The University of Southampton
University of Southampton Institutional Repository

Extensive crop-wild hybridization during Brassica evolution and selection during the domestication and diversification of Brassica crops

Extensive crop-wild hybridization during Brassica evolution and selection during the domestication and diversification of Brassica crops
Extensive crop-wild hybridization during Brassica evolution and selection during the domestication and diversification of Brassica crops

Adaptive genetic diversity in crop wild relatives (CWRs) can be exploited to develop improved crops with higher yield and resilience if phylogenetic relationships between crops and their CWRs are resolved. This further allows accurate quantification of genome-wide introgression and determination of regions of the genome under selection. Using broad sampling of CWRs and whole genome sequencing, we further demonstrate the relationships among two economically valuable and morphologically diverse Brassica crop species, their CWRs, and their putative wild progenitors. Complex genetic relationships and extensive genomic introgression between CWRs and Brassica crops were revealed. Some wild Brassica oleracea populations have admixed feral origins; some domesticated taxa in both crop species are of hybrid origin, while wild Brassica rapa is genetically indistinct from turnips. The extensive genomic introgression that we reveal could result in false identification of selection signatures during domestication using traditional comparative approaches used previously; therefore, we adopted a single-population approach to study selection during domestication. We used this to explore examples of parallel phenotypic selection in the two crop groups and highlight promising candidate genes for future investigation. Our analysis defines the complex genetic relationships between Brassica crops and their diverse CWRs, revealing extensive cross-species gene flow with implications for both crop domestication and evolutionary diversification more generally.

Brassica, Plant Genetics and Genomics, crop wild relatives, domestication, introgression, phylogenomics
1943-2631
Saban, Jasmine
a43e61ec-d1a7-4719-b0a3-4226c61d1f4e
Romero, Anne
8add3b04-1613-4008-b76f-9df9a21d14ec
Ezard, Thomas
a143a893-07d0-4673-a2dd-cea2cd7e1374
Chapman, Mark
8bac4a92-bfa7-4c3c-af29-9af852ef6383
Saban, Jasmine
a43e61ec-d1a7-4719-b0a3-4226c61d1f4e
Romero, Anne
8add3b04-1613-4008-b76f-9df9a21d14ec
Ezard, Thomas
a143a893-07d0-4673-a2dd-cea2cd7e1374
Chapman, Mark
8bac4a92-bfa7-4c3c-af29-9af852ef6383

Saban, Jasmine, Romero, Anne, Ezard, Thomas and Chapman, Mark (2023) Extensive crop-wild hybridization during Brassica evolution and selection during the domestication and diversification of Brassica crops. Genetics, 223 (4), [iyad027]. (doi:10.1093/genetics/iyad027).

Record type: Article

Abstract

Adaptive genetic diversity in crop wild relatives (CWRs) can be exploited to develop improved crops with higher yield and resilience if phylogenetic relationships between crops and their CWRs are resolved. This further allows accurate quantification of genome-wide introgression and determination of regions of the genome under selection. Using broad sampling of CWRs and whole genome sequencing, we further demonstrate the relationships among two economically valuable and morphologically diverse Brassica crop species, their CWRs, and their putative wild progenitors. Complex genetic relationships and extensive genomic introgression between CWRs and Brassica crops were revealed. Some wild Brassica oleracea populations have admixed feral origins; some domesticated taxa in both crop species are of hybrid origin, while wild Brassica rapa is genetically indistinct from turnips. The extensive genomic introgression that we reveal could result in false identification of selection signatures during domestication using traditional comparative approaches used previously; therefore, we adopted a single-population approach to study selection during domestication. We used this to explore examples of parallel phenotypic selection in the two crop groups and highlight promising candidate genes for future investigation. Our analysis defines the complex genetic relationships between Brassica crops and their diverse CWRs, revealing extensive cross-species gene flow with implications for both crop domestication and evolutionary diversification more generally.

Text
Saban_etal_Genetics_MainText_Final - Accepted Manuscript
Available under License Creative Commons Attribution.
Download (3MB)
Text
iyad027 - Version of Record
Available under License Creative Commons Attribution.
Download (1MB)

More information

Accepted/In Press date: 16 February 2023
e-pub ahead of print date: 22 February 2023
Published date: 6 April 2023
Additional Information: Acknowledgements: This work was funded by the Natural Environment Research Council Grant number NE/S002022/1 to M.A.C. and T.H.G.E. This work was supported by the use of the IRIDIS High Performance Computing Facility at the University of Southampton, and we thank staff at the associated support services for their assistance. We are grateful to members of the Chapman lab for their comments on this manuscript, Ying Hu and Asia Hoile for preliminary analysis of seed bank material and Mike Cotton for greenhouse assistance. © The Author(s) 2023. Published by Oxford University Press on behalf of the Genetics Society of America.
Keywords: Brassica, Plant Genetics and Genomics, crop wild relatives, domestication, introgression, phylogenomics

Identifiers

Local EPrints ID: 475478
URI: http://eprints.soton.ac.uk/id/eprint/475478
ISSN: 1943-2631
PURE UUID: ba584c7c-a6f4-4d86-a5a8-9c833202e64f
ORCID for Thomas Ezard: ORCID iD orcid.org/0000-0001-8305-6605
ORCID for Mark Chapman: ORCID iD orcid.org/0000-0002-7151-723X

Catalogue record

Date deposited: 20 Mar 2023 17:40
Last modified: 22 Jun 2024 01:46

Export record

Altmetrics

Contributors

Author: Jasmine Saban
Author: Anne Romero
Author: Thomas Ezard ORCID iD
Author: Mark Chapman ORCID iD

Download statistics

Downloads from ePrints over the past year. Other digital versions may also be available to download e.g. from the publisher's website.

View more statistics

Atom RSS 1.0 RSS 2.0

Contact ePrints Soton: eprints@soton.ac.uk

ePrints Soton supports OAI 2.0 with a base URL of http://eprints.soton.ac.uk/cgi/oai2

This repository has been built using EPrints software, developed at the University of Southampton, but available to everyone to use.

We use cookies to ensure that we give you the best experience on our website. If you continue without changing your settings, we will assume that you are happy to receive cookies on the University of Southampton website.

×