Toward high-resolution population genomics using archaeological samples

I. Morozova; P. Flegontov; A. Mikheyev; S. Bruskin; H. Asgharian; P. Ponomarenko; V. Klyuchnikov; G. Kumar; E. Prokhortchouk; Y. Gankin; E. Rogaev; Y. Nikolsky; A. Baranova; E. Elhaik; T. Tatarinova

Статья

Toward high-resolution population genomics using archaeological samples

I. Morozova, P. Flegontov, A. Mikheyev, S. Bruskin, H. Asgharian, P. Ponomarenko, V. Klyuchnikov, G. Kumar, E. Prokhortchouk, Y. Gankin, E. Rogaev, Y. Nikolsky, A. Baranova, E. Elhaik, T. Tatarinova,

2021

https://doi.org/10.1093/dnares/dsw029

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, paleoepidemiology, 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. © The Author 2016.

Цитирование

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Версии

1. Version of Record от 2021-04-27

Метаданные

Об авторах

I. Morozova
Institute of Evolutionary Medicine, University of Zurich, Zurich, Switzerland
P. Flegontov
Department of Biology and Ecology, Faculty of Science, University of Ostrava, Ostrava, Czech Republic
A. Mikheyev
Bioinformatics Center, A.A. Kharkevich Institute for Information Transmission Problems, Russian Academy of Sciences, Moscow, Russian Federation
S. Bruskin
Ecology and Evolution Unit, Okinawa Institute of Science and Technology Graduate University, Okinawa, Japan
H. Asgharian
Vavilov Institute of General Genetics RAS, Moscow, Russian Federation
P. Ponomarenko
Department of Computational and Molecular Biology, University of Southern California, Los Angeles, CA, United States
V. Klyuchnikov
Center for Personalized Medicine, Children's Hospital Los Angeles, Los Angeles, CA, United States
G. Kumar
Spatial Sciences Institute, University of Southern California, Los Angeles, CA, United States
E. Prokhortchouk
Donskaya Archeologia, Rostov, Russian Federation
Y. Gankin
School of Chemical and Biotechnology, SASTRA University, Tanjore, India
E. Rogaev
Research Center of Biotechnology RAS, Moscow, Russian Federation
Y. Nikolsky
Department of Biology, Lomonosov Moscow State University, Russian Federation
A. Baranova
EPAM Systems, Newtown, PA, United States
E. Elhaik
University of Massachusetts Medical School, Worcester, MA, United States
T. Tatarinova
F1 Genomics, San Diego, CA, United States

Название журнала

DNA Research

Том

Выпуск

Страницы

295-310

Ключевые слова

achievement; bioinformatics; epigenetics; genomics; human; medicine; next generation sequencing; population genetics; theoretical model; animal; DNA sequence; genomics; human genome; molecular evolution; population genetics; procedures; ancient DNA; Animals; DNA, Ancient; Evolution, Molecular; Genetics, Population; Genome, Human; Genomics; Humans; Sequence Analysis, DNA

Издатель

Oxford University Press

Тип документа

Review

Тип лицензии Creative Commons

Правовой статус документа

Свободная лицензия

Источник

scopus

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Статья

Toward high-resolution population genomics using archaeological samples

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