - Ayo P Doumatey
- Center for Research on Genomics and Global Health, National Human Genome Research Institute, National Institutes of Health, Bethesda, MD
| | - Amy R Bentley
- Center for Research on Genomics and Global Health, National Human Genome Research Institute, National Institutes of Health, Bethesda, MD
| | - Mateus H Gouveia
- Center for Research on Genomics and Global Health, National Human Genome Research Institute, National Institutes of Health, Bethesda, MD
| | - Guanjie Chen
- Center for Research on Genomics and Global Health, National Human Genome Research Institute, National Institutes of Health, Bethesda, MD
| | - Jie Zhou
- Center for Research on Genomics and Global Health, National Human Genome Research Institute, National Institutes of Health, Bethesda, MD
| | - Lin Lei
- Center for Research on Genomics and Global Health, National Human Genome Research Institute, National Institutes of Health, Bethesda, MD
| | - Adebowale A Adeyemo
- Center for Research on Genomics and Global Health, National Human Genome Research Institute, National Institutes of Health, Bethesda, MD
| | - Charles N Rotimi
- Center for Research on Genomics and Global Health, National Human Genome Research Institute, National Institutes of Health, Bethesda, MD
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13
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Genetic variation, adipokines, and cardiometabolic disease. Curr Opin Pharmacol 2020; 52:33-39. [PMID: 32480034 DOI: 10.1016/j.coph.2020.04.006] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2020] [Revised: 04/21/2020] [Accepted: 04/22/2020] [Indexed: 11/24/2022]
Abstract
Adipokines are adipocyte-secreted cell signalling proteins that travel to distant target organs and tissues, where they regulate a variety of biological actions implicated in cardiometabolic health. In the past decade, genome-wide association studies have identified multiple genetic variants associated with circulating levels of adipokines, providing new instruments for examining the role of adipokines in cardiometabolic pathologies. Currently, there is limited genetic evidence of causal relationships between adipokines and cardiometabolic disease, which is consistent with findings from randomized clinical trials that have thus far shown limited success for adipokine-based treatments in improving cardiometabolic health. Incorporating human genetic data in early phases of target selection is essential for enhancing the success of adipokine-based therapies for cardiometabolic disease.
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14
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Wei L, Tian Y, Chen Y, Wei Q, Chen F, Cao B, Wu Y, Zhao B, Chen X, Xie C, Xi C, Yu X, Wang J, Lv X, Du J, Wang Y, Shen L, Wang X, Shen B, Guo Q, Guo L, Xia K, Xie P, Zhang X, Zuo X, Shang H, Wang K. Identification of TYW3/CRYZ and FGD4 as susceptibility genes for amyotrophic lateral sclerosis. NEUROLOGY-GENETICS 2019; 5:e375. [PMID: 31872054 PMCID: PMC6878836 DOI: 10.1212/nxg.0000000000000375] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/31/2019] [Accepted: 10/10/2019] [Indexed: 02/05/2023]
Abstract
Objective A 2-stage genome-wide association was conducted to explore the genetic etiology of amyotrophic lateral sclerosis (ALS) in the Chinese Han population. Methods Totally, 700 cases and 4,027 controls were genotyped in the discovery stage using Illumina Human660W-Quad BeadChips. Top associated single nucleotide polymorphisms from the discovery stage were then genotyped in an independent cohort with 884 cases and 5,329 controls. Combined analysis was conducted by combining all samples from the 2 stages. Results Two novel loci, 1p31 and 12p11, showed strong associations with ALS. These novel loci explained 2.2% of overall variance in disease risk. Expression quantitative trait loci searches identified TYW/CRYZ and FGD4 as risk genes at 1p13 and 12p11, respectively. Conclusions This study identifies novel susceptibility genes for ALS. Identification of TYW3/CRYZ in the current study supports the notion that insulin resistance may be involved in ALS pathogenesis, whereas FGD4 suggests an association with Charcot-Marie-Tooth disease.
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Affiliation(s)
- Ling Wei
- Department of Neurology (L.W., Y.T., C. Xie, Y. Wang, K.W.), the First Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (Y.C., Q.W., B.C., Y. Wu, B.Z., X.C., H.S.), West China Hospital of Sichuan University, Chengdu; Department of Medical Psychology (F.C., K.W.), Anhui Medical University; Department of Neurology (C. Xi), the Third Affiliated Hospital of Anhui Medical University; Institution of Neurology (X.Y.), Anhui College of Traditional Medicine; Department of Neurology (J.W.), the Second People's Hospital of Hefei; Department of Neurology (X.L.), Anhui Provincial Hospital; Department of Neurology (J.D.), the Second Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (L.S.), Xiangya Hospital of Central South University, Changsha; Department of Neurology (X.W.), Zhongshan Hospital of Fudan University, Shanghai; Department of Physiology (B.S.), School of Basic Medicine, Anhui Medical University, Hefei; Department of Neurology (Q.G.), Huashan Hospital of Fudan University, Shanghai; Department of Neurology (L.G.), the Second Hospital of Hebei Medical University, Shijiazhuang; School of Life Science (K.X.), Central South University, Changsha; Department of Neurology (P.X.), the First Affiliated Hospital of Chongqing Medical University, Chongqing; Department of Dermatology (X. Zhang, X. Zuo), the First Affiliated Hospital of Anhui Medical University; and State Key Laboratory Incubation Base of Dermatology (X. Zhang, X. Zuo), Ministry of National Science and Technology, Hefei, China
| | - Yanghua Tian
- Department of Neurology (L.W., Y.T., C. Xie, Y. Wang, K.W.), the First Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (Y.C., Q.W., B.C., Y. Wu, B.Z., X.C., H.S.), West China Hospital of Sichuan University, Chengdu; Department of Medical Psychology (F.C., K.W.), Anhui Medical University; Department of Neurology (C. Xi), the Third Affiliated Hospital of Anhui Medical University; Institution of Neurology (X.Y.), Anhui College of Traditional Medicine; Department of Neurology (J.W.), the Second People's Hospital of Hefei; Department of Neurology (X.L.), Anhui Provincial Hospital; Department of Neurology (J.D.), the Second Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (L.S.), Xiangya Hospital of Central South University, Changsha; Department of Neurology (X.W.), Zhongshan Hospital of Fudan University, Shanghai; Department of Physiology (B.S.), School of Basic Medicine, Anhui Medical University, Hefei; Department of Neurology (Q.G.), Huashan Hospital of Fudan University, Shanghai; Department of Neurology (L.G.), the Second Hospital of Hebei Medical University, Shijiazhuang; School of Life Science (K.X.), Central South University, Changsha; Department of Neurology (P.X.), the First Affiliated Hospital of Chongqing Medical University, Chongqing; Department of Dermatology (X. Zhang, X. Zuo), the First Affiliated Hospital of Anhui Medical University; and State Key Laboratory Incubation Base of Dermatology (X. Zhang, X. Zuo), Ministry of National Science and Technology, Hefei, China
| | - Yongping Chen
- Department of Neurology (L.W., Y.T., C. Xie, Y. Wang, K.W.), the First Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (Y.C., Q.W., B.C., Y. Wu, B.Z., X.C., H.S.), West China Hospital of Sichuan University, Chengdu; Department of Medical Psychology (F.C., K.W.), Anhui Medical University; Department of Neurology (C. Xi), the Third Affiliated Hospital of Anhui Medical University; Institution of Neurology (X.Y.), Anhui College of Traditional Medicine; Department of Neurology (J.W.), the Second People's Hospital of Hefei; Department of Neurology (X.L.), Anhui Provincial Hospital; Department of Neurology (J.D.), the Second Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (L.S.), Xiangya Hospital of Central South University, Changsha; Department of Neurology (X.W.), Zhongshan Hospital of Fudan University, Shanghai; Department of Physiology (B.S.), School of Basic Medicine, Anhui Medical University, Hefei; Department of Neurology (Q.G.), Huashan Hospital of Fudan University, Shanghai; Department of Neurology (L.G.), the Second Hospital of Hebei Medical University, Shijiazhuang; School of Life Science (K.X.), Central South University, Changsha; Department of Neurology (P.X.), the First Affiliated Hospital of Chongqing Medical University, Chongqing; Department of Dermatology (X. Zhang, X. Zuo), the First Affiliated Hospital of Anhui Medical University; and State Key Laboratory Incubation Base of Dermatology (X. Zhang, X. Zuo), Ministry of National Science and Technology, Hefei, China
| | - Qianqian Wei
- Department of Neurology (L.W., Y.T., C. Xie, Y. Wang, K.W.), the First Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (Y.C., Q.W., B.C., Y. Wu, B.Z., X.C., H.S.), West China Hospital of Sichuan University, Chengdu; Department of Medical Psychology (F.C., K.W.), Anhui Medical University; Department of Neurology (C. Xi), the Third Affiliated Hospital of Anhui Medical University; Institution of Neurology (X.Y.), Anhui College of Traditional Medicine; Department of Neurology (J.W.), the Second People's Hospital of Hefei; Department of Neurology (X.L.), Anhui Provincial Hospital; Department of Neurology (J.D.), the Second Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (L.S.), Xiangya Hospital of Central South University, Changsha; Department of Neurology (X.W.), Zhongshan Hospital of Fudan University, Shanghai; Department of Physiology (B.S.), School of Basic Medicine, Anhui Medical University, Hefei; Department of Neurology (Q.G.), Huashan Hospital of Fudan University, Shanghai; Department of Neurology (L.G.), the Second Hospital of Hebei Medical University, Shijiazhuang; School of Life Science (K.X.), Central South University, Changsha; Department of Neurology (P.X.), the First Affiliated Hospital of Chongqing Medical University, Chongqing; Department of Dermatology (X. Zhang, X. Zuo), the First Affiliated Hospital of Anhui Medical University; and State Key Laboratory Incubation Base of Dermatology (X. Zhang, X. Zuo), Ministry of National Science and Technology, Hefei, China
| | - Fangfang Chen
- Department of Neurology (L.W., Y.T., C. Xie, Y. Wang, K.W.), the First Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (Y.C., Q.W., B.C., Y. Wu, B.Z., X.C., H.S.), West China Hospital of Sichuan University, Chengdu; Department of Medical Psychology (F.C., K.W.), Anhui Medical University; Department of Neurology (C. Xi), the Third Affiliated Hospital of Anhui Medical University; Institution of Neurology (X.Y.), Anhui College of Traditional Medicine; Department of Neurology (J.W.), the Second People's Hospital of Hefei; Department of Neurology (X.L.), Anhui Provincial Hospital; Department of Neurology (J.D.), the Second Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (L.S.), Xiangya Hospital of Central South University, Changsha; Department of Neurology (X.W.), Zhongshan Hospital of Fudan University, Shanghai; Department of Physiology (B.S.), School of Basic Medicine, Anhui Medical University, Hefei; Department of Neurology (Q.G.), Huashan Hospital of Fudan University, Shanghai; Department of Neurology (L.G.), the Second Hospital of Hebei Medical University, Shijiazhuang; School of Life Science (K.X.), Central South University, Changsha; Department of Neurology (P.X.), the First Affiliated Hospital of Chongqing Medical University, Chongqing; Department of Dermatology (X. Zhang, X. Zuo), the First Affiliated Hospital of Anhui Medical University; and State Key Laboratory Incubation Base of Dermatology (X. Zhang, X. Zuo), Ministry of National Science and Technology, Hefei, China
| | - Bei Cao
- Department of Neurology (L.W., Y.T., C. Xie, Y. Wang, K.W.), the First Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (Y.C., Q.W., B.C., Y. Wu, B.Z., X.C., H.S.), West China Hospital of Sichuan University, Chengdu; Department of Medical Psychology (F.C., K.W.), Anhui Medical University; Department of Neurology (C. Xi), the Third Affiliated Hospital of Anhui Medical University; Institution of Neurology (X.Y.), Anhui College of Traditional Medicine; Department of Neurology (J.W.), the Second People's Hospital of Hefei; Department of Neurology (X.L.), Anhui Provincial Hospital; Department of Neurology (J.D.), the Second Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (L.S.), Xiangya Hospital of Central South University, Changsha; Department of Neurology (X.W.), Zhongshan Hospital of Fudan University, Shanghai; Department of Physiology (B.S.), School of Basic Medicine, Anhui Medical University, Hefei; Department of Neurology (Q.G.), Huashan Hospital of Fudan University, Shanghai; Department of Neurology (L.G.), the Second Hospital of Hebei Medical University, Shijiazhuang; School of Life Science (K.X.), Central South University, Changsha; Department of Neurology (P.X.), the First Affiliated Hospital of Chongqing Medical University, Chongqing; Department of Dermatology (X. Zhang, X. Zuo), the First Affiliated Hospital of Anhui Medical University; and State Key Laboratory Incubation Base of Dermatology (X. Zhang, X. Zuo), Ministry of National Science and Technology, Hefei, China
| | - Ying Wu
- Department of Neurology (L.W., Y.T., C. Xie, Y. Wang, K.W.), the First Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (Y.C., Q.W., B.C., Y. Wu, B.Z., X.C., H.S.), West China Hospital of Sichuan University, Chengdu; Department of Medical Psychology (F.C., K.W.), Anhui Medical University; Department of Neurology (C. Xi), the Third Affiliated Hospital of Anhui Medical University; Institution of Neurology (X.Y.), Anhui College of Traditional Medicine; Department of Neurology (J.W.), the Second People's Hospital of Hefei; Department of Neurology (X.L.), Anhui Provincial Hospital; Department of Neurology (J.D.), the Second Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (L.S.), Xiangya Hospital of Central South University, Changsha; Department of Neurology (X.W.), Zhongshan Hospital of Fudan University, Shanghai; Department of Physiology (B.S.), School of Basic Medicine, Anhui Medical University, Hefei; Department of Neurology (Q.G.), Huashan Hospital of Fudan University, Shanghai; Department of Neurology (L.G.), the Second Hospital of Hebei Medical University, Shijiazhuang; School of Life Science (K.X.), Central South University, Changsha; Department of Neurology (P.X.), the First Affiliated Hospital of Chongqing Medical University, Chongqing; Department of Dermatology (X. Zhang, X. Zuo), the First Affiliated Hospital of Anhui Medical University; and State Key Laboratory Incubation Base of Dermatology (X. Zhang, X. Zuo), Ministry of National Science and Technology, Hefei, China
| | - Bi Zhao
- Department of Neurology (L.W., Y.T., C. Xie, Y. Wang, K.W.), the First Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (Y.C., Q.W., B.C., Y. Wu, B.Z., X.C., H.S.), West China Hospital of Sichuan University, Chengdu; Department of Medical Psychology (F.C., K.W.), Anhui Medical University; Department of Neurology (C. Xi), the Third Affiliated Hospital of Anhui Medical University; Institution of Neurology (X.Y.), Anhui College of Traditional Medicine; Department of Neurology (J.W.), the Second People's Hospital of Hefei; Department of Neurology (X.L.), Anhui Provincial Hospital; Department of Neurology (J.D.), the Second Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (L.S.), Xiangya Hospital of Central South University, Changsha; Department of Neurology (X.W.), Zhongshan Hospital of Fudan University, Shanghai; Department of Physiology (B.S.), School of Basic Medicine, Anhui Medical University, Hefei; Department of Neurology (Q.G.), Huashan Hospital of Fudan University, Shanghai; Department of Neurology (L.G.), the Second Hospital of Hebei Medical University, Shijiazhuang; School of Life Science (K.X.), Central South University, Changsha; Department of Neurology (P.X.), the First Affiliated Hospital of Chongqing Medical University, Chongqing; Department of Dermatology (X. Zhang, X. Zuo), the First Affiliated Hospital of Anhui Medical University; and State Key Laboratory Incubation Base of Dermatology (X. Zhang, X. Zuo), Ministry of National Science and Technology, Hefei, China
