Insights into human genetic variation and population history from 929 diverse genomes.


Journal

Science (New York, N.Y.)
ISSN: 1095-9203
Titre abrégé: Science
Pays: United States
ID NLM: 0404511

Informations de publication

Date de publication:
20 03 2020
Historique:
received: 26 06 2019
accepted: 04 02 2020
entrez: 21 3 2020
pubmed: 21 3 2020
medline: 25 3 2020
Statut: ppublish

Résumé

Genome sequences from diverse human groups are needed to understand the structure of genetic variation in our species and the history of, and relationships between, different populations. We present 929 high-coverage genome sequences from 54 diverse human populations, 26 of which are physically phased using linked-read sequencing. Analyses of these genomes reveal an excess of previously undocumented common genetic variation private to southern Africa, central Africa, Oceania, and the Americas, but an absence of such variants fixed between major geographical regions. We also find deep and gradual population separations within Africa, contrasting population size histories between hunter-gatherer and agriculturalist groups in the past 10,000 years, and a contrast between single Neanderthal but multiple Denisovan source populations contributing to present-day human populations.

Identifiants

pubmed: 32193295
pii: 367/6484/eaay5012
doi: 10.1126/science.aay5012
pmc: PMC7115999
mid: EMS93859
pii:
doi:

Types de publication

Journal Article Research Support, Non-U.S. Gov't

Langues

eng

Sous-ensembles de citation

IM

Subventions

Organisme : European Research Council
Pays : International
Organisme : Howard Hughes Medical Institute
Pays : United States
Organisme : Wellcome Trust
ID : 206194
Pays : United Kingdom
Organisme : Wellcome Trust
ID : 098051
Pays : United Kingdom
Organisme : Medical Research Council,
Pays : International
Organisme : Wellcome Trust
ID : FC001595
Pays : United Kingdom
Organisme : Wellcome Trust
Pays : United Kingdom
Organisme : Cancer Research UK
ID : FC001595
Pays : United Kingdom
Organisme : Medical Research Council
ID : FC001595
Pays : United Kingdom
Organisme : Wellcome Trust
ID : 207492
Pays : United Kingdom

Commentaires et corrections

Type : CommentIn

Informations de copyright

Copyright © 2020 The Authors, some rights reserved; exclusive licensee American Association for the Advancement of Science. No claim to original U.S. Government Works.

