The sequencing and interpretation of the genome obtained from a Serbian individual.
Recent genetic studies and whole-genome sequencing projects have greatly improved our understanding of human variation and clinically actionable genetic information. Smaller ethnic populations, however, remain underrepresented in both individual and large-scale sequencing efforts and hence present a...
| Main Authors: | , , , , , , , , |
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| Format: | Article |
| Language: | English |
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Public Library of Science (PLoS)
2018-01-01
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| Series: | PLoS ONE |
| Online Access: | https://doi.org/10.1371/journal.pone.0208901 |
| _version_ | 1819176124359376896 |
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| author | Wazim Mohammed Ismail Kymberleigh A Pagel Vikas Pejaver Simo V Zhang Sofia Casasa Matthew Mort David N Cooper Matthew W Hahn Predrag Radivojac |
| author_facet | Wazim Mohammed Ismail Kymberleigh A Pagel Vikas Pejaver Simo V Zhang Sofia Casasa Matthew Mort David N Cooper Matthew W Hahn Predrag Radivojac |
| author_sort | Wazim Mohammed Ismail |
| collection | DOAJ |
| description | Recent genetic studies and whole-genome sequencing projects have greatly improved our understanding of human variation and clinically actionable genetic information. Smaller ethnic populations, however, remain underrepresented in both individual and large-scale sequencing efforts and hence present an opportunity to discover new variants of biomedical and demographic significance. This report describes the sequencing and analysis of a genome obtained from an individual of Serbian origin, introducing tens of thousands of previously unknown variants to the currently available pool. Ancestry analysis places this individual in close proximity to Central and Eastern European populations; i.e., closest to Croatian, Bulgarian and Hungarian individuals and, in terms of other Europeans, furthest from Ashkenazi Jewish, Spanish, Sicilian and Baltic individuals. Our analysis confirmed gene flow between Neanderthal and ancestral pan-European populations, with similar contributions to the Serbian genome as those observed in other European groups. Finally, to assess the burden of potentially disease-causing/clinically relevant variation in the sequenced genome, we utilized manually curated genotype-phenotype association databases and variant-effect predictors. We identified several variants that have previously been associated with severe early-onset disease that is not evident in the proband, as well as putatively impactful variants that could yet prove to be clinically relevant to the proband over the next decades. The presence of numerous private and low-frequency variants, along with the observed and predicted disease-causing mutations in this genome, exemplify some of the global challenges of genome interpretation, especially in the context of under-studied ethnic groups. |
| first_indexed | 2024-12-22T21:05:46Z |
| format | Article |
| id | doaj.art-b7f550463eb9492787f2c91e9feb7399 |
| institution | Directory Open Access Journal |
| issn | 1932-6203 |
| language | English |
| last_indexed | 2024-12-22T21:05:46Z |
| publishDate | 2018-01-01 |
| publisher | Public Library of Science (PLoS) |
| record_format | Article |
| series | PLoS ONE |
| spelling | doaj.art-b7f550463eb9492787f2c91e9feb73992022-12-21T18:12:42ZengPublic Library of Science (PLoS)PLoS ONE1932-62032018-01-011312e020890110.1371/journal.pone.0208901The sequencing and interpretation of the genome obtained from a Serbian individual.Wazim Mohammed IsmailKymberleigh A PagelVikas PejaverSimo V ZhangSofia CasasaMatthew MortDavid N CooperMatthew W HahnPredrag RadivojacRecent genetic studies and whole-genome sequencing projects have greatly improved our understanding of human variation and clinically actionable genetic information. Smaller ethnic populations, however, remain underrepresented in both individual and large-scale sequencing efforts and hence present an opportunity to discover new variants of biomedical and demographic significance. This report describes the sequencing and analysis of a genome obtained from an individual of Serbian origin, introducing tens of thousands of previously unknown variants to the currently available pool. Ancestry analysis places this individual in close proximity to Central and Eastern European populations; i.e., closest to Croatian, Bulgarian and Hungarian individuals and, in terms of other Europeans, furthest from Ashkenazi Jewish, Spanish, Sicilian and Baltic individuals. Our analysis confirmed gene flow between Neanderthal and ancestral pan-European populations, with similar contributions to the Serbian genome as those observed in other European groups. Finally, to assess the burden of potentially disease-causing/clinically relevant variation in the sequenced genome, we utilized manually curated genotype-phenotype association databases and variant-effect predictors. We identified several variants that have previously been associated with severe early-onset disease that is not evident in the proband, as well as putatively impactful variants that could yet prove to be clinically relevant to the proband over the next decades. The presence of numerous private and low-frequency variants, along with the observed and predicted disease-causing mutations in this genome, exemplify some of the global challenges of genome interpretation, especially in the context of under-studied ethnic groups.https://doi.org/10.1371/journal.pone.0208901 |
| spellingShingle | Wazim Mohammed Ismail Kymberleigh A Pagel Vikas Pejaver Simo V Zhang Sofia Casasa Matthew Mort David N Cooper Matthew W Hahn Predrag Radivojac The sequencing and interpretation of the genome obtained from a Serbian individual. PLoS ONE |
| title | The sequencing and interpretation of the genome obtained from a Serbian individual. |
| title_full | The sequencing and interpretation of the genome obtained from a Serbian individual. |
| title_fullStr | The sequencing and interpretation of the genome obtained from a Serbian individual. |
| title_full_unstemmed | The sequencing and interpretation of the genome obtained from a Serbian individual. |
| title_short | The sequencing and interpretation of the genome obtained from a Serbian individual. |
| title_sort | sequencing and interpretation of the genome obtained from a serbian individual |
| url | https://doi.org/10.1371/journal.pone.0208901 |
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