| | - Xueping Chen
- Department of Neurology (L.W., Y.T., C. Xie, Y. Wang, K.W.), the First Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (Y.C., Q.W., B.C., Y. Wu, B.Z., X.C., H.S.), West China Hospital of Sichuan University, Chengdu; Department of Medical Psychology (F.C., K.W.), Anhui Medical University; Department of Neurology (C. Xi), the Third Affiliated Hospital of Anhui Medical University; Institution of Neurology (X.Y.), Anhui College of Traditional Medicine; Department of Neurology (J.W.), the Second People's Hospital of Hefei; Department of Neurology (X.L.), Anhui Provincial Hospital; Department of Neurology (J.D.), the Second Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (L.S.), Xiangya Hospital of Central South University, Changsha; Department of Neurology (X.W.), Zhongshan Hospital of Fudan University, Shanghai; Department of Physiology (B.S.), School of Basic Medicine, Anhui Medical University, Hefei; Department of Neurology (Q.G.), Huashan Hospital of Fudan University, Shanghai; Department of Neurology (L.G.), the Second Hospital of Hebei Medical University, Shijiazhuang; School of Life Science (K.X.), Central South University, Changsha; Department of Neurology (P.X.), the First Affiliated Hospital of Chongqing Medical University, Chongqing; Department of Dermatology (X. Zhang, X. Zuo), the First Affiliated Hospital of Anhui Medical University; and State Key Laboratory Incubation Base of Dermatology (X. Zhang, X. Zuo), Ministry of National Science and Technology, Hefei, China
| | - Chengjuan Xie
- Department of Neurology (L.W., Y.T., C. Xie, Y. Wang, K.W.), the First Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (Y.C., Q.W., B.C., Y. Wu, B.Z., X.C., H.S.), West China Hospital of Sichuan University, Chengdu; Department of Medical Psychology (F.C., K.W.), Anhui Medical University; Department of Neurology (C. Xi), the Third Affiliated Hospital of Anhui Medical University; Institution of Neurology (X.Y.), Anhui College of Traditional Medicine; Department of Neurology (J.W.), the Second People's Hospital of Hefei; Department of Neurology (X.L.), Anhui Provincial Hospital; Department of Neurology (J.D.), the Second Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (L.S.), Xiangya Hospital of Central South University, Changsha; Department of Neurology (X.W.), Zhongshan Hospital of Fudan University, Shanghai; Department of Physiology (B.S.), School of Basic Medicine, Anhui Medical University, Hefei; Department of Neurology (Q.G.), Huashan Hospital of Fudan University, Shanghai; Department of Neurology (L.G.), the Second Hospital of Hebei Medical University, Shijiazhuang; School of Life Science (K.X.), Central South University, Changsha; Department of Neurology (P.X.), the First Affiliated Hospital of Chongqing Medical University, Chongqing; Department of Dermatology (X. Zhang, X. Zuo), the First Affiliated Hospital of Anhui Medical University; and State Key Laboratory Incubation Base of Dermatology (X. Zhang, X. Zuo), Ministry of National Science and Technology, Hefei, China
| | - Chunhua Xi
- Department of Neurology (L.W., Y.T., C. Xie, Y. Wang, K.W.), the First Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (Y.C., Q.W., B.C., Y. Wu, B.Z., X.C., H.S.), West China Hospital of Sichuan University, Chengdu; Department of Medical Psychology (F.C., K.W.), Anhui Medical University; Department of Neurology (C. Xi), the Third Affiliated Hospital of Anhui Medical University; Institution of Neurology (X.Y.), Anhui College of Traditional Medicine; Department of Neurology (J.W.), the Second People's Hospital of Hefei; Department of Neurology (X.L.), Anhui Provincial Hospital; Department of Neurology (J.D.), the Second Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (L.S.), Xiangya Hospital of Central South University, Changsha; Department of Neurology (X.W.), Zhongshan Hospital of Fudan University, Shanghai; Department of Physiology (B.S.), School of Basic Medicine, Anhui Medical University, Hefei; Department of Neurology (Q.G.), Huashan Hospital of Fudan University, Shanghai; Department of Neurology (L.G.), the Second Hospital of Hebei Medical University, Shijiazhuang; School of Life Science (K.X.), Central South University, Changsha; Department of Neurology (P.X.), the First Affiliated Hospital of Chongqing Medical University, Chongqing; Department of Dermatology (X. Zhang, X. Zuo), the First Affiliated Hospital of Anhui Medical University; and State Key Laboratory Incubation Base of Dermatology (X. Zhang, X. Zuo), Ministry of National Science and Technology, Hefei, China
| | - Xu'en Yu
- Department of Neurology (L.W., Y.T., C. Xie, Y. Wang, K.W.), the First Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (Y.C., Q.W., B.C., Y. Wu, B.Z., X.C., H.S.), West China Hospital of Sichuan University, Chengdu; Department of Medical Psychology (F.C., K.W.), Anhui Medical University; Department of Neurology (C. Xi), the Third Affiliated Hospital of Anhui Medical University; Institution of Neurology (X.Y.), Anhui College of Traditional Medicine; Department of Neurology (J.W.), the Second People's Hospital of Hefei; Department of Neurology (X.L.), Anhui Provincial Hospital; Department of Neurology (J.D.), the Second Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (L.S.), Xiangya Hospital of Central South University, Changsha; Department of Neurology (X.W.), Zhongshan Hospital of Fudan University, Shanghai; Department of Physiology (B.S.), School of Basic Medicine, Anhui Medical University, Hefei; Department of Neurology (Q.G.), Huashan Hospital of Fudan University, Shanghai; Department of Neurology (L.G.), the Second Hospital of Hebei Medical University, Shijiazhuang; School of Life Science (K.X.), Central South University, Changsha; Department of Neurology (P.X.), the First Affiliated Hospital of Chongqing Medical University, Chongqing; Department of Dermatology (X. Zhang, X. Zuo), the First Affiliated Hospital of Anhui Medical University; and State Key Laboratory Incubation Base of Dermatology (X. Zhang, X. Zuo), Ministry of National Science and Technology, Hefei, China
| | - Juan Wang
- Department of Neurology (L.W., Y.T., C. Xie, Y. Wang, K.W.), the First Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (Y.C., Q.W., B.C., Y. Wu, B.Z., X.C., H.S.), West China Hospital of Sichuan University, Chengdu; Department of Medical Psychology (F.C., K.W.), Anhui Medical University; Department of Neurology (C. Xi), the Third Affiliated Hospital of Anhui Medical University; Institution of Neurology (X.Y.), Anhui College of Traditional Medicine; Department of Neurology (J.W.), the Second People's Hospital of Hefei; Department of Neurology (X.L.), Anhui Provincial Hospital; Department of Neurology (J.D.), the Second Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (L.S.), Xiangya Hospital of Central South University, Changsha; Department of Neurology (X.W.), Zhongshan Hospital of Fudan University, Shanghai; Department of Physiology (B.S.), School of Basic Medicine, Anhui Medical University, Hefei; Department of Neurology (Q.G.), Huashan Hospital of Fudan University, Shanghai; Department of Neurology (L.G.), the Second Hospital of Hebei Medical University, Shijiazhuang; School of Life Science (K.X.), Central South University, Changsha; Department of Neurology (P.X.), the First Affiliated Hospital of Chongqing Medical University, Chongqing; Department of Dermatology (X. Zhang, X. Zuo), the First Affiliated Hospital of Anhui Medical University; and State Key Laboratory Incubation Base of Dermatology (X. Zhang, X. Zuo), Ministry of National Science and Technology, Hefei, China
| | - Xinyi Lv
- Department of Neurology (L.W., Y.T., C. Xie, Y. Wang, K.W.), the First Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (Y.C., Q.W., B.C., Y. Wu, B.Z., X.C., H.S.), West China Hospital of Sichuan University, Chengdu; Department of Medical Psychology (F.C., K.W.), Anhui Medical University; Department of Neurology (C. Xi), the Third Affiliated Hospital of Anhui Medical University; Institution of Neurology (X.Y.), Anhui College of Traditional Medicine; Department of Neurology (J.W.), the Second People's Hospital of Hefei; Department of Neurology (X.L.), Anhui Provincial Hospital; Department of Neurology (J.D.), the Second Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (L.S.), Xiangya Hospital of Central South University, Changsha; Department of Neurology (X.W.), Zhongshan Hospital of Fudan University, Shanghai; Department of Physiology (B.S.), School of Basic Medicine, Anhui Medical University, Hefei; Department of Neurology (Q.G.), Huashan Hospital of Fudan University, Shanghai; Department of Neurology (L.G.), the Second Hospital of Hebei Medical University, Shijiazhuang; School of Life Science (K.X.), Central South University, Changsha; Department of Neurology (P.X.), the First Affiliated Hospital of Chongqing Medical University, Chongqing; Department of Dermatology (X. Zhang, X. Zuo), the First Affiliated Hospital of Anhui Medical University; and State Key Laboratory Incubation Base of Dermatology (X. Zhang, X. Zuo), Ministry of National Science and Technology, Hefei, China
| | - Jing Du
- Department of Neurology (L.W., Y.T., C. Xie, Y. Wang, K.W.), the First Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (Y.C., Q.W., B.C., Y. Wu, B.Z., X.C., H.S.), West China Hospital of Sichuan University, Chengdu; Department of Medical Psychology (F.C., K.W.), Anhui Medical University; Department of Neurology (C. Xi), the Third Affiliated Hospital of Anhui Medical University; Institution of Neurology (X.Y.), Anhui College of Traditional Medicine; Department of Neurology (J.W.), the Second People's Hospital of Hefei; Department of Neurology (X.L.), Anhui Provincial Hospital; Department of Neurology (J.D.), the Second Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (L.S.), Xiangya Hospital of Central South University, Changsha; Department of Neurology (X.W.), Zhongshan Hospital of Fudan University, Shanghai; Department of Physiology (B.S.), School of Basic Medicine, Anhui Medical University, Hefei; Department of Neurology (Q.G.), Huashan Hospital of Fudan University, Shanghai; Department of Neurology (L.G.), the Second Hospital of Hebei Medical University, Shijiazhuang; School of Life Science (K.X.), Central South University, Changsha; Department of Neurology (P.X.), the First Affiliated Hospital of Chongqing Medical University, Chongqing; Department of Dermatology (X. Zhang, X. Zuo), the First Affiliated Hospital of Anhui Medical University; and State Key Laboratory Incubation Base of Dermatology (X. Zhang, X. Zuo), Ministry of National Science and Technology, Hefei, China
| | - Yu Wang
- Department of Neurology (L.W., Y.T., C. Xie, Y. Wang, K.W.), the First Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (Y.C., Q.W., B.C., Y. Wu, B.Z., X.C., H.S.), West China Hospital of Sichuan University, Chengdu; Department of Medical Psychology (F.C., K.W.), Anhui Medical University; Department of Neurology (C. Xi), the Third Affiliated Hospital of Anhui Medical University; Institution of Neurology (X.Y.), Anhui College of Traditional Medicine; Department of Neurology (J.W.), the Second People's Hospital of Hefei; Department of Neurology (X.L.), Anhui Provincial Hospital; Department of Neurology (J.D.), the Second Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (L.S.), Xiangya Hospital of Central South University, Changsha; Department of Neurology (X.W.), Zhongshan Hospital of Fudan University, Shanghai; Department of Physiology (B.S.), School of Basic Medicine, Anhui Medical University, Hefei; Department of Neurology (Q.G.), Huashan Hospital of Fudan University, Shanghai; Department of Neurology (L.G.), the Second Hospital of Hebei Medical University, Shijiazhuang; School of Life Science (K.X.), Central South University, Changsha; Department of Neurology (P.X.), the First Affiliated Hospital of Chongqing Medical University, Chongqing; Department of Dermatology (X. Zhang, X. Zuo), the First Affiliated Hospital of Anhui Medical University; and State Key Laboratory Incubation Base of Dermatology (X. Zhang, X. Zuo), Ministry of National Science and Technology, Hefei, China
| | - Lu Shen
- Department of Neurology (L.W., Y.T., C. Xie, Y. Wang, K.W.), the First Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (Y.C., Q.W., B.C., Y. Wu, B.Z., X.C., H.S.), West China Hospital of Sichuan University, Chengdu; Department of Medical Psychology (F.C., K.W.), Anhui Medical University; Department of Neurology (C. Xi), the Third Affiliated Hospital of Anhui Medical University; Institution of Neurology (X.Y.), Anhui College of Traditional Medicine; Department of Neurology (J.W.), the Second People's Hospital of Hefei; Department of Neurology (X.L.), Anhui Provincial Hospital; Department of Neurology (J.D.), the Second Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (L.S.), Xiangya Hospital of Central South University, Changsha; Department of Neurology (X.W.), Zhongshan Hospital of Fudan University, Shanghai; Department of Physiology (B.S.), School of Basic Medicine, Anhui Medical University, Hefei; Department of Neurology (Q.G.), Huashan Hospital of Fudan University, Shanghai; Department of Neurology (L.G.), the Second Hospital of Hebei Medical University, Shijiazhuang; School of Life Science (K.X.), Central South University, Changsha; Department of Neurology (P.X.), the First Affiliated Hospital of Chongqing Medical University, Chongqing; Department of Dermatology (X. Zhang, X. Zuo), the First Affiliated Hospital of Anhui Medical University; and State Key Laboratory Incubation Base of Dermatology (X. Zhang, X. Zuo), Ministry of National Science and Technology, Hefei, China
| | - Xin Wang
- Department of Neurology (L.W., Y.T., C. Xie, Y. Wang, K.W.), the First Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (Y.C., Q.W., B.C., Y. Wu, B.Z., X.C., H.S.), West China Hospital of Sichuan University, Chengdu; Department of Medical Psychology (F.C., K.W.), Anhui Medical University; Department of Neurology (C. Xi), the Third Affiliated Hospital of Anhui Medical University; Institution of Neurology (X.Y.), Anhui College of Traditional Medicine; Department of Neurology (J.W.), the Second People's Hospital of Hefei; Department of Neurology (X.L.), Anhui Provincial Hospital; Department of Neurology (J.D.), the Second Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (L.S.), Xiangya Hospital of Central South University, Changsha; Department of Neurology (X.W.), Zhongshan Hospital of Fudan University, Shanghai; Department of Physiology (B.S.), School of Basic Medicine, Anhui Medical University, Hefei; Department of Neurology (Q.G.), Huashan Hospital of Fudan University, Shanghai; Department of Neurology (L.G.), the Second Hospital of Hebei Medical University, Shijiazhuang; School of Life Science (K.X.), Central South University, Changsha; Department of Neurology (P.X.), the First Affiliated Hospital of Chongqing Medical University, Chongqing; Department of Dermatology (X. Zhang, X. Zuo), the First Affiliated Hospital of Anhui Medical University; and State Key Laboratory Incubation Base of Dermatology (X. Zhang, X. Zuo), Ministry of National Science and Technology, Hefei, China
