Selection and adaptive introgression guided the complex evolutionary history of the European common bean.


Journal

Nature communications
ISSN: 2041-1723
Titre abrégé: Nat Commun
Pays: England
ID NLM: 101528555

Informations de publication

Date de publication:
05 04 2023
Historique:
received: 01 06 2022
accepted: 14 03 2023
medline: 7 4 2023
entrez: 5 4 2023
pubmed: 6 4 2023
Statut: epublish

Résumé

Domesticated crops have been disseminated by humans over vast geographic areas. Common bean (Phaseolus vulgaris L.) was introduced in Europe after 1492. Here, by combining whole-genome profiling, metabolic fingerprinting and phenotypic characterisation, we show that the first common bean cultigens successfully introduced into Europe were of Andean origin, after Francisco Pizarro's expedition to northern Peru in 1529. We reveal that hybridisation, selection and recombination have shaped the genomic diversity of the European common bean in parallel with political constraints. There is clear evidence of adaptive introgression into the Mesoamerican-derived European genotypes, with 44 Andean introgressed genomic segments shared by more than 90% of European accessions and distributed across all chromosomes except PvChr11. Genomic scans for signatures of selection highlight the role of genes relevant to flowering and environmental adaptation, suggesting that introgression has been crucial for the dissemination of this tropical crop to the temperate regions of Europe.

Identifiants

pubmed: 37019898
doi: 10.1038/s41467-023-37332-z
pii: 10.1038/s41467-023-37332-z
pmc: PMC10076260
doi:

Types de publication

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

Langues

eng

Sous-ensembles de citation

IM

Pagination

1908

Informations de copyright

© 2023. The Author(s).

