AmericaPlex26: a SNaPshot multiplex system for genotyping the main human mitochondrial founder lineages of the Americas
| Autor: | Isabel Flores Espinoza, Alan Cooper, Wolfgang Haak, Maria Inés Barreto Romero, Guido Valverde, Lars Fehren-Schmitz, Bastien Llamas, Alexandra Coutinho |
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| Přispěvatelé: | Achilli, Alessandro |
| Jazyk: | angličtina |
| Rok vydání: | 2014 |
| Předmět: |
Evolutionary Genetics
Genotyping Techniques Social Sciences lcsh:Medicine Haplogroup 0302 clinical medicine Indians South American lcsh:Science Phylogeny Ancient DNA DNA sequencing Mitochondria Mitochondrial DNA Native Americans Paleogenetics Phylogeography Polymerase chain reaction Genetics 0303 health sciences education.field_of_study Multidisciplinary Genome Genomics Single Nucleotide Founder Effect Mitochondrial Genes Mitochondrial Archaeology Physical Anthropology Research Article General Science & Technology Genetics Medical 1.1 Normal biological development and functioning Population Biology Polymorphism Single Nucleotide Sensitivity and Specificity 03 medical and health sciences Genomic Medicine Underpinning research Medical MD Multidisciplinary Humans Genetic Testing 030216 legal & forensic medicine Polymorphism education Genotyping American Indian or Alaska Native 030304 developmental biology Evolutionary Biology Genetic diversity Population Biology Indians South American lcsh:R Haplotype Human Genome Biology and Life Sciences Paleontology Human Genetics Haplotypes Genes Anthropology Genome Mitochondrial Mutation Genetic Polymorphism lcsh:Q Paleobiology Multiplex Polymerase Chain Reaction Population Genetics |
| Zdroj: | PloS one, vol 9, iss 3 PLoS One PLoS ONE, Vol 9, Iss 3, p e93292 (2014) PLoS ONE |
| Popis: | Phylogeographic studies have described a reduced genetic diversity in Native American populations, indicative of one or more bottleneck events during the peopling and prehistory of the Americas. Classical sequencing approaches targeting the mitochondrial diversity have reported the presence of five major haplogroups, namely A, B, C, D and X, whereas the advent of complete mitochondrial genome sequencing has recently refined the number of founder lineages within the given diversity to 15 sub-haplogroups. We developed and optimized a SNaPshot assay to study the mitochondrial diversity in pre-Columbian Native American populations by simultaneous typing of 26 single nucleotide polymorphisms (SNPs) characterising Native American sub-haplogroups. Our assay proved to be highly sensitive with respect to starting concentrations of target DNA and could be applied successfully to a range of ancient human skeletal material from South America from various time periods. The AmericaPlex26 is a powerful assay with enhanced phylogenetic resolution that allows time- and cost-efficient mitochondrial DNA sub-typing from valuable ancient specimens. It can be applied in addition or alternative to standard sequencing of the D-loop region in forensics, ancestry testing, and population studies, or where full-resolution mitochondrial genome sequencing is not feasible. peerReviewed |
| Databáze: | OpenAIRE |
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