Genome-wide comparison of African-ancestry populations from CARe and other cohorts reveals signals of natural selection.
The study of recent natural selection in human populations has important applications to human history and medicine. Positive natural selection drives the increase in beneficial alleles and plays a role in explaining diversity across human populations. By discovering traits subject to positive selec...
| Main Authors: | , , , , , , , , , , , , , , , , , , , , , , , , |
|---|---|
| Format: | Journal article |
| Language: | English |
| Published: |
2011
|
| _version_ | 1826292770057224192 |
|---|---|
| author | Bhatia, G Patterson, N Pasaniuc, B Zaitlen, N Genovese, G Pollack, S Mallick, S Myers, S Tandon, A Spencer, C Palmer, C Adeyemo, A Akylbekova, E Cupples, L Divers, J Fornage, M Kao, W Lange, L Li, M Musani, S Mychaleckyj, J Ogunniyi, A Papanicolaou, G Rotimi, C Rotter, J |
| author_facet | Bhatia, G Patterson, N Pasaniuc, B Zaitlen, N Genovese, G Pollack, S Mallick, S Myers, S Tandon, A Spencer, C Palmer, C Adeyemo, A Akylbekova, E Cupples, L Divers, J Fornage, M Kao, W Lange, L Li, M Musani, S Mychaleckyj, J Ogunniyi, A Papanicolaou, G Rotimi, C Rotter, J |
| author_sort | Bhatia, G |
| collection | OXFORD |
| description | The study of recent natural selection in human populations has important applications to human history and medicine. Positive natural selection drives the increase in beneficial alleles and plays a role in explaining diversity across human populations. By discovering traits subject to positive selection, we can better understand the population level response to environmental pressures including infectious disease. Our study examines unusual population differentiation between three large data sets to detect natural selection. The populations examined, African Americans, Nigerians, and Gambians, are genetically close to one another (F(ST) < 0.01 for all pairs), allowing us to detect selection even with moderate changes in allele frequency. We also develop a tree-based method to pinpoint the population in which selection occurred, incorporating information across populations. Our genome-wide significant results corroborate loci previously reported to be under selection in Africans including HBB and CD36. At the HLA locus on chromosome 6, results suggest the existence of multiple, independent targets of population-specific selective pressure. In addition, we report a genome-wide significant (p = 1.36 × 10(-11)) signal of selection in the prostate stem cell antigen (PSCA) gene. The most significantly differentiated marker in our analysis, rs2920283, is highly differentiated in both Africa and East Asia and has prior genome-wide significant associations to bladder and gastric cancers. |
| first_indexed | 2024-03-07T03:19:49Z |
| format | Journal article |
| id | oxford-uuid:b70ae846-8e22-42f4-8dd3-ffa07b40fbe5 |
| institution | University of Oxford |
| language | English |
| last_indexed | 2024-03-07T03:19:49Z |
| publishDate | 2011 |
| record_format | dspace |
| spelling | oxford-uuid:b70ae846-8e22-42f4-8dd3-ffa07b40fbe52022-03-27T04:45:37ZGenome-wide comparison of African-ancestry populations from CARe and other cohorts reveals signals of natural selection.Journal articlehttp://purl.org/coar/resource_type/c_dcae04bcuuid:b70ae846-8e22-42f4-8dd3-ffa07b40fbe5EnglishSymplectic Elements at Oxford2011Bhatia, GPatterson, NPasaniuc, BZaitlen, NGenovese, GPollack, SMallick, SMyers, STandon, ASpencer, CPalmer, CAdeyemo, AAkylbekova, ECupples, LDivers, JFornage, MKao, WLange, LLi, MMusani, SMychaleckyj, JOgunniyi, APapanicolaou, GRotimi, CRotter, JThe study of recent natural selection in human populations has important applications to human history and medicine. Positive natural selection drives the increase in beneficial alleles and plays a role in explaining diversity across human populations. By discovering traits subject to positive selection, we can better understand the population level response to environmental pressures including infectious disease. Our study examines unusual population differentiation between three large data sets to detect natural selection. The populations examined, African Americans, Nigerians, and Gambians, are genetically close to one another (F(ST) < 0.01 for all pairs), allowing us to detect selection even with moderate changes in allele frequency. We also develop a tree-based method to pinpoint the population in which selection occurred, incorporating information across populations. Our genome-wide significant results corroborate loci previously reported to be under selection in Africans including HBB and CD36. At the HLA locus on chromosome 6, results suggest the existence of multiple, independent targets of population-specific selective pressure. In addition, we report a genome-wide significant (p = 1.36 × 10(-11)) signal of selection in the prostate stem cell antigen (PSCA) gene. The most significantly differentiated marker in our analysis, rs2920283, is highly differentiated in both Africa and East Asia and has prior genome-wide significant associations to bladder and gastric cancers. |