Références

Nat Genet. 2020 Jan;52(1):118-125
pubmed: 31873299
Theor Appl Genet. 2010 Sep;121(5):829-43
pubmed: 20490446
New Phytol. 2013 Jan;197(1):300-313
pubmed: 23126683
Genome Res. 2010 Sep;20(9):1297-303
pubmed: 20644199
Nat Plants. 2021 Feb;7(2):123-128
pubmed: 33558754
Mol Ecol. 2008 Apr;17(8):1885-96
pubmed: 18363667
Plant J. 2021 Nov;108(3):646-660
pubmed: 34427014
Bioinformatics. 2010 Mar 15;26(6):841-2
pubmed: 20110278
J Exp Bot. 2019 Feb 20;70(4):1209-1219
pubmed: 31222352
PLoS One. 2015 Dec 01;10(12):e0143943
pubmed: 26625126
Evol Appl. 2009 Nov;2(4):504-22
pubmed: 25567895
Mol Biol Evol. 2018 Jun 1;35(6):1547-1549
pubmed: 29722887
Genetics. 2013 Mar;193(3):929-41
pubmed: 23307896
Am J Hum Genet. 2007 Nov;81(5):1084-97
pubmed: 17924348
Curr Opin Plant Biol. 2020 Aug;56:203-217
pubmed: 32057695
BMC Bioinformatics. 2013 Aug 10;14:244
pubmed: 23937229
Theor Appl Genet. 2012 May;124(8):1539-47
pubmed: 22331140
BMC Bioinformatics. 2008 Dec 16;9:539
pubmed: 19087322
Nat Genet. 2012 Jun 17;44(7):825-30
pubmed: 22706313
Nat Genet. 2012 Jun 17;44(7):821-4
pubmed: 22706312
Mol Biol Evol. 2018 Jan 1;35(1):119-131
pubmed: 29069389
Curr Biol. 2021 May 24;31(10):2155-2166.e4
pubmed: 33770491
Gigascience. 2021 Feb 16;10(2):
pubmed: 33590861
J Exp Bot. 2021 Feb 27;72(5):1617-1633
pubmed: 33247939
Evolution. 2003 Aug;57(8):1776-82
pubmed: 14503619
Bioinformatics. 2019 May 15;35(10):1786-1788
pubmed: 30321304
Am J Hum Genet. 2006 Apr;78(4):629-44
pubmed: 16532393
Genetics. 1983 Oct;105(2):437-60
pubmed: 6628982
Curr Biol. 2019 Dec 2;29(23):3974-3986.e4
pubmed: 31735679
J Biol Chem. 2012 Mar 9;287(11):8242-53
pubmed: 22232549
Plant Physiol. 2017 Dec;175(4):1826-1838
pubmed: 29061907
Genetics. 2003 Jan;163(1):367-74
pubmed: 12586722
J Exp Bot. 2008;59(14):3811-20
pubmed: 18836142
Plant Mol Biol. 2003 Jul;52(5):981-97
pubmed: 14558659
Plant J. 2019 Mar;97(6):1132-1153
pubmed: 30480348
Bioinformatics. 2011 Nov 1;27(21):2987-93
pubmed: 21903627
BMC Biol. 2020 Jul 23;18(1):90
pubmed: 32698880
Proc Natl Acad Sci U S A. 2012 Apr 3;109(14):E788-96
pubmed: 22393017
PLoS Genet. 2017 Mar 16;13(3):e1006666
pubmed: 28301472
Bioinformatics. 2011 Aug 1;27(15):2156-8
pubmed: 21653522
Mol Biol Evol. 2016 Jul;33(7):1740-53
pubmed: 27189559
Fly (Austin). 2012 Apr-Jun;6(2):80-92
pubmed: 22728672
Nat Rev Genet. 2013 Dec;14(12):840-52
pubmed: 24240513
Genome Biol. 2019 Nov 14;20(1):238
pubmed: 31727128
Theor Appl Genet. 1993 Mar;86(1):6-16
pubmed: 24193378
Plant J. 2011 Feb;65(3):418-29
pubmed: 21265895
PLoS Genet. 2012 Jan;8(1):e1002453
pubmed: 22291602
Front Plant Sci. 2017 May 08;8:722
pubmed: 28533789
Mol Ecol. 2019 May;28(9):2360-2377
pubmed: 30849200
Plant Physiol. 2018 Mar;176(3):2441-2455
pubmed: 29301952
Plant Physiol. 2013 Aug;162(4):1992-2004
pubmed: 23739688
Proc Natl Acad Sci U S A. 1988 Dec;85(23):9119-23
pubmed: 3194414
Nat Genet. 2014 Jul;46(7):707-13
pubmed: 24908249
Theor Appl Genet. 2002 May;104(6-7):934-944
pubmed: 12582598
Front Plant Sci. 2022 Mar 14;13:851029
pubmed: 35360324
Curr Protoc Bioinformatics. 2013;43:11.10.1-11.10.33
pubmed: 25431634
Genome Res. 2009 Sep;19(9):1655-64
pubmed: 19648217
Nat Commun. 2019 Apr 3;10(1):1523
pubmed: 30944313
Evolution. 1984 Nov;38(6):1358-1370
pubmed: 28563791
Am J Hum Genet. 2020 Aug 6;107(2):265-277
pubmed: 32707084
Plant Genome. 2015 Jul;8(2):eplantgenome2014.09.0059
pubmed: 33228312

Auteurs

Elisa Bellucci (E)

Department of Agricultural, Food and Environmental Sciences, Marche Polytechnic University, 60131, Ancona, Italy.

Andrea Benazzo (A)

Department of Life Sciences and Biotechnology, University of Ferrara, 44121, Ferrara, Italy.

Chunming Xu (C)

Center for Applied Genetic Technologies, University of Georgia, 30602, Athens, GA, USA.

Elena Bitocchi (E)

Department of Agricultural, Food and Environmental Sciences, Marche Polytechnic University, 60131, Ancona, Italy.

Monica Rodriguez (M)

Department of Agriculture, University of Sassari, 07100, Sassari, Italy.
Centro per la Conservazione e Valorizzazione della Biodiversità Vegetale-CBV, Università degli Studi di Sassari, 07041, Alghero, Italy.