Références

Nature. 2014 Sep 18;513(7518):409-13
pubmed: 25230663
Bioinformatics. 2012 Jul 15;28(14):1919-20
pubmed: 22576172
Genome Res. 2010 Sep;20(9):1297-303
pubmed: 20644199
Nat Biotechnol. 2018 Oct;36(9):875-879
pubmed: 30125266
Nature. 2016 Oct 13;538(7624):238-242
pubmed: 27654910
Science. 2002 Dec 20;298(5602):2381-5
pubmed: 12493913
Cell. 2019 May 2;177(4):1010-1021.e32
pubmed: 30981557
Science. 2017 Sep 15;357(6356):1160-1163
pubmed: 28912245
Nature. 2015 Sep 3;525(7567):104-8
pubmed: 26196601
Proc Natl Acad Sci U S A. 1979 Oct;76(10):5269-73
pubmed: 291943
Bioinformatics. 2009 Jul 15;25(14):1754-60
pubmed: 19451168
Cell. 2018 Mar 22;173(1):53-61.e9
pubmed: 29551270
Nat Commun. 2017 Jul 04;8:16046
pubmed: 28675384
Investig Genet. 2014 Sep 24;5:13
pubmed: 25254093
Am J Hum Genet. 2015 Sep 3;97(3):404-18
pubmed: 26299365
Nat Genet. 2015 Mar;47(3):296-303
pubmed: 25621458
Mol Biol Evol. 2010 Feb;27(2):385-93
pubmed: 19822636
Curr Opin Genet Dev. 2016 Dec;41:36-43
pubmed: 27589081
Bioinformatics. 2014 Oct 15;30(20):2843-51
pubmed: 24974202
Proc Natl Acad Sci U S A. 1999 Sep 14;96(19):10597-602
pubmed: 10485871
Nucleic Acids Res. 2001 Jan 1;29(1):308-11
pubmed: 11125122
Science. 2012 Oct 12;338(6104):222-6
pubmed: 22936568
Nature. 2014 Mar 20;507(7492):354-7
pubmed: 24476815
Science. 2008 Feb 22;319(5866):1100-4
pubmed: 18292342
Bioinformatics. 2014 May 1;30(9):1312-3
pubmed: 24451623
Sci Adv. 2016 Apr 01;2(4):e1501385
pubmed: 27051878
Am J Hum Genet. 2000 Sep;67(3):718-26
pubmed: 10924403
Nature. 2016 Oct 13;538(7624):207-214
pubmed: 27654914
Nature. 2014 Jan 2;505(7481):43-9
pubmed: 24352235
Science. 2002 Apr 12;296(5566):261-2
pubmed: 11954565
Nature. 2015 Jun 11;522(7555):207-11
pubmed: 25731166
Nat Genet. 2016 Jun;48(6):593-9
pubmed: 27111036
PLoS Comput Biol. 2016 May 04;12(5):e1004842
pubmed: 27145223
Nature. 2016 Oct 13;538(7624):201-206
pubmed: 27654912
Am J Hum Genet. 2016 Jan 7;98(1):116-26
pubmed: 26748515
BMC Evol Biol. 2007 Nov 08;7:214
pubmed: 17996036
Proc Natl Acad Sci U S A. 2014 Feb 18;111(7):2632-7
pubmed: 24550290
Genetics. 2017 Jan;205(1):385-395
pubmed: 28049708
Nature. 2014 Oct 23;514(7523):445-9
pubmed: 25341783
Bioinformatics. 2015 May 15;31(10):1680-2
pubmed: 25596205
Genetics. 2012 Nov;192(3):1065-93
pubmed: 22960212
Nature. 2010 Dec 23;468(7327):1053-60
pubmed: 21179161
Science. 2016 Apr 8;352(6282):235-9
pubmed: 26989198
Bioinformatics. 2011 Nov 1;27(21):2987-93
pubmed: 21903627
Nature. 2017 Jan 18;541(7637):302-310
pubmed: 28102248
Am J Hum Genet. 2012 Nov 2;91(5):839-48
pubmed: 23103226
Nat Commun. 2014 Jun 13;5:3934
pubmed: 25653097
Nat Biotechnol. 2016 Mar;34(3):303-11
pubmed: 26829319
Nat Genet. 2014 Aug;46(8):919-25
pubmed: 24952747
Nat Genet. 2016 Jul;48(7):811-6
pubmed: 27270109
Mol Biol Evol. 2015 Oct;32(10):2665-74
pubmed: 26104010
Nat Genet. 2017 Feb;49(2):303-309
pubmed: 28024154
Science. 2017 Nov 3;358(6363):655-658
pubmed: 28982794
PLoS Genet. 2006 Dec;2(12):e190
pubmed: 17194218
Bioinformatics. 2010 Feb 1;26(3):419-20
pubmed: 20080509
Genetics. 2013 Feb;193(2):515-28
pubmed: 23172852
Nature. 2015 Oct 1;526(7571):68-74
pubmed: 26432245
Cell. 2017 Sep 21;171(1):59-71.e21
pubmed: 28938123
Mol Biol Evol. 2005 May;22(5):1185-92
pubmed: 15703244
Genome Res. 2009 Sep;19(9):1655-64
pubmed: 19648217
PLoS Genet. 2005 Dec;1(6):e70
pubmed: 16355252
Science. 2013 Aug 2;341(6145):562-5
pubmed: 23908239
Nature. 2008 Feb 21;451(7181):998-1003
pubmed: 18288195
Bioinformatics. 2014 Apr 1;30(7):1006-7
pubmed: 24351709
Am J Phys Anthropol. 2005 Oct;128(2):415-23
pubmed: 15795887
Curr Biol. 2019 Jan 7;29(1):149-157.e3
pubmed: 30581024
Science. 2015 Aug 21;349(6250):aab3884
pubmed: 26198033
Science. 2014 Feb 28;343(6174):1017-21
pubmed: 24476670
Nature. 2016 Aug 25;536(7617):419-24
pubmed: 27459054
Am J Hum Genet. 2011 Oct 7;89(4):516-28
pubmed: 21944045
Bioinformatics. 2010 Mar 15;26(6):841-2
pubmed: 20110278
Nature. 2011 Jul 13;475(7357):493-6
pubmed: 21753753

Auteurs

Anders Bergström (A)

Wellcome Sanger Institute, Hinxton CB10 1SA, UK. ab34@sanger.ac.uk cts@sanger.ac.uk.
The Francis Crick Institute, London NW1 1AT, UK.