| | - Bin Shen
- Department of Neurology (L.W., Y.T., C. Xie, Y. Wang, K.W.), the First Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (Y.C., Q.W., B.C., Y. Wu, B.Z., X.C., H.S.), West China Hospital of Sichuan University, Chengdu; Department of Medical Psychology (F.C., K.W.), Anhui Medical University; Department of Neurology (C. Xi), the Third Affiliated Hospital of Anhui Medical University; Institution of Neurology (X.Y.), Anhui College of Traditional Medicine; Department of Neurology (J.W.), the Second People's Hospital of Hefei; Department of Neurology (X.L.), Anhui Provincial Hospital; Department of Neurology (J.D.), the Second Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (L.S.), Xiangya Hospital of Central South University, Changsha; Department of Neurology (X.W.), Zhongshan Hospital of Fudan University, Shanghai; Department of Physiology (B.S.), School of Basic Medicine, Anhui Medical University, Hefei; Department of Neurology (Q.G.), Huashan Hospital of Fudan University, Shanghai; Department of Neurology (L.G.), the Second Hospital of Hebei Medical University, Shijiazhuang; School of Life Science (K.X.), Central South University, Changsha; Department of Neurology (P.X.), the First Affiliated Hospital of Chongqing Medical University, Chongqing; Department of Dermatology (X. Zhang, X. Zuo), the First Affiliated Hospital of Anhui Medical University; and State Key Laboratory Incubation Base of Dermatology (X. Zhang, X. Zuo), Ministry of National Science and Technology, Hefei, China
| | - Qihao Guo
- Department of Neurology (L.W., Y.T., C. Xie, Y. Wang, K.W.), the First Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (Y.C., Q.W., B.C., Y. Wu, B.Z., X.C., H.S.), West China Hospital of Sichuan University, Chengdu; Department of Medical Psychology (F.C., K.W.), Anhui Medical University; Department of Neurology (C. Xi), the Third Affiliated Hospital of Anhui Medical University; Institution of Neurology (X.Y.), Anhui College of Traditional Medicine; Department of Neurology (J.W.), the Second People's Hospital of Hefei; Department of Neurology (X.L.), Anhui Provincial Hospital; Department of Neurology (J.D.), the Second Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (L.S.), Xiangya Hospital of Central South University, Changsha; Department of Neurology (X.W.), Zhongshan Hospital of Fudan University, Shanghai; Department of Physiology (B.S.), School of Basic Medicine, Anhui Medical University, Hefei; Department of Neurology (Q.G.), Huashan Hospital of Fudan University, Shanghai; Department of Neurology (L.G.), the Second Hospital of Hebei Medical University, Shijiazhuang; School of Life Science (K.X.), Central South University, Changsha; Department of Neurology (P.X.), the First Affiliated Hospital of Chongqing Medical University, Chongqing; Department of Dermatology (X. Zhang, X. Zuo), the First Affiliated Hospital of Anhui Medical University; and State Key Laboratory Incubation Base of Dermatology (X. Zhang, X. Zuo), Ministry of National Science and Technology, Hefei, China
| | - Li Guo
- Department of Neurology (L.W., Y.T., C. Xie, Y. Wang, K.W.), the First Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (Y.C., Q.W., B.C., Y. Wu, B.Z., X.C., H.S.), West China Hospital of Sichuan University, Chengdu; Department of Medical Psychology (F.C., K.W.), Anhui Medical University; Department of Neurology (C. Xi), the Third Affiliated Hospital of Anhui Medical University; Institution of Neurology (X.Y.), Anhui College of Traditional Medicine; Department of Neurology (J.W.), the Second People's Hospital of Hefei; Department of Neurology (X.L.), Anhui Provincial Hospital; Department of Neurology (J.D.), the Second Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (L.S.), Xiangya Hospital of Central South University, Changsha; Department of Neurology (X.W.), Zhongshan Hospital of Fudan University, Shanghai; Department of Physiology (B.S.), School of Basic Medicine, Anhui Medical University, Hefei; Department of Neurology (Q.G.), Huashan Hospital of Fudan University, Shanghai; Department of Neurology (L.G.), the Second Hospital of Hebei Medical University, Shijiazhuang; School of Life Science (K.X.), Central South University, Changsha; Department of Neurology (P.X.), the First Affiliated Hospital of Chongqing Medical University, Chongqing; Department of Dermatology (X. Zhang, X. Zuo), the First Affiliated Hospital of Anhui Medical University; and State Key Laboratory Incubation Base of Dermatology (X. Zhang, X. Zuo), Ministry of National Science and Technology, Hefei, China
| | - Kun Xia
- Department of Neurology (L.W., Y.T., C. Xie, Y. Wang, K.W.), the First Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (Y.C., Q.W., B.C., Y. Wu, B.Z., X.C., H.S.), West China Hospital of Sichuan University, Chengdu; Department of Medical Psychology (F.C., K.W.), Anhui Medical University; Department of Neurology (C. Xi), the Third Affiliated Hospital of Anhui Medical University; Institution of Neurology (X.Y.), Anhui College of Traditional Medicine; Department of Neurology (J.W.), the Second People's Hospital of Hefei; Department of Neurology (X.L.), Anhui Provincial Hospital; Department of Neurology (J.D.), the Second Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (L.S.), Xiangya Hospital of Central South University, Changsha; Department of Neurology (X.W.), Zhongshan Hospital of Fudan University, Shanghai; Department of Physiology (B.S.), School of Basic Medicine, Anhui Medical University, Hefei; Department of Neurology (Q.G.), Huashan Hospital of Fudan University, Shanghai; Department of Neurology (L.G.), the Second Hospital of Hebei Medical University, Shijiazhuang; School of Life Science (K.X.), Central South University, Changsha; Department of Neurology (P.X.), the First Affiliated Hospital of Chongqing Medical University, Chongqing; Department of Dermatology (X. Zhang, X. Zuo), the First Affiliated Hospital of Anhui Medical University; and State Key Laboratory Incubation Base of Dermatology (X. Zhang, X. Zuo), Ministry of National Science and Technology, Hefei, China
| | - Peng Xie
- Department of Neurology (L.W., Y.T., C. Xie, Y. Wang, K.W.), the First Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (Y.C., Q.W., B.C., Y. Wu, B.Z., X.C., H.S.), West China Hospital of Sichuan University, Chengdu; Department of Medical Psychology (F.C., K.W.), Anhui Medical University; Department of Neurology (C. Xi), the Third Affiliated Hospital of Anhui Medical University; Institution of Neurology (X.Y.), Anhui College of Traditional Medicine; Department of Neurology (J.W.), the Second People's Hospital of Hefei; Department of Neurology (X.L.), Anhui Provincial Hospital; Department of Neurology (J.D.), the Second Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (L.S.), Xiangya Hospital of Central South University, Changsha; Department of Neurology (X.W.), Zhongshan Hospital of Fudan University, Shanghai; Department of Physiology (B.S.), School of Basic Medicine, Anhui Medical University, Hefei; Department of Neurology (Q.G.), Huashan Hospital of Fudan University, Shanghai; Department of Neurology (L.G.), the Second Hospital of Hebei Medical University, Shijiazhuang; School of Life Science (K.X.), Central South University, Changsha; Department of Neurology (P.X.), the First Affiliated Hospital of Chongqing Medical University, Chongqing; Department of Dermatology (X. Zhang, X. Zuo), the First Affiliated Hospital of Anhui Medical University; and State Key Laboratory Incubation Base of Dermatology (X. Zhang, X. Zuo), Ministry of National Science and Technology, Hefei, China
| | - Xuejun Zhang
- Department of Neurology (L.W., Y.T., C. Xie, Y. Wang, K.W.), the First Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (Y.C., Q.W., B.C., Y. Wu, B.Z., X.C., H.S.), West China Hospital of Sichuan University, Chengdu; Department of Medical Psychology (F.C., K.W.), Anhui Medical University; Department of Neurology (C. Xi), the Third Affiliated Hospital of Anhui Medical University; Institution of Neurology (X.Y.), Anhui College of Traditional Medicine; Department of Neurology (J.W.), the Second People's Hospital of Hefei; Department of Neurology (X.L.), Anhui Provincial Hospital; Department of Neurology (J.D.), the Second Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (L.S.), Xiangya Hospital of Central South University, Changsha; Department of Neurology (X.W.), Zhongshan Hospital of Fudan University, Shanghai; Department of Physiology (B.S.), School of Basic Medicine, Anhui Medical University, Hefei; Department of Neurology (Q.G.), Huashan Hospital of Fudan University, Shanghai; Department of Neurology (L.G.), the Second Hospital of Hebei Medical University, Shijiazhuang; School of Life Science (K.X.), Central South University, Changsha; Department of Neurology (P.X.), the First Affiliated Hospital of Chongqing Medical University, Chongqing; Department of Dermatology (X. Zhang, X. Zuo), the First Affiliated Hospital of Anhui Medical University; and State Key Laboratory Incubation Base of Dermatology (X. Zhang, X. Zuo), Ministry of National Science and Technology, Hefei, China
| | - Xianbo Zuo
- Department of Neurology (L.W., Y.T., C. Xie, Y. Wang, K.W.), the First Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (Y.C., Q.W., B.C., Y. Wu, B.Z., X.C., H.S.), West China Hospital of Sichuan University, Chengdu; Department of Medical Psychology (F.C., K.W.), Anhui Medical University; Department of Neurology (C. Xi), the Third Affiliated Hospital of Anhui Medical University; Institution of Neurology (X.Y.), Anhui College of Traditional Medicine; Department of Neurology (J.W.), the Second People's Hospital of Hefei; Department of Neurology (X.L.), Anhui Provincial Hospital; Department of Neurology (J.D.), the Second Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (L.S.), Xiangya Hospital of Central South University, Changsha; Department of Neurology (X.W.), Zhongshan Hospital of Fudan University, Shanghai; Department of Physiology (B.S.), School of Basic Medicine, Anhui Medical University, Hefei; Department of Neurology (Q.G.), Huashan Hospital of Fudan University, Shanghai; Department of Neurology (L.G.), the Second Hospital of Hebei Medical University, Shijiazhuang; School of Life Science (K.X.), Central South University, Changsha; Department of Neurology (P.X.), the First Affiliated Hospital of Chongqing Medical University, Chongqing; Department of Dermatology (X. Zhang, X. Zuo), the First Affiliated Hospital of Anhui Medical University; and State Key Laboratory Incubation Base of Dermatology (X. Zhang, X. Zuo), Ministry of National Science and Technology, Hefei, China
| | - Huifang Shang
- Department of Neurology (L.W., Y.T., C. Xie, Y. Wang, K.W.), the First Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (Y.C., Q.W., B.C., Y. Wu, B.Z., X.C., H.S.), West China Hospital of Sichuan University, Chengdu; Department of Medical Psychology (F.C., K.W.), Anhui Medical University; Department of Neurology (C. Xi), the Third Affiliated Hospital of Anhui Medical University; Institution of Neurology (X.Y.), Anhui College of Traditional Medicine; Department of Neurology (J.W.), the Second People's Hospital of Hefei; Department of Neurology (X.L.), Anhui Provincial Hospital; Department of Neurology (J.D.), the Second Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (L.S.), Xiangya Hospital of Central South University, Changsha; Department of Neurology (X.W.), Zhongshan Hospital of Fudan University, Shanghai; Department of Physiology (B.S.), School of Basic Medicine, Anhui Medical University, Hefei; Department of Neurology (Q.G.), Huashan Hospital of Fudan University, Shanghai; Department of Neurology (L.G.), the Second Hospital of Hebei Medical University, Shijiazhuang; School of Life Science (K.X.), Central South University, Changsha; Department of Neurology (P.X.), the First Affiliated Hospital of Chongqing Medical University, Chongqing; Department of Dermatology (X. Zhang, X. Zuo), the First Affiliated Hospital of Anhui Medical University; and State Key Laboratory Incubation Base of Dermatology (X. Zhang, X. Zuo), Ministry of National Science and Technology, Hefei, China
| | - Kai Wang
- Department of Neurology (L.W., Y.T., C. Xie, Y. Wang, K.W.), the First Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (Y.C., Q.W., B.C., Y. Wu, B.Z., X.C., H.S.), West China Hospital of Sichuan University, Chengdu; Department of Medical Psychology (F.C., K.W.), Anhui Medical University; Department of Neurology (C. Xi), the Third Affiliated Hospital of Anhui Medical University; Institution of Neurology (X.Y.), Anhui College of Traditional Medicine; Department of Neurology (J.W.), the Second People's Hospital of Hefei; Department of Neurology (X.L.), Anhui Provincial Hospital; Department of Neurology (J.D.), the Second Affiliated Hospital of Anhui Medical University, Hefei; Department of Neurology (L.S.), Xiangya Hospital of Central South University, Changsha; Department of Neurology (X.W.), Zhongshan Hospital of Fudan University, Shanghai; Department of Physiology (B.S.), School of Basic Medicine, Anhui Medical University, Hefei; Department of Neurology (Q.G.), Huashan Hospital of Fudan University, Shanghai; Department of Neurology (L.G.), the Second Hospital of Hebei Medical University, Shijiazhuang; School of Life Science (K.X.), Central South University, Changsha; Department of Neurology (P.X.), the First Affiliated Hospital of Chongqing Medical University, Chongqing; Department of Dermatology (X. Zhang, X. Zuo), the First Affiliated Hospital of Anhui Medical University; and State Key Laboratory Incubation Base of Dermatology (X. Zhang, X. Zuo), Ministry of National Science and Technology, Hefei, China
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15
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Justice AE, Chittoor G, Blanco E, Graff M, Wang Y, Albala C, Santos JL, Angel B, Lozoff B, Voruganti VS, North KE, Gahagan S. Genetic determinants of BMI from early childhood to adolescence: the Santiago Longitudinal Study. Pediatr Obes 2019; 14:e12479. [PMID: 30515969 PMCID: PMC6696926 DOI: 10.1111/ijpo.12479] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 04/13/2018] [Revised: 08/24/2018] [Accepted: 09/13/2018] [Indexed: 01/05/2023]
Abstract
BACKGROUND While the genetic contribution to obesity is well established, few studies have examined how genetic variants influence standardized body mass index Z-score (BMIz) in Hispanics/Latinos, especially across childhood and adolescence. OBJECTIVES We estimated the effect of established BMIz loci in Chilean children of the Santiago Longitudinal Study (SLS). METHODS We examined associations with BMIz at age 10 for 15 loci previously identified in European children. For significant loci, we performed association analyses at ages 5 and 16 years, for which we have smaller sample sizes. We tested associations of unweighted genetic risk scores (GRSs) for previously identified tag variants (GRS_EUR) and from the most significant variants in SLS at each locus (GRS_SLS). RESULTS We generalized five variants at age 10 (P < 0.05 and directionally consistent), including rs543874 that reached Bonferroni-corrected significance. The effect on BMIz was greatest at age 10 for all significant loci, except FTO, which exhibited an increase in effect from ages 5 to 16. Both GRSs were associated with BMIz (P < 0.0001), but GRS_SLS explained a much greater proportion of the variation (13.63%). CONCLUSION Our results underscore the importance of conducting genetic investigations across life stages and selecting ancestry appropriate tag variants in future studies for disease prediction and clinical evaluation.