Saleh Alseekh (S)

Max Planck Institute of Molecular Plant Physiology (MPI-MP), 14476, Potsdam-Golm, Germany.
Center for Plant Systems Biology and Plant Biotechnology, 4000, Plovdiv, Bulgaria.

Valerio Di Vittori (V)

Department of Agricultural, Food and Environmental Sciences, Marche Polytechnic University, 60131, Ancona, Italy.
Max Planck Institute of Molecular Plant Physiology (MPI-MP), 14476, Potsdam-Golm, Germany.

Tania Gioia (T)

School of Agricultural, Forestry, Food and Environmental Sciences, University of Basilicata, 85100, Potenza, Italy.

Kerstin Neumann (K)

Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), 06466, Seeland, Germany.

Gaia Cortinovis (G)

Department of Agricultural, Food and Environmental Sciences, Marche Polytechnic University, 60131, Ancona, Italy.

Giulia Frascarelli (G)

Department of Agricultural, Food and Environmental Sciences, Marche Polytechnic University, 60131, Ancona, Italy.

Ester Murube (E)

Department of Agricultural, Food and Environmental Sciences, Marche Polytechnic University, 60131, Ancona, Italy.

Emiliano Trucchi (E)

Department of Life Sciences and Biotechnology, University of Ferrara, 44121, Ferrara, Italy.
Department of Life and Environmental Sciences, Marche Polytechnic University, 60131, Ancona, Italy.

Laura Nanni (L)

Department of Agricultural, Food and Environmental Sciences, Marche Polytechnic University, 60131, Ancona, Italy.

Andrea Ariani (A)

Department of Plant Sciences, University of California, 95616-8780, Davis, CA, USA.

Giuseppina Logozzo (G)

School of Agricultural, Forestry, Food and Environmental Sciences, University of Basilicata, 85100, Potenza, Italy.

Jin Hee Shin (JH)

Center for Applied Genetic Technologies, University of Georgia, 30602, Athens, GA, USA.

Chaochih Liu (C)

Department of Agronomy and Plant Genetics, University of Minnesota, St. Paul, MN, 55108-6026, USA.

Liang Jiang (L)

Max Planck Institute of Molecular Plant Physiology (MPI-MP), 14476, Potsdam-Golm, Germany.

Juan José Ferreira (JJ)

Regional Agrifood Research and Development Service (SERIDA), 33310, Villaviciosa, Asturias, Spain.

Ana Campa (A)

Regional Agrifood Research and Development Service (SERIDA), 33310, Villaviciosa, Asturias, Spain.

Giovanna Attene (G)

Department of Agriculture, University of Sassari, 07100, Sassari, Italy.
Centro per la Conservazione e Valorizzazione della Biodiversità Vegetale-CBV, Università degli Studi di Sassari, 07041, Alghero, Italy.

Peter L Morrell (PL)

Department of Agronomy and Plant Genetics, University of Minnesota, St. Paul, MN, 55108-6026, USA.

Giorgio Bertorelle (G)

Department of Life Sciences and Biotechnology, University of Ferrara, 44121, Ferrara, Italy.

Andreas Graner (A)

Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), 06466, Seeland, Germany.

Paul Gepts (P)

Department of Plant Sciences, University of California, 95616-8780, Davis, CA, USA.

Alisdair R Fernie (AR)

Max Planck Institute of Molecular Plant Physiology (MPI-MP), 14476, Potsdam-Golm, Germany.
Center for Plant Systems Biology and Plant Biotechnology, 4000, Plovdiv, Bulgaria.

Scott A Jackson (SA)

Center for Applied Genetic Technologies, University of Georgia, 30602, Athens, GA, USA.

Roberto Papa (R)

Department of Agricultural, Food and Environmental Sciences, Marche Polytechnic University, 60131, Ancona, Italy. r.papa@univpm.it.

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