Neolithic and medieval virus genomes reveal complex evolution of hepatitis B

被引：86

作者：

Krause-Kyora, Ben ^{[1
,2
]}

Susat, Julian ^{[1
]}

Key, Felix M. ^{[2
]}

Kuehnert, Denise ^{[2
,3
]}

Bosse, Esther ^{[1
,4
]}

Immel, Alexander ^{[1
,2
]}

Rinne, Christoph ^{[5
]}

Kornell, Sabin-Christin ^{[1
]}

Yepes, Diego ^{[4
]}

Franzenburg, Soeren ^{[1
]}

Heyne, Henrike O. ^{[6
,7
,8
]}

Meier, Thomas ^{[9
,10
]}

Loesch, Sandra ^{[11
]}

Meller, Harald ^{[12
]}

Friederich, Susanne ^{[12
]}

Nicklisch, Nicole ^{[12
,13
]}

Alt, Kurt W. ^{[12
,13
,14
,15
]}

Schreiber, Stefan ^{[1
,16
]}

Tholey, Andreas ^{[4
]}

Herbig, Alexander ^{[2
]}

Nebel, Almut ^{[1
]}

Krause, Johannes ^{[2
]}

机构：

[1] Univ Kiel, Inst Clin Mol Biol, Kiel, Germany

[2] Max Planck Inst Sci Human Hist, Jena, Germany

[3] Univ Hosp Zurich, Div Infect Dis & Hosp Epidemiol, Zurich, Switzerland

[4] Univ Kiel, Inst Expt Med, Systemat Proteom & Bioanalyt, Kiel, Germany

[5] Univ Kiel, Inst Pre & Protohist Archaeol, Kiel, Germany

[6] Broad Inst, Stanley Ctr Psychiat Res, Cambridge, MA USA

[7] Massachusetts Gen Hosp, Analyt & Translat Genet Unit, Boston, MA 02114 USA

[8] Broad Inst MIT & Harvard, Program Med & Populat Genet, Cambridge, MA 02142 USA

[9] Heidelberg Univ, Inst Pre & Protohist & Near Eastern Archaeol, Heidelberg, Germany

[10] Heidelberg Univ, Heidelberg Ctr Environm, Heidelberg, Germany

[11] Univ Bern, Inst Forens Med, Dept Phys Anthropol, Bern, Switzerland

[12] State Museum Prehist, State Off Heritage Management & Archaeol Saxony A, Halle, Germany

[13] Danube Private Univ, Krems, Austria

[14] Univ Basel, Univ Hosp Basel, Dept Biomed Engn, Basel, Switzerland

[15] Univ Basel, Integrat Prehist & Archaeol Sci, Basel, Switzerland

[16] Univ Hosp Schleswig Holstein, Clin Internal Med, Kiel, Germany

来源：

ELIFE | 2018年 / 7卷

基金：

欧洲研究理事会; 瑞士国家科学基金会;

关键词：

RECOMBINATION; 16TH-CENTURY; SEQUENCE; ORIGINS; AGE;

D O I：

10.7554/eLife.36666

中图分类号：

Q [生物科学];

学科分类号：

07 ; 0710 ; 09 ;

摘要：

The hepatitis B virus (HBV) is one of the most widespread human pathogens known today, yet its origin and evolutionary history are still unclear and controversial. Here, we report the analysis of three ancient HBV genomes recovered from human skeletons found at three different archaeological sites in Germany. We reconstructed two Neolithic and one medieval HBV genome by de novo assembly from shotgun DNA sequencing data. Additionally, we observed HBV-specific peptides using paleo-proteomics. Our results demonstrated that HBV has circulated in the European population for at least 7000 years. The Neolithic HBV genomes show a high genomic similarity to each other. In a phylogenetic network, they do not group with any human-associated HBV genome and are most closely related to those infecting African non-human primates. The ancient viruses appear to represent distinct lineages that have no close relatives today and possibly went extinct. Our results reveal the great potential of ancient DNA from human skeletons in order to study the long-time evolution of blood borne viruses.

引用

页数：15

共 48 条

[1] [Anonymous], THESIS
[2] Hepatitis B virus intergenotypic recombinants worldwide: An overview
Araujo, Natalia M.
[J]. INFECTION GENETICS AND EVOLUTION, 2015, 36 : 500 - 510
[3] SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing
Bankevich, Anton
Nurk, Sergey
Antipov, Dmitry
Gurevich, Alexey A.
Dvorkin, Mikhail
Kulikov, Alexander S.
Lesin, Valery M.
Nikolenko, Sergey I.
Son Pham
Prjibelski, Andrey D.
Pyshkin, Alexey V.
Sirotkin, Alexander V.
Vyahhi, Nikolay
Tesler, Glenn
Alekseyev, Max A.
Pevzner, Pavel A.
[J]. JOURNAL OF COMPUTATIONAL BIOLOGY, 2012, 19 (05) : 455 - 477
[4] Tracing hepatitis B virus to the 16th century in a Korean mummy
Bar-Gal, Gila Kahila
Kim, Myeung Ju
Klein, Athalia
Shin, Dong Hoon
Oh, Chang Seok
Kim, Jong Wan
Kim, Tae-Hyun
Kim, Seok Bae
Grant, Paul R.
Pappo, Orit
Spigelman, Mark
Shouval, Daniel
[J]. HEPATOLOGY, 2012, 56 (05) : 1671 - 1680
[5] Behnke HJ, 2007, SUSSES BRONZEZEIT SI, V4, P63
[6] Behnke HJ, 2012, ARCHAOLOGIE SACHSEN, P35
[7] Behnke HJ, 2011, ARCHAOLOGIE SACHSEN, P184
[8] 2000 Years of Parallel Societies in Stone Age Central Europe
Bollongino, Ruth
Nehlich, Olaf
Richards, Michael P.
Orschiedt, Joerg
Thomas, Mark G.
Sell, Christian
Fajkosova, Zuzana
Powell, Adam
Burger, Joachim
[J]. SCIENCE, 2013, 342 (6157) : 479 - 481
[9] Evolutionary rates and HBV: issues of rate estimation with Bayesian molecular methods
Bouckaert, Remco
Alvarado-Mora, Monica V.
Rebello Pinho, Joao R.
[J]. ANTIVIRAL THERAPY, 2013, 18 (03) : 497 - 503
[10] Brandt G., 2014, P BR ACAD, V198, P95

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