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Affiliation(s)
- Anne E. Justice
- Biomedical and Translational Informatics, Geisinger, Danville, PA, USA,Department of Epidemiology, Gillings School of Global Public Health, University of North Carolina at Chapel
Hill, Chapel Hill, NC, USA
| | - Geetha Chittoor
- Biomedical and Translational Informatics, Geisinger, Danville, PA, USA,Department of Epidemiology, Gillings School of Global Public Health, University of North Carolina at Chapel
Hill, Chapel Hill, NC, USA
| | - Estela Blanco
- Division of Academic General Pediatrics, Child Development and Community Health at the Center for Community
Health, University of California at San Diego, San Diego, CA, USA
| | - Mariaelisa Graff
- Department of Epidemiology, Gillings School of Global Public Health, University of North Carolina at Chapel
Hill, Chapel Hill, NC, USA
| | - Yujie Wang
- Department of Epidemiology, Gillings School of Global Public Health, University of North Carolina at Chapel
Hill, Chapel Hill, NC, USA
| | - Cecilia Albala
- Department of Public Health Nutrition, Institute of Nutrition and Food Technology (INTA), University of
Chile, Santiago, Chile
| | - José L. Santos
- Department of Nutrition, Diabetes and Metabolism, School of Medicine, Pontificia Universidad Católica
de Chile, Santiago, Chile
| | - Bárbara Angel
- Department of Public Health Nutrition, Institute of Nutrition and Food Technology (INTA), University of
Chile, Santiago, Chile
| | - Betsy Lozoff
- Pediatrics and Communicable Diseases, University of Michigan, Ann Arbor, MI, USA
| | - V. Saroja Voruganti
- Department of Nutrition and Nutrition Research Institute, University of North Carolina at Chapel Hill,
Kannapolis NC 28081, USA
| | - Kari E. North
- Department of Epidemiology, Gillings School of Global Public Health, University of North Carolina at Chapel
Hill, Chapel Hill, NC, USA
| | - Sheila Gahagan
- Division of Academic General Pediatrics, Child Development and Community Health at the Center for Community
Health, University of California at San Diego, San Diego, CA, USA
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16
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Deary V, Hagenaars SP, Harris SE, Hill WD, Davies G, Liewald DCM, McIntosh AM, Gale CR, Deary IJ. Genetic contributions to self-reported tiredness. Mol Psychiatry 2018; 23:609-620. [PMID: 28194004 PMCID: PMC5822465 DOI: 10.1038/mp.2017.5] [Citation(s) in RCA: 25] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 04/06/2016] [Revised: 12/01/2016] [Accepted: 12/13/2016] [Indexed: 02/07/2023]
Abstract
Self-reported tiredness and low energy, often called fatigue, are associated with poorer physical and mental health. Twin studies have indicated that this has a heritability between 6 and 50%. In the UK Biobank sample (N=108 976), we carried out a genome-wide association study (GWAS) of responses to the question, 'Over the last two weeks, how often have you felt tired or had little energy?' Univariate GCTA-GREML found that the proportion of variance explained by all common single-nucleotide polymorphisms for this tiredness question was 8.4% (s.e.=0.6%). GWAS identified one genome-wide significant hit (Affymetrix id 1:64178756_C_T; P=1.36 × 10-11). Linkage disequilibrium score regression and polygenic profile score analyses were used to test for shared genetic aetiology between tiredness and up to 29 physical and mental health traits from GWAS consortia. Significant genetic correlations were identified between tiredness and body mass index (BMI), C-reactive protein, high-density lipoprotein (HDL) cholesterol, forced expiratory volume, grip strength, HbA1c, longevity, obesity, self-rated health, smoking status, triglycerides, type 2 diabetes, waist-hip ratio, attention deficit hyperactivity disorder, bipolar disorder, major depressive disorder, neuroticism, schizophrenia and verbal-numerical reasoning (absolute rg effect sizes between 0.02 and 0.78). Significant associations were identified between tiredness phenotypic scores and polygenic profile scores for BMI, HDL cholesterol, low-density lipoprotein cholesterol, coronary artery disease, C-reactive protein, HbA1c, height, obesity, smoking status, triglycerides, type 2 diabetes, waist-hip ratio, childhood cognitive ability, neuroticism, bipolar disorder, major depressive disorder and schizophrenia (standardised β's had absolute values<0.03). These results suggest that tiredness is a partly heritable, heterogeneous and complex phenomenon that is phenotypically and genetically associated with affective, cognitive, personality and physiological processes.
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Affiliation(s)
- V Deary
- Department of Psychology, Northumbria University, Newcastle, UK
| | - S P Hagenaars
- Centre for Cognitive Ageing and Cognitive Epidemiology, University of Edinburgh, Edinburgh, UK
- Department of Psychology, University of Edinburgh, Edinburgh, UK
- Division of Psychiatry, University of Edinburgh, Edinburgh, UK
| | - S E Harris
- Centre for Cognitive Ageing and Cognitive Epidemiology, University of Edinburgh, Edinburgh, UK
- Medical Genetics Section, University of Edinburgh, Centre for Genomic and Experimental Medicine and MRC Institute of Genetics and Molecular Medicine, Western General Hospital, Edinburgh, UK
| | - W D Hill
- Centre for Cognitive Ageing and Cognitive Epidemiology, University of Edinburgh, Edinburgh, UK
- Department of Psychology, University of Edinburgh, Edinburgh, UK
| | - G Davies
- Centre for Cognitive Ageing and Cognitive Epidemiology, University of Edinburgh, Edinburgh, UK
- Department of Psychology, University of Edinburgh, Edinburgh, UK
| | - D C M Liewald
- Department of Psychology, Northumbria University, Newcastle, UK
- Centre for Cognitive Ageing and Cognitive Epidemiology, University of Edinburgh, Edinburgh, UK
| | - International Consortium for Blood Pressure GWAS
- Department of Psychology, Northumbria University, Newcastle, UK
- Centre for Cognitive Ageing and Cognitive Epidemiology, University of Edinburgh, Edinburgh, UK
- Department of Psychology, University of Edinburgh, Edinburgh, UK
- Division of Psychiatry, University of Edinburgh, Edinburgh, UK
- Medical Genetics Section, University of Edinburgh, Centre for Genomic and Experimental Medicine and MRC Institute of Genetics and Molecular Medicine, Western General Hospital, Edinburgh, UK
- MRC Lifecourse Epidemiology Unit, University of Southampton, Southampton, UK
| | - CHARGE Consortium Aging and Longevity Group
- Department of Psychology, Northumbria University, Newcastle, UK
- Centre for Cognitive Ageing and Cognitive Epidemiology, University of Edinburgh, Edinburgh, UK
- Department of Psychology, University of Edinburgh, Edinburgh, UK
- Division of Psychiatry, University of Edinburgh, Edinburgh, UK
- Medical Genetics Section, University of Edinburgh, Centre for Genomic and Experimental Medicine and MRC Institute of Genetics and Molecular Medicine, Western General Hospital, Edinburgh, UK
- MRC Lifecourse Epidemiology Unit, University of Southampton, Southampton, UK
| | - CHARGE Consortium Inflammation Group
- Department of Psychology, Northumbria University, Newcastle, UK
- Centre for Cognitive Ageing and Cognitive Epidemiology, University of Edinburgh, Edinburgh, UK
- Department of Psychology, University of Edinburgh, Edinburgh, UK
- Division of Psychiatry, University of Edinburgh, Edinburgh, UK
- Medical Genetics Section, University of Edinburgh, Centre for Genomic and Experimental Medicine and MRC Institute of Genetics and Molecular Medicine, Western General Hospital, Edinburgh, UK
- MRC Lifecourse Epidemiology Unit, University of Southampton, Southampton, UK
| | - A M McIntosh
- Division of Psychiatry, University of Edinburgh, Edinburgh, UK
| | - C R Gale
- Centre for Cognitive Ageing and Cognitive Epidemiology, University of Edinburgh, Edinburgh, UK
- Department of Psychology, University of Edinburgh, Edinburgh, UK
- MRC Lifecourse Epidemiology Unit, University of Southampton, Southampton, UK
| | - I J Deary
- Centre for Cognitive Ageing and Cognitive Epidemiology, University of Edinburgh, Edinburgh, UK
- Department of Psychology, University of Edinburgh, Edinburgh, UK
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17
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Noumi Y, Kawamura R, Tabara Y, Maruyama K, Takata Y, Nishida W, Okamoto A, Nishimiya T, Onuma H, Saito I, Tanigawa T, Osawa H. An inverse association between serum resistin levels and n-3 polyunsaturated fatty acids intake was strongest in the SNP-420 G/G genotype in the Japanese cohort: The Toon Genome Study. Clin Endocrinol (Oxf) 2018; 88:51-57. [PMID: 29044636 DOI: 10.1111/cen.13500] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 07/11/2017] [Accepted: 10/12/2017] [Indexed: 12/20/2022]
Abstract
OBJECTIVE Resistin is secreted by monocytes/macrophages and is associated with insulin resistance, inflammation and cardiovascular diseases. In the Japanese cohort, serum resistin is tightly associated with a single-nucleotide polymorphism (SNP) at -420 (rs1862513) in the promoter region of the human resistin gene. However, interactions between SNP-420 and environmental factors remain to be elucidated. The aim of this study was to investigate the association between serum resistin levels and nutrient intake, and the effect of SNP-420 on this association. DESIGN, PARTICIPANTS AND MEASUREMENTS The Toon Genome Study is a cohort study of Japanese community-dwelling subjects. A total of 1981 participants were cross-sectionally analysed. Each nutrient intake was assessed using the semiquantitative food frequency questionnaire and categorized into the quartiles (Q1-Q4). Serum resistin was measured by ELISA. RESULTS Serum resistin tended to be inversely associated with fish intake and positively associated with meat intake after adjustment for age, sex, BMI and energy intake. Serum resistin was inversely associated with n-3 polyunsaturated fatty acids (PUFA) intake after adjustment for age, sex, BMI and energy intake (Q1 12.5, Q2 12.5, Q3 12.2, Q4 11.5 ng/mL; P for trend = .007). This inverse association was strongest in the G/G genotype of SNP-420, followed by C/G and C/C (G/G, Q1 18.9, Q2 19.5, Q3 18.4, Q4 14.5 ng/mL, P = .001; C/G, 14.4, 13.3, 13.1, 12.9, P = .015; C/C, 9.5, 9.5, 9.2, 8.8, P = .020; P for interaction = .004). CONCLUSIONS The inverse association between serum resistin and n-3 PUFA intake was strongest in SNP-420 G/G genotype in the Japanese cohort.
