Genetical and comparative genomics of Brassica under altered Ca supply identifies Arabidopsis Ca-transporter orthologs
Although Ca transport in plants is highly complex, the overexpression of vacuolar Ca2+ transporters in crops is a promising new technology to improve dietary Ca supplies through biofortification. Here, we sought to identify novel targets for increasing plant Ca accumulation using genetical and compa...
| Main Authors: | , , , , , , , , , , , , , , |
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| Format: | Article |
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American Society of Plant Biologists
2014
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| Online Access: | https://eprints.nottingham.ac.uk/37687/ |
| _version_ | 1848795511763501056 |
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| author | Graham, Neil S. Hammond, John P. Lysenko, Artem Mayes, Sean Ó Lochlainn, Seosamh Blasco, Bego Bowen, Helen C. Rawlings, Chris J. Rios, Juan J. Welham, Susan Carion, Pierre W.C. Dupuy, Lionel X. King, Graham J. White, Philip J. Broadley, Martin R. |
| author_facet | Graham, Neil S. Hammond, John P. Lysenko, Artem Mayes, Sean Ó Lochlainn, Seosamh Blasco, Bego Bowen, Helen C. Rawlings, Chris J. Rios, Juan J. Welham, Susan Carion, Pierre W.C. Dupuy, