Revising mtDNA haplotypes of the ancient Hungarian conquerors with next generation sequencing
As part of the effort to create a high resolution representative sequence database of the medieval Hungarian conquerors we have resequenced the entire mtDNA genome of 24 published ancient samples with Next Generation Sequencing, whose haplotypes had been previously determined with traditional PCR ba...
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| Veröffentlicht in: | PloS one 2017-04, Vol.12 (4), p.e0174886-e0174886 |
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| creator | Neparáczki, Endre Kocsy, Klaudia Tóth, Gábor Endre Maróti, Zoltán Kalmár, Tibor Bihari, Péter Nagy, István Pálfi, György Molnár, Erika Raskó, István Török, Tibor |
| description | As part of the effort to create a high resolution representative sequence database of the medieval Hungarian conquerors we have resequenced the entire mtDNA genome of 24 published ancient samples with Next Generation Sequencing, whose haplotypes had been previously determined with traditional PCR based methods. We show that PCR based methods are prone to erroneous haplotype or haplogroup determination due to ambiguous sequence reads, and many of the resequenced samples had been classified inaccurately. The SNaPshot method applied with published ancient DNA authenticity criteria is the most straightforward and cheapest PCR based approach for testing a large number of coding region SNP-s, which greatly facilitates correct haplogroup determination. |
| doi_str_mv | 10.1371/journal.pone.0174886 |
| format | Article |
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The SNaPshot method applied with published ancient DNA authenticity criteria is the most straightforward and cheapest PCR based approach for testing a large number of coding region SNP-s, which greatly facilitates correct haplogroup determination.</description><identifier>ISSN: 1932-6203</identifier><identifier>EISSN: 1932-6203</identifier><identifier>DOI: 10.1371/journal.pone.0174886</identifier><identifier>PMID: 28422985</identifier><language>eng</language><publisher>United States: Public Library of Science</publisher><subject>Authenticity ; Bioinformatics ; Biology and Life Sciences ; Bone and Bones - chemistry ; Deoxyribonucleic acid ; DNA ; DNA, Ancient - analysis ; DNA, Mitochondrial - genetics ; DNA, Mitochondrial - history ; Fossils ; Gene sequencing ; Genetics ; Genomes ; Haplotypes ; High resolution ; High-Throughput Nucleotide Sequencing - methods ; History, Medieval ; Humans ; Hungary ; Medicine and Health Sciences ; Mitochondrial DNA ; Molecular Typing - methods ; Paleontology ; Pediatrics ; Polymerase Chain Reaction ; Polymorphism, Single Nucleotide ; Research and Analysis Methods ; Sequence Analysis, DNA ; Single-nucleotide polymorphism ; Studies</subject><ispartof>PloS one, 2017-04, Vol.12 (4), p.e0174886-e0174886</ispartof><rights>2017 Neparáczki et al. This is an open access article distributed under the terms of the Creative Commons Attribution License: http://creativecommons.org/licenses/by/4.0/ (the “License”), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. 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We show that PCR based methods are prone to erroneous haplotype or haplogroup determination due to ambiguous sequence reads, and many of the resequenced samples had been classified inaccurately. The SNaPshot method applied with published ancient DNA authenticity criteria is the most straightforward and cheapest PCR based approach for testing a large number of coding region SNP-s, which greatly facilitates correct haplogroup determination.</description><subject>Authenticity</subject><subject>Bioinformatics</subject><subject>Biology and Life Sciences</subject><subject>Bone and Bones - chemistry</subject><subject>Deoxyribonucleic acid</subject><subject>DNA</subject><subject>DNA, Ancient - analysis</subject><subject>DNA, Mitochondrial - genetics</subject><subject>DNA, Mitochondrial - history</subject><subject>Fossils</subject><subject>Gene sequencing</subject><subject>Genetics</subject><subject>Genomes</subject><subject>Haplotypes</subject><subject>High resolution</subject><subject>High-Throughput Nucleotide Sequencing - methods</subject><subject>History, Medieval</subject><subject>Humans</subject><subject>Hungary</subject><subject>Medicine and Health Sciences</subject><subject>Mitochondrial DNA</subject><subject>Molecular Typing - 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We show that PCR based methods are prone to erroneous haplotype or haplogroup determination due to ambiguous sequence reads, and many of the resequenced samples had been classified inaccurately. The SNaPshot method applied with published ancient DNA authenticity criteria is the most straightforward and cheapest PCR based approach for testing a large number of coding region SNP-s, which greatly facilitates correct haplogroup determination.</abstract><cop>United States</cop><pub>Public Library of Science</pub><pmid>28422985</pmid><doi>10.1371/journal.pone.0174886</doi><orcidid>https://orcid.org/0000-0002-2128-1126</orcidid><oa>free_for_read</oa></addata></record> |
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| subjects | Authenticity Bioinformatics Biology and Life Sciences Bone and Bones - chemistry Deoxyribonucleic acid DNA DNA, Ancient - analysis DNA, Mitochondrial - genetics DNA, Mitochondrial - history Fossils Gene sequencing Genetics Genomes Haplotypes High resolution High-Throughput Nucleotide Sequencing - methods History, Medieval Humans Hungary Medicine and Health Sciences Mitochondrial DNA Molecular Typing - methods Paleontology Pediatrics Polymerase Chain Reaction Polymorphism, Single Nucleotide Research and Analysis Methods Sequence Analysis, DNA Single-nucleotide polymorphism Studies |
| title | Revising mtDNA haplotypes of the ancient Hungarian conquerors with next generation sequencing |
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