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Affiliation(s)
- Yukinobu Noumi
- Department of Diabetes and Molecular Genetics, Ehime University Graduate School of Medicine, Ehime, Japan
| | - Ryoichi Kawamura
- Department of Diabetes and Molecular Genetics, Ehime University Graduate School of Medicine, Ehime, Japan
| | - Yasuharu Tabara
- Center for Genomic Medicine, Kyoto University Graduate School of Medicine, Kyoto, Japan
| | - Koutatsu Maruyama
- Department of Public Health, Juntendo University Graduate School of Medicine, Tokyo, Japan
| | - Yasunori Takata
- Department of Diabetes and Molecular Genetics, Ehime University Graduate School of Medicine, Ehime, Japan
| | - Wataru Nishida
- Department of Diabetes and Molecular Genetics, Ehime University Graduate School of Medicine, Ehime, Japan
| | - Ai Okamoto
- Department of Clinical Laboratory, Ehime University Hospital, Ehime, Japan
| | - Tatsuya Nishimiya
- Department of Clinical Laboratory, Ehime University Hospital, Ehime, Japan
| | - Hiroshi Onuma
- Department of Diabetes and Molecular Genetics, Ehime University Graduate School of Medicine, Ehime, Japan
| | - Isao Saito
- Department of Community Health Systems Nursing, Ehime University Graduate School of Medicine, Ehime, Japan
| | - Takeshi Tanigawa
- Department of Public Health, Juntendo University Graduate School of Medicine, Tokyo, Japan
| | - Haruhiko Osawa
- Department of Diabetes and Molecular Genetics, Ehime University Graduate School of Medicine, Ehime, Japan
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18
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Dong J, Wyss A, Yang J, Price TR, Nicolas A, Nalls M, Tranah G, Franceschini N, Xu Z, Schulte C, Alonso A, Cummings SR, Fornage M, Zaykin D, Li L, Huang X, Kritchevsky S, Liu Y, Gasser T, Wilson RS, De Jager PL, Singleton AB, Pinto JM, Harris T, Mosley TH, Bennett DA, London S, Yu L, Chen H. Genome-Wide Association Analysis of the Sense of Smell in U.S. Older Adults: Identification of Novel Risk Loci in African-Americans and European-Americans. Mol Neurobiol 2017; 54:8021-8032. [PMID: 27878761 PMCID: PMC5441979 DOI: 10.1007/s12035-016-0282-8] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/29/2016] [Accepted: 10/31/2016] [Indexed: 12/15/2022]
Abstract
The human sense of smell decreases with age, and a poor sense of smell are among the most important prodromal symptoms of several neurodegenerative diseases. Recent evidence further suggests a racial difference in the sense of smell among U.S. older adults. However, no genome-wide association study (GWAS) on the sense of smell has been conducted in African-Americans (AAs). We performed the first genome-wide meta-analysis of the sense of smell among 1979 AAs and 6582 European-Americans (EAs) from three U.S. aging cohorts. In the AA population, we identified nine novel regions (KLF4-ACTL7B, RAPGEF2-FSTL5, TCF4-LOC100505474, PCDH10, KIAA1751, MYO5B, MIR320B1-CD2, NR5A2-LINC00862, SALL1-C16orf97) that were associated with the sense of smell (P < 5 × 10-8). Many of these regions have been previously linked to neuropsychiatric (schizophrenia or epilepsy) or neurodegenerative (Parkinson's or Alzheimer's disease) diseases associated with a decreased sense of smell. In the EA population, we identified two novel loci in or near RASGRP1 and ANXA2P3 associated with sense of smell. In conclusion, this study identified several ancestry-specific loci that are associated with the sense of smell in older adults. While these findings need independent confirmation, they may lead to novel insights into the biology of the sense of smell in older adults and its relationships to neuropsychological and neurodegenerative diseases.
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Affiliation(s)
- Jing Dong
- Epidemiology Branch, National Institute of Environmental Health Sciences, 111 T.W. Alexander Dr. P.O. Box 12233, Mail drop A3-05, Research Triangle Park, NC, 27709, USA.
| | - Annah Wyss
- Epidemiology Branch, National Institute of Environmental Health Sciences, 111 T.W. Alexander Dr. P.O. Box 12233, Mail drop A3-05, Research Triangle Park, NC, 27709, USA
| | - Jingyun Yang
- Rush Alzheimer's Disease Center, Rush University Medical Center, Chicago, IL, USA
| | - T Ryan Price
- Laboratory of Neurogenetics, National Institute on Aging, Bethesda, MD, USA
| | - Aude Nicolas
- Laboratory of Neurogenetics, National Institute on Aging, Bethesda, MD, USA
| | - Michael Nalls
- Laboratory of Neurogenetics, National Institute on Aging, Bethesda, MD, USA
| | - Greg Tranah
- California Pacific Medical Center Research Institute, San Francisco, CA, USA
| | - Nora Franceschini
- Department of Epidemiology, University of North Carolina Gillings School of Global Public Health, Chapel Hill, NC, USA
| | - Zongli Xu
- Epidemiology Branch, National Institute of Environmental Health Sciences, 111 T.W. Alexander Dr. P.O. Box 12233, Mail drop A3-05, Research Triangle Park, NC, 27709, USA
| | - Claudia Schulte
- Department for Neurodegenerative Diseases, Hertie Institute for Clinical Brain Research, University of Tübingen, Tübingen, Germany
- Genome Biology for Neurodegenerative Diseases, German Center for Neurodegenerative Diseases (DZNE), Tübingen, Germany
| | - Alvaro Alonso
- Department of Epidemiology, Rollins School of Public Health, Emory University, Atlanta, GA, USA
| | - Steven R Cummings
- California Pacific Medical Center Research Institute, San Francisco, CA, USA
| | - Myriam Fornage
- Institute of Molecular Medicine and Human Genetics Center, University of Texas Health Science Center at Houston, Houston, TX, USA
| | - Dmitri Zaykin
- Biostatistics Branch, National Institute of Environmental Health Sciences, Research Triangle Park, NC, USA
| | - Leping Li
- Biostatistics Branch, National Institute of Environmental Health Sciences, Research Triangle Park, NC, USA
| | - Xuemei Huang
- Pennsylvania State University-Milton S. Hershey Medical Center, Hershey, PA, USA
| | - Stephen Kritchevsky
- Sticht Center on Aging, Wake Forest School of Medicine, Winston-Salem, NC, USA
| | - Yongmei Liu
- Division of Public Health Sciences, Wake Forest School of Medicine, Winston-Salem, NC, USA
| | - Thomas Gasser
- Department for Neurodegenerative Diseases, Hertie Institute for Clinical Brain Research, University of Tübingen, Tübingen, Germany
- Genome Biology for Neurodegenerative Diseases, German Center for Neurodegenerative Diseases (DZNE), Tübingen, Germany
| | - Robert S Wilson
- Rush Alzheimer's Disease Center, Rush University Medical Center, Chicago, IL, USA
| | - Philip L De Jager
- Program in Translational Neuro Psychiatric Genomics, Institute for the Neurosciences, Departments of Neurology and Psychiatry, Brigham and Women's Hospital; Harvard Medical School; Program in Medical and Population Genetics, Broad Institute, Boston, MA, USA
| | - Andrew B Singleton
- Laboratory of Neurogenetics, National Institute on Aging, Bethesda, MD, USA
| | - Jayant M Pinto
- Section of Otolaryngology-Head and Neck Surgery, Department of Surgery, The University of Chicago Medicine and Biological Sciences, Chicago, IL, USA
| | - Tamara Harris
- Laboratory of Epidemiology, Demography, and Biometry, National Institute on Aging, Bethesda, MD, USA
| | - Thomas H Mosley
- Division of Geriatrics, Department of Medicine, University of Mississippi Medical Center, Jackson, MS, USA
| | - David A Bennett
- Rush Alzheimer's Disease Center, Rush University Medical Center, Chicago, IL, USA
| | - Stephanie London
- Epidemiology Branch, National Institute of Environmental Health Sciences, 111 T.W. Alexander Dr. P.O. Box 12233, Mail drop A3-05, Research Triangle Park, NC, 27709, USA
| | - Lei Yu
- Rush Alzheimer's Disease Center, Rush University Medical Center, Chicago, IL, USA
| | - Honglei Chen
- Epidemiology Branch, National Institute of Environmental Health Sciences, 111 T.W. Alexander Dr. P.O. Box 12233, Mail drop A3-05, Research Triangle Park, NC, 27709, USA
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19
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Hall MA, Wallace J, Lucas A, Kim D, Basile AO, Verma SS, McCarty CA, Brilliant MH, Peissig PL, Kitchner TE, Verma A, Pendergrass SA, Dudek SM, Moore JH, Ritchie MD. PLATO software provides analytic framework for investigating complexity beyond genome-wide association studies. Nat Commun 2017; 8:1167. [PMID: 29079728 PMCID: PMC5660079 DOI: 10.1038/s41467-017-00802-2] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/28/2016] [Accepted: 07/28/2017] [Indexed: 12/22/2022] Open
Abstract
Genome-wide, imputed, sequence, and structural data are now available for exceedingly large sample sizes. The needs for data management, handling population structure and related samples, and performing associations have largely been met. However, the infrastructure to support analyses involving complexity beyond genome-wide association studies is not standardized or centralized. We provide the PLatform for the Analysis, Translation, and Organization of large-scale data (PLATO), a software tool equipped to handle multi-omic data for hundreds of thousands of samples to explore complexity using genetic interactions, environment-wide association studies and gene–environment interactions, phenome-wide association studies, as well as copy number and rare variant analyses. Using the data from the Marshfield Personalized Medicine Research Project, a site in the electronic Medical Records and Genomics Network, we apply each feature of PLATO to type 2 diabetes and demonstrate how PLATO can be used to uncover the complex etiology of common traits. Centralized infrastructure to support analyses involving complexity beyond genome-wide association studies is broadly needed. Here, Ritchie and colleagues develop PLATO, a software tool to process and integrate various methods for this task.
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Affiliation(s)
- Molly A Hall
- Institute for Biomedical Informatics, Departments of Genetics and Biostatistics and Epidemiology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, 19104, USA
| | - John Wallace
- Biomedical and Translational Informatics Institute, Geisinger Health System, Danville, PA, 17821, USA
| | - Anastasia Lucas
- Biomedical and Translational Informatics Institute, Geisinger Health System, Danville, PA, 17821, USA
| | - Dokyoon Kim
- Biomedical and Translational Informatics Institute, Geisinger Health System, Danville, PA, 17821, USA
| | - Anna O Basile
- Department of Biochemistry and Molecular Biology, Center for Systems Genomics, Eberly College of Science, The Pennsylvania State University, University Park, PA, 16802, USA
| | - Shefali S Verma
- Biomedical and Translational Informatics Institute, Geisinger Health System, Danville, PA, 17821, USA.,Department of Biochemistry and Molecular Biology, Center for Systems Genomics, Eberly College of Science, The Pennsylvania State University, University Park, PA, 16802, USA
| | | | | | - Peggy L Peissig
- Marshfield Clinic Research Institute, Marshfield, WI, 54449, USA
| | | | - Anurag Verma
- Biomedical and Translational Informatics Institute, Geisinger Health System, Danville, PA, 17821, USA.,Department of Biochemistry and Molecular Biology, Center for Systems Genomics, Eberly College of Science, The Pennsylvania State University, University Park, PA, 16802, USA
| | - Sarah A Pendergrass
- Biomedical and Translational Informatics Institute, Geisinger Health System, Danville, PA, 17821, USA
| | - Scott M Dudek
- Biomedical and Translational Informatics Institute, Geisinger Health System, Danville, PA, 17821, USA
| | - Jason H Moore
- Institute for Biomedical Informatics, Departments of Genetics and Biostatistics and Epidemiology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, 19104, USA
| | - Marylyn D Ritchie
- Biomedical and Translational Informatics Institute, Geisinger Health System, Danville, PA, 17821, USA. .,Department of Biochemistry and Molecular Biology, Center for Systems Genomics, Eberly College of Science, The Pennsylvania State University, University Park, PA, 16802, USA.
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20
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Cai Y, Patterson KE, Reinier F, Keesecker SE, Blue E, Bamshad M, Haddad J. Copy Number Changes Identified Using Whole Exome Sequencing in Nonsyndromic Cleft Lip and Palate in a Honduran Population. Birth Defects Res 2017; 109:1257-1267. [PMID: 28748635 DOI: 10.1002/bdr2.1063] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/26/2016] [Revised: 04/09/2017] [Accepted: 04/24/2017] [Indexed: 12/14/2022]
Abstract
BACKGROUND The majority of cleft lip with or without cleft palate cases appear as an isolated, nonsyndromic entity (NSCLP). With the advent of next generation sequencing, whole exome sequencing (WES) has been used to identify single nucleotide variants and insertion/deletions which cause or increase the risk of NSCLP. However, to our knowledge, there are no published studies using WES in NSCLP to investigate copy number changes (CNCs), which are a major component of human genetic variation. Our study aimed to identify CNCs associated with NSCLP in a Honduran population using WES. METHODS WES was performed on two to four members of 27 multiplex Honduran families. CNCs were identified using two algorithms, CoNIFER and XHMM. Priority was given to CNCs that were identified in more than one patient and had variant frequencies of less than 5% in reference data sets. RESULTS WES completion was defined as >90% of the WES target at >8 × coverage and >80% of the WES target at >20 × coverage. Twenty-four CNCs that met our inclusion criteria were identified by both CoNIFER and XHMM. These CNCs were confirmed using quantitative PCR. Pedigree analysis produced three CNCs corresponding to ADH7, AHR, and CRYZ segregating with NSCLP. Two of the three CNCs implicate genes, AHR and ADH7, whose known biological functions could plausibly play a role in NSCLP. CONCLUSION WES can be used to detect candidate CNCs that may be involved in the pathophysiology of NSCLP. Birth Defects Research 109:1257-1267, 2017. © 2017 Wiley Periodicals, Inc.
