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Genomic insights into the origin, domestication and genetic basis of agronomic traits of castor bean

Genomic insights into the origin, domestication and genetic basis of agronomic traits of castor bean
Genomic insights into the origin, domestication and genetic basis of agronomic traits of castor bean

BACKGROUND: Castor bean (Ricinus communis L.) is an important oil crop, which belongs to the Euphorbiaceae family. The seed oil of castor bean is currently the only commercial source of ricinoleic acid that can be used for producing about 2000 industrial products. However, it remains largely unknown regarding the origin, domestication, and the genetic basis of key traits of castor bean.

RESULTS: Here we perform a de novo chromosome-level genome assembly of the wild progenitor of castor bean. By resequencing and analyzing 505 worldwide accessions, we reveal that the accessions from East Africa are the extant wild progenitors of castor bean, and the domestication occurs ~ 3200 years ago. We demonstrate that significant genetic differentiation between wild populations in Kenya and Ethiopia is associated with past climate fluctuation in the Turkana depression ~ 7000 years ago. This dramatic change in climate may have caused the genetic bottleneck in wild castor bean populations. By a genome-wide association study, combined with quantitative trait locus analysis, we identify important candidate genes associated with plant architecture and seed size.

CONCLUSIONS: This study provides novel insights of domestication and genome evolution of castor bean, which facilitates genomics-based breeding of this important oilseed crop and potentially other tree-like crops in future.

Castor bean, Domestication, GWAS, Genomic evolution, Population genetics
Xu, Wei
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Wu, Di
91a701bd-7ae2-4c61-af89-1d300e3671fd
Yang, Tianquan
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Sun, Chao
23223a45-c4f1-419f-8530-473c3c3ab77b
Wang, Zaiqing
d791e619-5f27-40e7-a346-0e98cc4803c3
Han, Bing
4e40aee4-e7be-4058-a3b3-31750ef8b354
Wu, Shibo
6c190b25-4afc-4404-80ad-99f141cf2fb2
Yu, Anmin
e2592928-28b6-46c0-aa2f-7a7bcc552f76
Chapman, Mark A.
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Muraguri, Sammy
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Tan, Qing
6b5086c6-80a6-4889-ad92-291666b8cf0a
Wang, Wenbo
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Bao, Zhigui
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Liu, Aizhong
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Li, De-zhu
d438bf6a-0182-409f-9bb3-27f3ac7f2127
Xu, Wei
d012c621-8510-4ac3-bd83-9da7515b98d2
Wu, Di
91a701bd-7ae2-4c61-af89-1d300e3671fd
Yang, Tianquan
24ac3a8e-ac6f-401e-ab13-3ae8553ce994
Sun, Chao
23223a45-c4f1-419f-8530-473c3c3ab77b
Wang, Zaiqing
d791e619-5f27-40e7-a346-0e98cc4803c3
Han, Bing
4e40aee4-e7be-4058-a3b3-31750ef8b354
Wu, Shibo
6c190b25-4afc-4404-80ad-99f141cf2fb2
Yu, Anmin
e2592928-28b6-46c0-aa2f-7a7bcc552f76
Chapman, Mark A.
8bac4a92-bfa7-4c3c-af29-9af852ef6383
Muraguri, Sammy
2708fa18-d994-4527-af33-376a5d6920f9
Tan, Qing
6b5086c6-80a6-4889-ad92-291666b8cf0a
Wang, Wenbo
89541291-f215-41a8-abfe-73f2e5d3e210
Bao, Zhigui
6e10fd13-f9e7-41a4-b696-a714233c6d0b
Liu, Aizhong
608cf2dc-7202-47b2-a27d-c3a1303fce46
Li, De-zhu
d438bf6a-0182-409f-9bb3-27f3ac7f2127

Xu, Wei, Wu, Di, Yang, Tianquan, Sun, Chao, Wang, Zaiqing, Han, Bing, Wu, Shibo, Yu, Anmin, Chapman, Mark A., Muraguri, Sammy, Tan, Qing, Wang, Wenbo, Bao, Zhigui, Liu, Aizhong and Li, De-zhu (2021) Genomic insights into the origin, domestication and genetic basis of agronomic traits of castor bean. Genome Biology, 22 (1), [113]. (doi:10.1186/s13059-021-02333-y).

Record type: Article

Abstract

BACKGROUND: Castor bean (Ricinus communis L.) is an important oil crop, which belongs to the Euphorbiaceae family. The seed oil of castor bean is currently the only commercial source of ricinoleic acid that can be used for producing about 2000 industrial products. However, it remains largely unknown regarding the origin, domestication, and the genetic basis of key traits of castor bean.

RESULTS: Here we perform a de novo chromosome-level genome assembly of the wild progenitor of castor bean. By resequencing and analyzing 505 worldwide accessions, we reveal that the accessions from East Africa are the extant wild progenitors of castor bean, and the domestication occurs ~ 3200 years ago. We demonstrate that significant genetic differentiation between wild populations in Kenya and Ethiopia is associated with past climate fluctuation in the Turkana depression ~ 7000 years ago. This dramatic change in climate may have caused the genetic bottleneck in wild castor bean populations. By a genome-wide association study, combined with quantitative trait locus analysis, we identify important candidate genes associated with plant architecture and seed size.

CONCLUSIONS: This study provides novel insights of domestication and genome evolution of castor bean, which facilitates genomics-based breeding of this important oilseed crop and potentially other tree-like crops in future.

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More information

Accepted/In Press date: 29 March 2021
Published date: 20 April 2021
Keywords: Castor bean, Domestication, GWAS, Genomic evolution, Population genetics

Identifiers

Local EPrints ID: 448712
URI: http://eprints.soton.ac.uk/id/eprint/448712
PURE UUID: f76372be-c7ee-4110-bb81-63cb72f93efd
ORCID for Mark A. Chapman: ORCID iD orcid.org/0000-0002-7151-723X

Catalogue record

Date deposited: 30 Apr 2021 16:33
Last modified: 26 Nov 2021 03:00

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Contributors

Author: Wei Xu
Author: Di Wu
Author: Tianquan Yang
Author: Chao Sun
Author: Zaiqing Wang
Author: Bing Han
Author: Shibo Wu
Author: Anmin Yu
Author: Mark A. Chapman ORCID iD
Author: Sammy Muraguri
Author: Qing Tan
Author: Wenbo Wang
Author: Zhigui Bao
Author: Aizhong Liu
Author: De-zhu Li

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