FTO haplotyping underlines high obesity risk for European populations
Abstract Background Fat mass and obesity-associated (FTO) gene has been under close investigation since the discovery of its high impact on the obesity status in 2007 by a range of publications. Recent report on its implication in adipocytes underscored its molecular and functional mechanics in path...
| Main Authors: | , , , |
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| Format: | Article |
| Language: | English |
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BMC
2019-03-01
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| Series: | BMC Medical Genomics |
| Subjects: | |
| Online Access: | http://link.springer.com/article/10.1186/s12920-019-0491-x |
| _version_ | 1828886102259269632 |
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| author | Vladimir Babenko Roman Babenko Junaid Gamieldien Arcady Markel |
| author_facet | Vladimir Babenko Roman Babenko Junaid Gamieldien Arcady Markel |
| author_sort | Vladimir Babenko |
| collection | DOAJ |
| description | Abstract Background Fat mass and obesity-associated (FTO) gene has been under close investigation since the discovery of its high impact on the obesity status in 2007 by a range of publications. Recent report on its implication in adipocytes underscored its molecular and functional mechanics in pathology. Still, the population specific features of the locus structure have not been approached in detail. Methods We analyzed the population specific haplotype profiles of FTO genomic locus identified by Genome Wide Association Studies (GWAS) for the high obesity risk by examining eighteen 1000G populations from 4 continental groups. The GWAS SNPs cluster is located in the FTO gene intron 1 spanning around 70 kb. Results We reconstructed the ancestral state of the locus, which comprised low-risk major allele found in all populations, and two minor risk-associated alleles, each one specific for African and European populations, correspondingly. The locus structure and its allele frequency distribution underscore the high risk allele frequency specifically for the European population. South Asian populations have the second highest frequency of risk alleles, while East Asian populations have the lowest. African population-specific minor allele was only partially risk-associated. All of the GWAS SNPs considered are manifested by low risk alleles as reference (major) ones (p > 0.5) in each of the continental groups. Strikingly, rs1421085, recently reported as a causal SNP, was found to be monomorphic in ancestral (African) populations, implying possible selection sweep in the course of its rapid fixation, as reported previously. Conclusion The observations underscore varying FTO -linked risk in the manifestation of population specific epidemiology of genetically bound obesity. The results imply that the FTO locus is one of the major genetic determinants for obesity risk from GWAS SNPs set. |
| first_indexed | 2024-12-13T11:38:40Z |
| format | Article |
| id | doaj.art-e277f6018054428590321b4e085f15da |
| institution | Directory Open Access Journal |
| issn | 1755-8794 |
| language | English |
| last_indexed | 2024-12-13T11:38:40Z |
| publishDate | 2019-03-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Medical Genomics |
| spelling | doaj.art-e277f6018054428590321b4e085f15da2022-12-21T23:47:43ZengBMCBMC Medical Genomics1755-87942019-03-0112S210711510.1186/s12920-019-0491-xFTO haplotyping underlines high obesity risk for European populationsVladimir Babenko0Roman Babenko1Junaid Gamieldien2Arcady Markel3Federal Research Center Institute of Cytology and Genetics SB RASFederal Research Center Institute of Cytology and Genetics SB RASSouth African National Bioinformatics Institute/SAMRC Unit for Bioinformatics Capacity Development, University of the Western CapeFederal Research Center Institute of Cytology and Genetics SB RASAbstract Background Fat mass and obesity-associated (FTO) gene has been under close investigation since the discovery of its high impact on the obesity status in 2007 by a range of publications. Recent report on its implication in adipocytes underscored its molecular and functional mechanics in pathology. Still, the population specific features of the locus structure have not been approached in detail. Methods We analyzed the population specific haplotype profiles of FTO genomic locus identified by Genome Wide Association Studies (GWAS) for the high obesity risk by examining eighteen 1000G populations from 4 continental groups. The GWAS SNPs cluster is located in the FTO gene intron 1 spanning around 70 kb. Results We reconstructed the ancestral state of the locus, which comprised low-risk major allele found in all populations, and two minor risk-associated alleles, each one specific for African and European populations, correspondingly. The locus structure and its allele frequency distribution underscore the high risk allele frequency specifically for the European population. South Asian populations have the second highest frequency of risk alleles, while East Asian populations have the lowest. African population-specific minor allele was only partially risk-associated. All of the GWAS SNPs considered are manifested by low risk alleles as reference (major) ones (p > 0.5) in each of the continental groups. Strikingly, rs1421085, recently reported as a causal SNP, was found to be monomorphic in ancestral (African) populations, implying possible selection sweep in the course of its rapid fixation, as reported previously. Conclusion The observations underscore varying FTO -linked risk in the manifestation of population specific epidemiology of genetically bound obesity. The results imply that the FTO locus is one of the major genetic determinants for obesity risk from GWAS SNPs set.http://link.springer.com/article/10.1186/s12920-019-0491-xGenomicsPopulation geneticsObesityHaplotypesFTO gene |
| spellingShingle | Vladimir Babenko Roman Babenko Junaid Gamieldien Arcady Markel FTO haplotyping underlines high obesity risk for European populations BMC Medical Genomics Genomics Population genetics Obesity Haplotypes FTO gene |
| title | FTO haplotyping underlines high obesity risk for European populations |
| title_full | FTO haplotyping underlines high obesity risk for European populations |
| title_fullStr | FTO haplotyping underlines high obesity risk for European populations |
| title_full_unstemmed | FTO haplotyping underlines high obesity risk for European populations |
| title_short | FTO haplotyping underlines high obesity risk for European populations |
| title_sort | fto haplotyping underlines high obesity risk for european populations |
| topic | Genomics Population genetics Obesity Haplotypes FTO gene |
| url | http://link.springer.com/article/10.1186/s12920-019-0491-x |
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