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Affiliation(s)
- Yi Cai
- Columbia University College of Physicians & Surgeons, New York, New York.,Department of Otolaryngology-Head and Neck Surgery, Columbia University Medical Center, New York, New York
| | - Karynne E Patterson
- Department of Genome Sciences, University of Washington, Seattle, Washington
| | - Frederic Reinier
- Department of Genome Sciences, University of Washington, Seattle, Washington
| | - Sarah E Keesecker
- Department of Otolaryngology-Head and Neck Surgery, Columbia University Medical Center, New York, New York
| | - Elizabeth Blue
- Division of Medical Genetics, University of Washington, Seattle, Washington
| | - Michael Bamshad
- Department of Genome Sciences, University of Washington, Seattle, Washington.,Division of Medical Genetics, University of Washington, Seattle, Washington
| | - Joseph Haddad
- Department of Otolaryngology-Head and Neck Surgery, Columbia University Medical Center, New York, New York
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21
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Epigenetic Regulation of the Biosynthesis & Enzymatic Modification of Heparan Sulfate Proteoglycans: Implications for Tumorigenesis and Cancer Biomarkers. Int J Mol Sci 2017; 18:ijms18071361. [PMID: 28672878 PMCID: PMC5535854 DOI: 10.3390/ijms18071361] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/01/2017] [Revised: 06/05/2017] [Accepted: 06/22/2017] [Indexed: 02/06/2023] Open
Abstract
Emerging evidence suggests that the enzymes in the biosynthetic pathway for the synthesis of heparan sulfate moieties of heparan sulfate proteoglycans (HSPGs) are epigenetically regulated at many levels. As the exact composition of the heparan sulfate portion of the resulting HSPG molecules is critical to the broad spectrum of biological processes involved in oncogenesis, the epigenetic regulation of heparan sulfate biosynthesis has far-reaching effects on many cellular activities related to cancer progression. Given the current focus on developing new anti-cancer therapeutics focused on epigenetic targets, it is important to understand the effects that these emerging therapeutics may have on the synthesis of HSPGs as alterations in HSPG composition may have profound and unanticipated effects. As an introduction, this review will briefly summarize the variety of important roles which HSPGs play in a wide-spectrum of cancer-related cellular and physiological functions and then describe the biosynthesis of the heparan sulfate chains of HSPGs, including how alterations observed in cancer cells serve as potential biomarkers. This review will then focus on detailing the multiple levels of epigenetic regulation of the enzymes in the heparan sulfate synthesis pathway with a particular focus on regulation by miRNA and effects of epigenetic therapies on HSPGs. We will also explore the use of lectins to detect differences in heparan sulfate composition and preview their potential diagnostic and prognostic use in the clinic.
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22
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Lausten-Thomsen U, Christiansen M, Hedley PL, Nielsen TRH, Fonvig CE, Pedersen O, Hansen T, Holm JC. Reference values for fasting serum resistin in healthy children and adolescents. Clin Chim Acta 2017; 469:161-165. [DOI: 10.1016/j.cca.2017.04.002] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/21/2017] [Revised: 04/04/2017] [Accepted: 04/05/2017] [Indexed: 10/19/2022]
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23
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Genome-wide association study for feed efficiency and growth traits in U.S. beef cattle. BMC Genomics 2017; 18:386. [PMID: 28521758 PMCID: PMC5437562 DOI: 10.1186/s12864-017-3754-y] [Citation(s) in RCA: 108] [Impact Index Per Article: 15.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/26/2016] [Accepted: 05/03/2017] [Indexed: 11/13/2022] Open
Abstract
Background Single nucleotide polymorphism (SNP) arrays for domestic cattle have catalyzed the identification of genetic markers associated with complex traits for inclusion in modern breeding and selection programs. Using actual and imputed Illumina 778K genotypes for 3887 U.S. beef cattle from 3 populations (Angus, Hereford, SimAngus), we performed genome-wide association analyses for feed efficiency and growth traits including average daily gain (ADG), dry matter intake (DMI), mid-test metabolic weight (MMWT), and residual feed intake (RFI), with marker-based heritability estimates produced for all traits and populations. Results Moderate and/or large-effect QTL were detected for all traits in all populations, as jointly defined by the estimated proportion of variance explained (PVE) by marker effects (PVE ≥ 1.0%) and a nominal P-value threshold (P ≤ 5e-05). Lead SNPs with PVE ≥ 2.0% were considered putative evidence of large-effect QTL (n = 52), whereas those with PVE ≥ 1.0% but < 2.0% were considered putative evidence for moderate-effect QTL (n = 35). Identical or proximal lead SNPs associated with ADG, DMI, MMWT, and RFI collectively supported the potential for either pleiotropic QTL, or independent but proximal causal mutations for multiple traits within and between the analyzed populations. Marker-based heritability estimates for all investigated traits ranged from 0.18 to 0.60 using 778K genotypes, or from 0.17 to 0.57 using 50K genotypes (reduced from Illumina 778K HD to Illumina Bovine SNP50). An investigation to determine if QTL detected by 778K analysis could also be detected using 50K genotypes produced variable results, suggesting that 50K analyses were generally insufficient for QTL detection in these populations, and that relevant breeding or selection programs should be based on higher density analyses (imputed or directly ascertained). Conclusions Fourteen moderate to large-effect QTL regions which ranged from being physically proximal (lead SNPs ≤ 3Mb) to fully overlapping for RFI, DMI, ADG, and MMWT were detected within and between populations, and included evidence for pleiotropy, proximal but independent causal mutations, and multi-breed QTL. Bovine positional candidate genes for these traits were functionally conserved across vertebrate species. Electronic supplementary material The online version of this article (doi:10.1186/s12864-017-3754-y) contains supplementary material, which is available to authorized users.
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Ruscica M, Baragetti A, Catapano AL, Norata GD. Translating the biology of adipokines in atherosclerosis and cardiovascular diseases: Gaps and open questions. Nutr Metab Cardiovasc Dis 2017; 27:379-395. [PMID: 28237179 DOI: 10.1016/j.numecd.2016.12.005] [Citation(s) in RCA: 39] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 11/05/2016] [Revised: 12/14/2016] [Accepted: 12/16/2016] [Indexed: 01/10/2023]
Abstract
AIM Critically discuss the available data, to identify the current gaps and to provide key concepts that will help clinicians in translating the biology of adipokines in the context of atherosclerosis and cardio-metabolic diseases. DATA SYNTHESIS Adipose tissue is nowadays recognized as an active endocrine organ, a function related to the ability to secrete adipokines (such as leptin and adiponectin) and pro-inflammatory cytokines (tumor necrosis factor alpha and resistin). Studies in vitro and in animal models have observed that obesity status presents a chronic low-grade inflammation as the consequence of the immune cells infiltrating the adipose tissue as well as adipocytes. This inflammatory signature is often related to the presence of cardiovascular diseases, including atherosclerosis and thrombosis. These links are less clear in humans, where the role of adipokines as prognostic marker and/or player in cardiovascular diseases is not as clear as that observed in experimental models. Moreover, plasma adipokine levels might reflect a condition of adipokine-resistance in which adipokine redundancy occurs. The investigation of the cardio-metabolic phenotype of carriers of single nucleotide polymorphisms affecting the levels or function of a specific adipokine might help determine their relevance in humans. Thus, the aim of the present review is to critically discuss the available data, identify the current gaps and provide key concepts that will help clinicians translate the biology of adipokines in the context of atherosclerosis and cardio-metabolic diseases.
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Affiliation(s)
- M Ruscica
- Department of Pharmacological and Biomolecular Sciences, Università degli Studi di Milano, Milan, Italy
| | - A Baragetti
- Department of Pharmacological and Biomolecular Sciences, Università degli Studi di Milano, Milan, Italy; SISA Center for the Study of Atherosclerosis, Bassini Hospital, Cinisello Balsamo, Italy
| | - A L Catapano
- Department of Pharmacological and Biomolecular Sciences, Università degli Studi di Milano, Milan, Italy; IRCCS Multimedica Hospital, Sesto San Giovanni, Milan, Italy
| | - G D Norata
- Department of Pharmacological and Biomolecular Sciences, Università degli Studi di Milano, Milan, Italy; SISA Center for the Study of Atherosclerosis, Bassini Hospital, Cinisello Balsamo, Italy; School of Biomedical Sciences, Curtin Health Innovation Research Institute, Curtin University, Perth, Western Australia, Australia.
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25
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Gong S, Xu C, Wang L, Liu Y, Owusu D, Bailey BA, Li Y, Wang K. Genetic association analysis of polymorphisms in PSD3 gene with obesity, type 2 diabetes, and HDL cholesterol. Diabetes Res Clin Pract 2017; 126:105-114. [PMID: 28237857 DOI: 10.1016/j.diabres.2017.02.006] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 07/29/2016] [Accepted: 02/02/2017] [Indexed: 01/29/2023]
Abstract
BACKGROUND The pleckstrin and Sec7 domain-containing 3 (PSD3) gene has been linked to immune diseases. We examined whether the genetic variants within the PSD3 gene are associated with obesity, type 2 diabetes (T2D), and high-density lipoprotein (HDL) cholesterol level. METHODS Multiple logistic regression model and linear regression model were used to examine the associations of 259 single nucleotide polymorphisms (SNPs) within the PSD3 gene with obesity and T2D as binary traits, and HDL level as a continuous trait using the Marshfield data, respectively. A replication study of obesity was conducted using the Health Aging and Body Composition (Health ABC) sample. RESULTS 23SNPs were associated with obesity (p<0.05) in the Marshfield sample and rs4921966 revealed the strongest association (p=3.97×10-6). Of the 23SNPs, 20 were significantly associated with obesity in the meta-analysis of two samples (p<0.05). Furthermore, 6SNPs revealed associations with T2D in the Marshfield data (top SNP rs12156368 with p=3.05×10-3); while two SNPs (rs6983992 and rs7843239) were associated with both obesity and T2D (p=0.0188 and 0.023 for obesity and p=8.47×10-3 and 0.0128 for T2D, respectively). Furthermore, 11SNPs revealed associations with HDL level (top SNP rs13254772 with p=2.79×10-3) in the Marshfield data; meanwhile rs7009615 was associated with both T2D (p=0.038) and HDL level (p=4.44×10-3). In addition, haplotype analyses further supported the results of single SNP analysis. CONCLUSIONS Common variants in PSD3 were associated with obesity, T2D and HDL level. These findings add important new insights into the pathogenesis of obesity, T2D and HDL cholesterol.
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Affiliation(s)
- Shaoqing Gong
- Department of Biostatistics and Epidemiology, College of Public Health, East Tennessee State University, Johnson City, TN, USA
| | - Chun Xu
- Department of Health and Biomedical Science, University of Texas Rio Grande Valley, Brownsville, TX, USA
| | - Liang Wang
- Department of Biostatistics and Epidemiology, College of Public Health, East Tennessee State University, Johnson City, TN, USA
| | - Ying Liu
- Department of Biostatistics and Epidemiology, College of Public Health, East Tennessee State University, Johnson City, TN, USA
| | - Daniel Owusu
- Department of Biostatistics and Epidemiology, College of Public Health, East Tennessee State University, Johnson City, TN, USA
| | - Beth A Bailey
- Department of Family Medicine, Quillen College of Medicine, East Tennessee State University, Johnson City, TN, USA
| | - Yujing Li
- Department of Human Genetics, School of Medicine, Emory University, Atlanta, GA, USA
| | - Kesheng Wang
- Department of Biostatistics and Epidemiology, College of Public Health, East Tennessee State University, Johnson City, TN, USA.
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26
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Menzaghi C, Marucci A, Antonucci A, De Bonis C, Ortega Moreno L, Salvemini L, Copetti M, Trischitta V, Di Paola R. Suggestive evidence of a multi-cytokine resistin pathway in humans and its role on cardiovascular events in high-risk individuals. Sci Rep 2017; 7:44337. [PMID: 28290549 PMCID: PMC5349527 DOI: 10.1038/srep44337] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/09/2016] [Accepted: 02/07/2017] [Indexed: 01/22/2023] Open
Abstract
In cells and tissues resistin affects IL-1β, IL-6, IL-8, IL-12 and TNF-α expression, thus suggesting the existence of a multi-cytokine “resistin pathway”. We investigated whether such pathway does exist in humans and, if so, if it is associated with cardiovascular risk factors and with major adverse cardiovascular events (MACE). Serum cytokines were measured in 280 healthy subjects from the Gargano Study 2 (GS2) whose BMI, waist circumference, HOMAIR, triglycerides, HDL-cholesterol, systolic and diastolic blood pressure data were available and in 353 patients with type 2 diabetes and coronary artery disease from the Gargano Heart Study (GHS)-prospective design (follow-up 5.4 ± 2.5 years; 71 MACE). In GS2, cytokines mRNA levels in white blood cells were also measured. In GS2, resistin mRNA was correlated with all cytokines expression (all p < 0.001), but IL-12B. Consistently, serum resistin was correlated with all serum cytokines (all p < 0.001), but IL-12. Expression (eRPS) and serum (sRPS) resistin pathway scores (excluding IL-12) were each other correlated (p < 0.001) and both associated with cardiovascular risk factors (all p < 0.01). In GHS, sRPS was independently associated with MACE (HR = 1.44, 95% CI = 1.10–1.90). Our data indicate the existence of a resistin pathway, which is associated with cardiovascular risk factors and which strongly and independently predicts MACE.