| spellingShingle | Bhatia, G Patterson, N Pasaniuc, B Zaitlen, N Genovese, G Pollack, S Mallick, S Myers, S Tandon, A Spencer, C Palmer, C Adeyemo, A Akylbekova, E Cupples, L Divers, J Fornage, M Kao, W Lange, L Li, M Musani, S Mychaleckyj, J Ogunniyi, A Papanicolaou, G Rotimi, C Rotter, J Genome-wide comparison of African-ancestry populations from CARe and other cohorts reveals signals of natural selection. |
| title | Genome-wide comparison of African-ancestry populations from CARe and other cohorts reveals signals of natural selection. |
| title_full | Genome-wide comparison of African-ancestry populations from CARe and other cohorts reveals signals of natural selection. |
| title_fullStr | Genome-wide comparison of African-ancestry populations from CARe and other cohorts reveals signals of natural selection. |
| title_full_unstemmed | Genome-wide comparison of African-ancestry populations from CARe and other cohorts reveals signals of natural selection. |
| title_short | Genome-wide comparison of African-ancestry populations from CARe and other cohorts reveals signals of natural selection. |
| title_sort | genome wide comparison of african ancestry populations from care and other cohorts reveals signals of natural selection |
| work_keys_str_mv | AT bhatiag genomewidecomparisonofafricanancestrypopulationsfromcareandothercohortsrevealssignalsofnaturalselection AT pattersonn genomewidecomparisonofafricanancestrypopulationsfromcareandothercohortsrevealssignalsofnaturalselection AT pasaniucb genomewidecomparisonofafricanancestrypopulationsfromcareandothercohortsrevealssignalsofnaturalselection AT zaitlenn genomewidecomparisonofafricanancestrypopulationsfromcareandothercohortsrevealssignalsofnaturalselection AT genoveseg genomewidecomparisonofafricanancestrypopulationsfromcareandothercohortsrevealssignalsofnaturalselection AT pollacks genomewidecomparisonofafricanancestrypopulationsfromcareandothercohortsrevealssignalsofnaturalselection AT mallicks genomewidecomparisonofafricanancestrypopulationsfromcareandothercohortsrevealssignalsofnaturalselection AT myerss genomewidecomparisonofafricanancestrypopulationsfromcareandothercohortsrevealssignalsofnaturalselection AT tandona genomewidecomparisonofafricanancestrypopulationsfromcareandothercohortsrevealssignalsofnaturalselection AT spencerc genomewidecomparisonofafricanancestrypopulationsfromcareandothercohortsrevealssignalsofnaturalselection AT palmerc genomewidecomparisonofafricanancestrypopulationsfromcareandothercohortsrevealssignalsofnaturalselection AT adeyemoa genomewidecomparisonofafricanancestrypopulationsfromcareandothercohortsrevealssignalsofnaturalselection AT akylbekovae genomewidecomparisonofafricanancestrypopulationsfromcareandothercohortsrevealssignalsofnaturalselection AT cupplesl genomewidecomparisonofafricanancestrypopulationsfromcareandothercohortsrevealssignalsofnaturalselection AT diversj genomewidecomparisonofafricanancestrypopulationsfromcareandothercohortsrevealssignalsofnaturalselection AT fornagem genomewidecomparisonofafricanancestrypopulationsfromcareandothercohortsrevealssignalsofnaturalselection AT kaow genomewidecomparisonofafricanancestrypopulationsfromcareandothercohortsrevealssignalsofnaturalselection AT langel genomewidecomparisonofafricanancestrypopulationsfromcareandothercohortsrevealssignalsofnaturalselection AT lim genomewidecomparisonofafricanancestrypopulationsfromcareandothercohortsrevealssignalsofnaturalselection AT musanis genomewidecomparisonofafricanancestrypopulationsfromcareandothercohortsrevealssignalsofnaturalselection AT mychaleckyjj genomewidecomparisonofafricanancestrypopulationsfromcareandothercohortsrevealssignalsofnaturalselection AT ogunniyia genomewidecomparisonofafricanancestrypopulationsfromcareandothercohortsrevealssignalsofnaturalselection AT papanicolaoug genomewidecomparisonofafricanancestrypopulationsfromcareandothercohortsrevealssignalsofnaturalselection AT rotimic genomewidecomparisonofafricanancestrypopulationsfromcareandothercohortsrevealssignalsofnaturalselection AT rotterj genomewidecomparisonofafricanancestrypopulationsfromcareandothercohortsrevealssignalsofnaturalselection |