Shane A McCarthy (SA)

Wellcome Sanger Institute, Hinxton CB10 1SA, UK.
Department of Genetics, University of Cambridge, Cambridge CB2 3EH, UK.

Ruoyun Hui (R)

Department of Genetics, University of Cambridge, Cambridge CB2 3EH, UK.
McDonald Institute for Archaeological Research, University of Cambridge, Cambridge CB2 3ER, UK.

Mohamed A Almarri (MA)

Wellcome Sanger Institute, Hinxton CB10 1SA, UK.

Qasim Ayub (Q)

Wellcome Sanger Institute, Hinxton CB10 1SA, UK.
Monash University Malaysia Genomics Facility, Tropical Medicine and Biology Multidisciplinary Platform, 47500 Bandar Sunway, Malaysia.
School of Science, Monash University Malaysia, 47500 Bandar Sunway, Malaysia.

Petr Danecek (P)

Wellcome Sanger Institute, Hinxton CB10 1SA, UK.

Yuan Chen (Y)

Wellcome Sanger Institute, Hinxton CB10 1SA, UK.

Sabine Felkel (S)

Wellcome Sanger Institute, Hinxton CB10 1SA, UK.
Institute of Animal Breeding and Genetics, University of Veterinary Medicine Vienna, Vienna 1210, Austria.

Pille Hallast (P)

Wellcome Sanger Institute, Hinxton CB10 1SA, UK.
Institute of Biomedicine and Translational Medicine, University of Tartu, Tartu 50411, Estonia.

Jack Kamm (J)

Wellcome Sanger Institute, Hinxton CB10 1SA, UK.
Department of Genetics, University of Cambridge, Cambridge CB2 3EH, UK.
Chan Zuckerberg Biohub, San Francisco, CA 94158, USA.

Hélène Blanché (H)

Centre d'Etude du Polymorphisme Humain, Fondation Jean Dausset, 75010 Paris, France.
GENMED Labex, ANR-10-LABX-0013 Paris, France.

Jean-François Deleuze (JF)

Centre d'Etude du Polymorphisme Humain, Fondation Jean Dausset, 75010 Paris, France.
GENMED Labex, ANR-10-LABX-0013 Paris, France.

Howard Cann (H)

Centre d'Etude du Polymorphisme Humain, Fondation Jean Dausset, 75010 Paris, France.

Swapan Mallick (S)

Department of Genetics, Harvard Medical School, Boston, MA 02115, USA.
Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA.

David Reich (D)

Department of Genetics, Harvard Medical School, Boston, MA 02115, USA.
Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA.

Manjinder S Sandhu (MS)

Wellcome Sanger Institute, Hinxton CB10 1SA, UK.
Department of Medicine, University of Cambridge, Cambridge CB2 0QQ, UK.

Pontus Skoglund (P)

The Francis Crick Institute, London NW1 1AT, UK.

Aylwyn Scally (A)

Department of Genetics, University of Cambridge, Cambridge CB2 3EH, UK.

Yali Xue (Y)

Wellcome Sanger Institute, Hinxton CB10 1SA, UK.

Richard Durbin (R)

Wellcome Sanger Institute, Hinxton CB10 1SA, UK.
Department of Genetics, University of Cambridge, Cambridge CB2 3EH, UK.

Chris Tyler-Smith (C)

Wellcome Sanger Institute, Hinxton CB10 1SA, UK. ab34@sanger.ac.uk cts@sanger.ac.uk.

Articles similaires

Genome, Chloroplast Phylogeny Genetic Markers Base Composition High-Throughput Nucleotide Sequencing

[Redispensing of expensive oral anticancer medicines: a practical application].

Lisanne N van Merendonk, Kübra Akgöl, Bastiaan Nuijen
1.00
Humans Antineoplastic Agents Administration, Oral Drug Costs Counterfeit Drugs

Smoking Cessation and Incident Cardiovascular Disease.

Jun Hwan Cho, Seung Yong Shin, Hoseob Kim et al.
1.00
Humans Male Smoking Cessation Cardiovascular Diseases Female
Humans United States Aged Cross-Sectional Studies Medicare Part C

Classifications MeSH