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Affiliation(s)
- Claudia Menzaghi
- Research Unit of Diabetes and Endocrine Diseases, IRCCS "Casa Sollievo della Sofferenza", San Giovanni Rotondo, Italy
| | - Antonella Marucci
- Research Unit of Diabetes and Endocrine Diseases, IRCCS "Casa Sollievo della Sofferenza", San Giovanni Rotondo, Italy
| | - Alessandra Antonucci
- Research Unit of Diabetes and Endocrine Diseases, IRCCS "Casa Sollievo della Sofferenza", San Giovanni Rotondo, Italy
| | - Concetta De Bonis
- Research Unit of Diabetes and Endocrine Diseases, IRCCS "Casa Sollievo della Sofferenza", San Giovanni Rotondo, Italy
| | - Lorena Ortega Moreno
- Research Unit of Diabetes and Endocrine Diseases, IRCCS "Casa Sollievo della Sofferenza", San Giovanni Rotondo, Italy
| | - Lucia Salvemini
- Research Unit of Diabetes and Endocrine Diseases, IRCCS "Casa Sollievo della Sofferenza", San Giovanni Rotondo, Italy
| | - Massimiliano Copetti
- Unit of Biostatistics, IRCCS "Casa Sollievo della Sofferenza", San Giovanni Rotondo, Italy
| | - Vincenzo Trischitta
- Research Unit of Diabetes and Endocrine Diseases, IRCCS "Casa Sollievo della Sofferenza", San Giovanni Rotondo, Italy.,Department of Experimental Medicine, Sapienza University of Rome, Italy
| | - Rosa Di Paola
- Research Unit of Diabetes and Endocrine Diseases, IRCCS "Casa Sollievo della Sofferenza", San Giovanni Rotondo, Italy
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Serum resistin is causally related to mortality risk in patients with type 2 diabetes: preliminary evidences from genetic data. Sci Rep 2017; 7:61. [PMID: 28246403 PMCID: PMC5427821 DOI: 10.1038/s41598-017-00138-3] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/14/2016] [Accepted: 02/09/2017] [Indexed: 02/07/2023] Open
Abstract
Resistin has been firmly associated with all-cause mortality. We investigated, whether, in patients with type 2 diabetes (T2D), this association is sustained by a cause-effect relationship. A genotype risk score (GRS), created by summing the number of resistin increasing alleles of two genome-wide association studies (GWAS)-derived single nucleotide polymorphisms (SNPs), serum resistin measurements and all-cause death records were obtained in 1,479 (403 events/12,454 person-years), patients with T2D from three cohorts, Gargano Heart Study-prospective design (n = 350), Gargano Mortality Study (n = 698) and Foggia Mortality Study (n = 431), from Italy. GRS was strongly associated with serum resistin in a non-linear fashion (overall p = 3.5 * 10-7) with effect size modest for GRS = 1 and 2 and much higher for GRS >3, with respect to GRS = 0. A significant non-linear association was observed also between GRS and all-cause mortality (overall p = 3.3 * 10-2), with a low effect size for GRS = 1 and 2, and nearly doubled for GRS ≥ 3, with respect to GRS = 0. Based on the above-reported associations, each genetic equivalent SD increase in log-resistin levels showed a causal hazard ratio of all-cause mortality equal to 2.17 (95%CI: 1.22-3.87), thus providing evidence for a causal role of resistin in shaping the risk of mortality in diabetic patients.
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28
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Svendsen AJ, Gervin K, Lyle R, Christiansen L, Kyvik K, Junker P, Nielsen C, Houen G, Tan Q. Differentially Methylated DNA Regions in Monozygotic Twin Pairs Discordant for Rheumatoid Arthritis: An Epigenome-Wide Study. Front Immunol 2016; 7:510. [PMID: 27909437 PMCID: PMC5112246 DOI: 10.3389/fimmu.2016.00510] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/25/2016] [Accepted: 11/02/2016] [Indexed: 12/29/2022] Open
Abstract
Objectives In an explorative epigenome-wide association study (EWAS) to search for gene independent, differentially methylated DNA positions and regions (DMRs) associated with rheumatoid arthritis (RA) by studying monozygotic (MZ) twin pairs discordant for RA. Methods Genomic DNA was isolated from whole blood samples from 28 MZ twin pairs discordant for RA. DNA methylation was measured using the HumanMethylation450 BeadChips. Smoking, anti-cyclic citrullinated peptide antibodies, and immunosuppressive treatment were included as covariates. Pathway analysis was performed using GREAT. Results Smoking was significantly associated with hypomethylation of a DMR overlapping the promoter region of the RNF5 and the AGPAT1, which are implicated in inflammation and autoimmunity, whereas DMARD treatment induced hypermethylation of the same region. Additionally, the promotor region of both S100A6 and EFCAB4B were hypomethylated, and both genes have previously been associated with RA. We replicated several candidate genes identified in a previous EWAS in treatment-naïve RA singletons. Gene-set analysis indicated the involvement of immunologic signatures and cancer-related pathways in RA. Conclusion We identified several differentially methylated regions associated with RA, which may represent environmental effects or consequences of the disease and plausible biological pathways pertinent to the pathogenesis of RA.
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Affiliation(s)
- Anders J Svendsen
- The Danish Twin Registry, Epidemiology, Institute of Public Health, University of Southern Denmark , Odense , Denmark
| | - Kristina Gervin
- Department of Medical Genetics, Oslo University Hospital, University of Oslo , Oslo , Norway
| | - Robert Lyle
- Department of Medical Genetics, Oslo University Hospital, University of Oslo , Oslo , Norway
| | - Lene Christiansen
- The Danish Twin Registry, Epidemiology, Institute of Public Health, University of Southern Denmark , Odense , Denmark
| | - Kirsten Kyvik
- Denmark and Odense Patient data Explorative Network (OPEN), Institute of Clinical Research, Odense University Hospital, University of Southern Denmark , Odense , Denmark
| | - Peter Junker
- Department of Rheumatology, Odense University Hospital, University of Southern Denmark , Odense , Denmark
| | - Christian Nielsen
- Department of Clinical Immunology, Odense University Hospital , Odense , Denmark
| | - Gunnar Houen
- Department of Clinical Biochemistry and Immunology, Statens Serum Institute , Copenhagen , Denmark
| | - Qihua Tan
- The Danish Twin Registry, Epidemiology, Institute of Public Health, University of Southern Denmark, Odense, Denmark; Unit of Human Genetics, Department of Clinical Research, University of Southern Denmark, Odense, Denmark
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29
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Kawamura R, Tabara Y, Tsukada A, Igase M, Ohashi J, Yamada R, Takata Y, Kawamoto R, Saito I, Onuma H, Tanigawa T, Yamada K, Kato N, Ohyagi Y, Miki T, Kohara K, Osawa H. Genome-wide association study of plasma resistin levels identified rs1423096 and rs10401670 as possible functional variants in the Japanese population. Physiol Genomics 2016; 48:874-881. [PMID: 27664181 DOI: 10.1152/physiolgenomics.00040.2016] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/06/2016] [Accepted: 09/22/2016] [Indexed: 01/06/2023] Open
Abstract
Resistin is a cytokine inducing insulin resistance in mice. We previously identified single nucleotide polymorphisms (SNPs) at -420 (rs1862513) and -358 (rs3219175) located in the human resistin gene (RETN) promoter as strong determinants for circulating resistin in the Japanese population. The objective was to identify additional functional variants for circulating resistin. We conducted a genome-wide association study in 448 Japanese subjects. A peak association signal was found on chromosome 19 where RETN is located. The top-hit SNP was SNP -358 G>A, followed by rs1423096 C>T, SNP -420 C>G, and rs10401670 C>T (P = 5.39×10-47, 1.81×10-22, 2.09×10-16, and 9.25×10-15, respectively). Meta-analysis including another two independent general Japanese populations showed that circulating resistin was most strongly associated with SNP-358, followed by SNP-420, rs1423096, and rs10401670. Rs1423096 and rs10401670 were located in the 3'-region of RETN and were in strong linkage disequilibrium. Although these SNPs were also in linkage disequilibrium with the promoter SNPs, conditional and haplotype association analyses identified rs1423096 and rs10401670 as independent determinants for circulating resistin. Functionally, nuclear proteins specifically recognized T but not C at rs10401670 as evidenced by an electrophoretic mobility shift assay. The promoter activity of a luciferase reporter with T at either rs1423096 or rs10401670 was lower than that with C in THP-1 human monocytes. Therefore, rs1423096 and rs10401670, in addition to SNP-420 and SNP-358, were identified as possible functional variants affecting circulating resistin by the genome-wide search in the Japanese population.
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Affiliation(s)
- Ryoichi Kawamura
- Department of Diabetes and Molecular Genetics, Ehime University Graduate School of Medicine, Ehime, Japan
| | - Yasuharu Tabara
- Center for Genomic Medicine, Kyoto University Graduate School of Medicine, Kyoto, Japan
| | - Akiko Tsukada
- Matsumoto University Graduate School of Health Science, Nagano, Japan
| | - Michiya Igase
- Department of Geriatric Medicine & Neurology, Ehime University Graduate School of Medicine, Ehime, Japan
| | - Jun Ohashi
- Department of Biological Sciences, Graduate School of Science, The University of Tokyo, Tokyo, Japan
| | - Ryo Yamada
- Center for Genomic Medicine, Kyoto University Graduate School of Medicine, Kyoto, Japan
| | - Yasunori Takata
- Department of Diabetes and Molecular Genetics, Ehime University Graduate School of Medicine, Ehime, Japan
| | - Ryuichi Kawamoto
- Department of Community Medicine, Ehime University Graduate School of Medicine, Ehime, Japan
| | - Isao Saito
- Department of Community Health Systems Nursing, Ehime University Graduate School of Medicine, Ehime, Japan
| | - Hiroshi Onuma
- Department of Diabetes and Molecular Genetics, Ehime University Graduate School of Medicine, Ehime, Japan
| | - Takeshi Tanigawa
- Department of Public Health, Juntendo University School of Medicine, Tokyo, Japan; and
| | - Kazuya Yamada
- Matsumoto University Graduate School of Health Science, Nagano, Japan
| | - Norihiro Kato
- Department of Gene Diagnostics and Therapeutics Research Institute, National Center for Global Health and Medicine, Tokyo, Japan
| | - Yasumasa Ohyagi
- Department of Geriatric Medicine & Neurology, Ehime University Graduate School of Medicine, Ehime, Japan
| | - Tetsuro Miki
- Department of Geriatric Medicine & Neurology, Ehime University Graduate School of Medicine, Ehime, Japan
| | - Katsuhiko Kohara
- Department of Geriatric Medicine & Neurology, Ehime University Graduate School of Medicine, Ehime, Japan
| | - Haruhiko Osawa
- Department of Diabetes and Molecular Genetics, Ehime University Graduate School of Medicine, Ehime, Japan;
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30
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Chen M, Baumbach J, Vandin F, Röttger R, Barbosa E, Dong M, Frost M, Christiansen L, Tan Q. Differentially Methylated Genomic Regions in Birth-Weight Discordant Twin Pairs. Ann Hum Genet 2016; 80:81-7. [DOI: 10.1111/ahg.12146] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/01/2015] [Revised: 12/03/2015] [Accepted: 12/07/2015] [Indexed: 01/07/2023]
Affiliation(s)
- Mubo Chen
- Computational Biology Group, Department of Mathematics and Computer Science; University of Southern Denmark; Odense Denmark
- Department of Electrical and Computer Engineering, Faculty of Science and Technology; University of Macau; Macau China
| | - Jan Baumbach
- Computational Biology Group, Department of Mathematics and Computer Science; University of Southern Denmark; Odense Denmark
| | - Fabio Vandin
- Computational Biology Group, Department of Mathematics and Computer Science; University of Southern Denmark; Odense Denmark
- Department of Information Engineering; University of Padova; Padova Italy
| | - Richard Röttger
- Computational Biology Group, Department of Mathematics and Computer Science; University of Southern Denmark; Odense Denmark
| | - Eudes Barbosa
- Computational Biology Group, Department of Mathematics and Computer Science; University of Southern Denmark; Odense Denmark
| | - Mingchui Dong
- Department of Electrical and Computer Engineering, Faculty of Science and Technology; University of Macau; Macau China
| | - Morten Frost
- Department of Endocrinology; Odense University Hospital; Odense Denmark
| | - Lene Christiansen
- Epidemiology, Biostatistics and Biodemography, Department of Public Health; University of Southern Denmark; Odense Denmark
| | - Qihua Tan
- Epidemiology, Biostatistics and Biodemography, Department of Public Health; University of Southern Denmark; Odense Denmark
- Unit of Human Genetics, Department of Clinical Research; University of Southern Denmark; Odense Denmark
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31
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Schleinitz D. Genetic Determination of Serum Levels of Diabetes-Associated Adipokines. Rev Diabet Stud 2016; 12:277-98. [PMID: 26859657 PMCID: PMC5275755 DOI: 10.1900/rds.2015.12.277] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 08/30/2015] [Accepted: 10/06/2015] [Indexed: 12/16/2022] Open
Abstract
Adipose tissue secretes an abundance of proteins. Some of these proteins are known as adipokines and adipose-derived hormones which have been linked with metabolic disorders, including type 2 diabetes, and even with cancer. Variance in serum adipokine concentration is often closely associated with an increase (obesity) or decrease (lipodystrophy) in fat tissue mass, and it is affected by age, gender, and localization of the adipose tissue. However, there may be genetic variants which, in consequence, influence the serum concentration of a certain adipokine, and thereby promote metabolic disturbances or, with regard to the "protective" allele, exert beneficial effects. This review focuses on the genetic determination of serum levels of the following adipokines: adiponectin, chemerin, leptin, progranulin, resistin, retinol binding protein 4, vaspin, adipsin, apelin, and omentin. The article reports on the latest findings from genome-wide association studies (GWAS) and candidate gene studies, showing variants located in/nearby the adipokine genes and other (non-receptor) genes. An extra chapter highlights adipokine-receptor variants. Epigenetic studies on adipokines are also addressed.
