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Toward high-resolution population genomics using archaeological samples

Morozova, Irina ; Flegontov, Pavel ; Mikheyev, Alexander S ; Bruskin, Sergey ; Asgharian, Hosseinali ; Ponomarenko, Petr ; Klyuchnikov, Vladimir ; ArunKumar, GaneshPrasad ; Prokhortchouk, Egor and Gankin, Yuriy , et al. (2016) In DNA Research 23(4). p.295-310
Abstract

The term 'ancient DNA' (aDNA) is coming of age, with over 1,200 hits in the PubMed database, beginning in the early 1980s with the studies of 'molecular paleontology'. Rooted in cloning and limited sequencing of DNA from ancient remains during the pre-PCR era, the field has made incredible progress since the introduction of PCR and next-generation sequencing. Over the last decade, aDNA analysis ushered in a new era in genomics and became the method of choice for reconstructing the history of organisms, their biogeography, and migration routes, with applications in evolutionary biology, population genetics, archaeogenetics, paleo-epidemiology, and many other areas. This change was brought by development of new strategies for coping with... (More)

The term 'ancient DNA' (aDNA) is coming of age, with over 1,200 hits in the PubMed database, beginning in the early 1980s with the studies of 'molecular paleontology'. Rooted in cloning and limited sequencing of DNA from ancient remains during the pre-PCR era, the field has made incredible progress since the introduction of PCR and next-generation sequencing. Over the last decade, aDNA analysis ushered in a new era in genomics and became the method of choice for reconstructing the history of organisms, their biogeography, and migration routes, with applications in evolutionary biology, population genetics, archaeogenetics, paleo-epidemiology, and many other areas. This change was brought by development of new strategies for coping with the challenges in studying aDNA due to damage and fragmentation, scarce samples, significant historical gaps, and limited applicability of population genetics methods. In this review, we describe the state-of-the-art achievements in aDNA studies, with particular focus on human evolution and demographic history. We present the current experimental and theoretical procedures for handling and analysing highly degraded aDNA. We also review the challenges in the rapidly growing field of ancient epigenomics. Advancement of aDNA tools and methods signifies a new era in population genetics and evolutionary medicine research.

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publishing date
type
Contribution to journal
publication status
published
keywords
Animals, DNA, Ancient, Evolution, Molecular, Genetics, Population/methods, Genome, Human, Genomics/methods, Humans, Sequence Analysis, DNA/methods
in
DNA Research
volume
23
issue
4
pages
295 - 310
publisher
Oxford University Press
external identifiers
  • pmid:27436340
  • scopus:84988938011
ISSN
1756-1663
DOI
10.1093/dnares/dsw029
language
English
LU publication?
no
additional info
© The Author 2016. Published by Oxford University Press on behalf of Kazusa DNA Research Institute.
id
c3c1a6ec-36a4-418c-ace4-521f75f629cb
date added to LUP
2019-11-10 16:43:20
date last changed
2024-06-12 04:23:07
@article{c3c1a6ec-36a4-418c-ace4-521f75f629cb,
  abstract     = {{<p>The term 'ancient DNA' (aDNA) is coming of age, with over 1,200 hits in the PubMed database, beginning in the early 1980s with the studies of 'molecular paleontology'. Rooted in cloning and limited sequencing of DNA from ancient remains during the pre-PCR era, the field has made incredible progress since the introduction of PCR and next-generation sequencing. Over the last decade, aDNA analysis ushered in a new era in genomics and became the method of choice for reconstructing the history of organisms, their biogeography, and migration routes, with applications in evolutionary biology, population genetics, archaeogenetics, paleo-epidemiology, and many other areas. This change was brought by development of new strategies for coping with the challenges in studying aDNA due to damage and fragmentation, scarce samples, significant historical gaps, and limited applicability of population genetics methods. In this review, we describe the state-of-the-art achievements in aDNA studies, with particular focus on human evolution and demographic history. We present the current experimental and theoretical procedures for handling and analysing highly degraded aDNA. We also review the challenges in the rapidly growing field of ancient epigenomics. Advancement of aDNA tools and methods signifies a new era in population genetics and evolutionary medicine research. </p>}},
  author       = {{Morozova, Irina and Flegontov, Pavel and Mikheyev, Alexander S and Bruskin, Sergey and Asgharian, Hosseinali and Ponomarenko, Petr and Klyuchnikov, Vladimir and ArunKumar, GaneshPrasad and Prokhortchouk, Egor and Gankin, Yuriy and Rogaev, Evgeny and Nikolsky, Yuri and Baranova, Ancha and Elhaik, Eran and Tatarinova, Tatiana V}},
  issn         = {{1756-1663}},
  keywords     = {{Animals; DNA, Ancient; Evolution, Molecular; Genetics, Population/methods; Genome, Human; Genomics/methods; Humans; Sequence Analysis, DNA/methods}},
  language     = {{eng}},
  number       = {{4}},
  pages        = {{295--310}},
  publisher    = {{Oxford University Press}},
  series       = {{DNA Research}},
  title        = {{Toward high-resolution population genomics using archaeological samples}},
  url          = {{http://dx.doi.org/10.1093/dnares/dsw029}},
  doi          = {{10.1093/dnares/dsw029}},
  volume       = {{23}},
  year         = {{2016}},
}