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Affiliation(s)
- Dorit Schleinitz
- Integrated Research and Treatment Center AdiposityDiseases, University of Leipzig, Liebigstr. 21, 04103 Leipzig, Germany
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Gencer B, Auer R, de Rekeneire N, Butler J, Kalogeropoulos A, Bauer DC, Kritchevsky SB, Miljkovic I, Vittinghoff E, Harris T, Rodondi N. Association between resistin levels and cardiovascular disease events in older adults: The health, aging and body composition study. Atherosclerosis 2015; 245:181-6. [PMID: 26724528 DOI: 10.1016/j.atherosclerosis.2015.12.004] [Citation(s) in RCA: 40] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 07/23/2015] [Revised: 11/26/2015] [Accepted: 12/01/2015] [Indexed: 01/21/2023]
Abstract
OBJECTIVE Prospective data on the association between resistin levels and cardiovascular disease (CVD) events are sparse with conflicting results. METHODS We studied 3044 aged 70-79 years from the Health, Aging, and Body Composition Study. CVD events were defined as coronary heart disease (CHD) or stroke events. «Hard » CHD events were defined as CHD death or myocardial infarction. We estimated hazard ratio (HR) and 95% confidence intervals (CI) according to the quartiles of serum resistin concentrations and adjusted for clinical variables, and then further adjusted for metabolic disease (body mass index, fasting plasma glucose, abdominal visceral and subcutaneous adipose tissue, leptin, adiponectin, insulin) and inflammation (C-reactive protein, interleukin-6, tumor necrosis factors-α). RESULTS During a median follow-up of 10.1 years, 559 patients had « hard » CHD events, 884 CHD events and 1106 CVD Events. Unadjusted incidence rate for CVD events was 36.6 (95% CI 32.1-41.1) per 1000 persons-year in the lowest quartile and 54.0 per 1000 persons-year in the highest quartile (95% CI 48.2-59.8, P for trend < 0.001). In the multivariate models adjusted for clinical variables, HRs for the highest vs. lowest quartile of resistin was 1.52 (95% CI 1.20-1.93, P < 0.001) for « Hard » CHD events, 1.41 (95% CI 1.16-1.70, P = 0.001) for CHD events and 1.35 (95% CI 1.14-1.59, P = 0.002) for CVD events. Further adjustment for metabolic disease slightly reduced the associations while adjustment for inflammation markedly reduced the associations. CONCLUSIONS In older adults, higher resistin levels are associated with CVD events independently of clinical risk factors and metabolic disease markers, but markedly attenuated by inflammation.
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Affiliation(s)
- Baris Gencer
- Cardiology Division, Department of Medicine, Geneva University Hospital, Switzerland
| | - Reto Auer
- Department of Ambulatory and Community Medicine, Lausanne University Hospital, Switzerland
| | - Nathalie de Rekeneire
- Geriatric Section, Department of Internal Medicine, Yale University, New Haven, CT, USA
| | - Javed Butler
- Division of Cardiology, Stony Brook University, Long Island, New York, USA
| | | | - Douglas C Bauer
- Department of Medicine, University of California, San Francisco, USA; Department of Epidemiology and Biostatistics, University of California, San Francisco, USA
| | - Stephen B Kritchevsky
- Sticht Center on Aging, Wake Forrest School of Medicine, Winston-Salem, North Carolina, USA
| | - Iva Miljkovic
- Center for Aging and Population Health, Department of Epidemiology, University of Pittsburgh, Pennsylvania, USA
| | - Eric Vittinghoff
- Department of Medicine, University of California, San Francisco, USA
| | - Tamara Harris
- Geriatric Epidemiology Section, National Institute on Aging, Bethesda, MD, USA
| | - Nicolas Rodondi
- Department of General Internal Medicine, Bern University Hospital, Switzerland.
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Nakatochi M, Ichihara S, Yamamoto K, Ohnaka K, Kato Y, Yokota S, Hirashiki A, Naruse K, Asano H, Izawa H, Matsubara T, Yokota M. Epigenome-wide association study suggests that SNPs in the promoter region of RETN influence plasma resistin level via effects on DNA methylation at neighbouring sites. Diabetologia 2015; 58:2781-90. [PMID: 26404063 DOI: 10.1007/s00125-015-3763-9] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 05/19/2015] [Accepted: 08/28/2015] [Indexed: 10/23/2022]
Abstract
AIMS/HYPOTHESIS To investigate epigenetic regulation of the plasma concentration of resistin, we performed an epigenome-wide association study for this variable and DNA methylation (DNAm) in an elderly Japanese cohort and then assessed the relation of single nucleotide polymorphisms (SNPs) associated with the plasma resistin concentration to DNAm level at identified sites. METHODS The association of plasma resistin level with DNAm status was examined in 191 nondiabetic elderly men with the Illumina Infinium HumanMethylation450 BeadChip array. The association between DNAm status at specific sites in the flanking region of the resistin gene (RETN) and RETN mRNA abundance was then evaluated with a public data set for 1202 monocyte samples from a multi-ethnic cohort. Finally, the association of DNAm status and SNPs in the promoter region of RETN was assessed in two cohorts comprising a total of 478 Japanese individuals. RESULTS DNAm status at cg02346997 located in the RETN promoter region showed a negative genome-wide significant association with the plasma resistin level (p = 6.02 × 10(-10)). Four DNAm sites in the RETN promoter region including cg02346997 (p = 4.23 × 10(-70)) showed a negative genome-wide significant association with RETN mRNA abundance in monocytes. Furthermore, the number of minor alleles of the RETN promoter SNPs rs34861192 and rs3219175 was negatively associated with DNAm level at cg02346997 (p = 4.43 × 10(-17)). CONCLUSIONS/INTERPRETATION Our results suggest that RETN promoter SNPs might influence the circulating resistin level through an effect on DNAm at cg02346997 and on RETN mRNA abundance in monocytes.
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Affiliation(s)
- Masahiro Nakatochi
- Bioinformatics Section, Center for Advanced Medicine and Clinical Research, Nagoya University Hospital, Nagoya, Japan
| | - Sahoko Ichihara
- Graduate School of Regional Innovation Studies, Mie University, Tsu, Japan
| | - Ken Yamamoto
- Department of Medical Chemistry, School of Medicine, Kurume University, Kurume, Japan
| | - Keizo Ohnaka
- Department of Geriatric Medicine, Graduate School of Medical Sciences, Kyushu University, Fukuoka, Japan
| | - Yosuke Kato
- Department of Registered Dietitians, Faculty of Health and Welfare, Tokai Gakuin University, Kakamigahara, Japan
| | - Shigeki Yokota
- Department of Internal Medicine, Iwakura Hospital, Iwakura, Japan
| | - Akihiro Hirashiki
- Department of Advanced Medicine in Cardiopulmonary Disease, Nagoya University Graduate School of Medicine, Nagoya, Japan
| | - Keiko Naruse
- Department of Internal Medicine, School of Dentistry, Aichi Gakuin University, Nagoya, Japan
| | - Hiroyuki Asano
- Department of Internal Medicine, Iwakura Hospital, Iwakura, Japan
| | - Hideo Izawa
- Department of Cardiology, Fujita Health University Banbuntane Hotokukai Hospital, Nagoya, Japan
| | - Tatsuaki Matsubara
- Department of Internal Medicine, School of Dentistry, Aichi Gakuin University, Nagoya, Japan
| | - Mitsuhiro Yokota
- Department of Genome Science, School of Dentistry, Aichi Gakuin University, 2-11 Suemori-dori, Chikusa-ku, Nagoya, 464-8651, Japan.
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Huang J, Chen J, Esparza J, Ding J, Elder J, Abecasis GR, Lee YA, Lathrop GM, Moffatt MF, Cookson WOC, Liang L. eQTL mapping identifies insertion- and deletion-specific eQTLs in multiple tissues. Nat Commun 2015; 6:6821. [PMID: 25951796 PMCID: PMC4929061 DOI: 10.1038/ncomms7821] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2014] [Accepted: 03/03/2015] [Indexed: 01/01/2023] Open
Abstract
Genome-wide gene expression quantitative trait loci (eQTL) mapping have been focused on single-nucleotide polymorphisms and have helped interpret findings from diseases mapping studies. The functional effect of structure variants, especially short insertions and deletions (indel) has not been well investigated. Here we impute 1,380,133 indels based on the latest 1,000 Genomes Project panel into three eQTL data sets from multiple tissues. Imputation of indels increased 9.9% power and identifies indel-specific eQTLs for 325 genes. We find introns and vicinities of UTRs are more enriched of indel eQTLs and 3.6 (single-tissue)-9.2%(multi-tissue) of previous identified eSNPs were taggers of eindels. Functional analyses identifies epigenetics marks, gene ontology categories and disease GWAS loci affected by SNPs and indels eQTLs showing tissue-consistent or tissue-specific effects. This study provides new insights into the underlying genetic architecture of gene expression across tissues and new resource to interpret function of diseases and traits associated structure variants.
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Affiliation(s)
- Jinyan Huang
- State Key Laboratory of Medical Genomics, Shanghai Institute of Hematology, Rui Jin Hospital Affiliated with Shanghai Jiao Tong University School of Medicine, Shanghai, China
- Department of Epidemiology, Harvard School of Public Health, Boston, MA
| | - Jun Chen
- Department of Biostatistics, Harvard School of Public Health, Boston, MA
| | - Jorge Esparza
- Max-Delbrück-Center for Molecular Medicine, Berlin, Germany
| | - Jun Ding
- Laboratory of Genetics, National Institute on Aging, National Institutes of Health, Bethesda, MD, USA
| | - James Elder
- Department of Dermatology, University of Michigan Medical School, Ann Arbor, MI 48109-0932, USA
| | - Goncalo R Abecasis
- Department of Dermatology, University of Michigan Medical School, Ann Arbor, MI 48109-0932, USA
| | - Young-Ae Lee
- Max-Delbrück-Center for Molecular Medicine, Berlin, Germany
| | - G. Mark Lathrop
- Departments of Human and Medical Genetics, McGill University and Génome Québec Innovation Centre, Montréal, Canada
| | - Miriam F Moffatt
- National Heart and Lung Institute, Imperial College London, London, UK
| | | | - Liming Liang
- Department of Epidemiology, Harvard School of Public Health, Boston, MA
- Department of Biostatistics, Harvard School of Public Health, Boston, MA
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Dalamaga M. Resistin as a biomarker linking obesity and inflammation to cancer: potential clinical perspectives. Biomark Med 2014; 8:107-18. [PMID: 24325232 DOI: 10.2217/bmm.13.99] [Citation(s) in RCA: 46] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022] Open
Abstract
Excess body weight is associated with various types of malignancies. Resistin, originally described as an adipocyte-specific hormone modulating insulin resistance in rodents, may exhibit proliferative, antiapoptotic, proinflammatory, proangiogenic and metastatic properties. Accumulating evidence supports a role of resistin as a risk factor and potential diagnostic and prognostic biomarker in cancer. In this report, the current knowledge about resistin's properties and pathophysiological implications in cancer in the context of dysregulated adipose tissue in obesity is summarized; clinical translations, preventive and therapeutic considerations, and future perspectives in the field of resistin research are discussed. At the same time, several enigmatic issues involving resistin receptor and signaling pathways remain to be clarified in order to unmask its ontological role in cancer pathophysiology.
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Affiliation(s)
- Maria Dalamaga
- Department of Clinical Biochemistry, Medical School, University of Athens, Attikon General University Hospital, 1 Rimini Street, Chaidari, 12462 Athens, Greece.
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Chung CM, Lin TH, Chen JW, Leu HB, Yin WH, Ho HY, Sheu SH, Tsai WC, Chen JH, Lin SJ, Pan WH. Common quantitative trait locus downstream of RETN gene identified by genome-wide association study is associated with risk of type 2 diabetes mellitus in Han Chinese: a Mendelian randomization effect. Diabetes Metab Res Rev 2014; 30:232-40. [PMID: 24123702 DOI: 10.1002/dmrr.2481] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 03/01/2013] [Revised: 09/16/2013] [Accepted: 09/27/2013] [Indexed: 12/13/2022]
Abstract
OBJECTIVE Plasma resistin level is a potential molecular link between obesity and diabetes. Causal role of resistin, type 2 diabetes mellitus (T2DM) and genetic variants have not been thoroughly investigated. Therefore, we conducted a genome-wide association study (GWAS) to identify quantitative trait loci associated with resistin levels and investigated whether these variants were prospectively associated with the development of metabolic syndrome (MetS) and T2DM in an independent community-based cohort, the CardioVascular Disease risk FACtors Two-township Study (CVDFACTS). RESEARCH DESIGN AND METHODS We genotyped 382 young-onset hypertensive (YOH) subjects with Illumina HumanHap550 chips and searched for quantitative trait loci (QTLs) of resistin in the 1(st) stage GWAS and confirmed the finding in another 559 YOH subjects. Logistic regression was used to examine the Mendelian randomization effects between genotypes of confirmed QTLs and metabolic outcomes in 3400 subjects of CVDFACTS. RESULTS Two single nucleotide polymorphisms (SNP) (rs3745367 and rs1423096) were significantly associated with resistin levels (p = 5.52 × 10(-15) and p = 2.54 × 10(-20) ) and replicated in another 559 YOH subjects (p = 1.29 × 10(-3) and p = 1.13 × 10(-7) ), respectively. The SNP rs1423096 was further associated with the levels of HDL-C (p = 0.006), the risk of MetS (OR = 2.21, p = 0.0034) and T2DM (OR = 1.62, p = 0.0063) in the CVDFACTS. People with the haplotypes A-G and G-G determined by rs3745367 and rs1423096 showed a significantly increased T2DM risk (p = 0.0068 and p = 0.0035, respectively) compared with those with A-A haplotype. CONCLUSION We have found that rs3745367 and rs1423096 on the RETN gene were significantly associated with resistin levels. However, rs1423096, downstream of RETN, seems to be associated with MetS and T2DM risk more so than rs3745367. The established genotype-disease association points to a causal association of resistin and T2DM.
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Affiliation(s)
- Chia-Min Chung
- Institute of Biomedical Sciences, Academia Sinica, Taipei, Taiwan; Division of Health Service Research and Preventive Medicine, Institute of Population Health Sciences, National Health Research Institutes, Miaoli, Taiwan
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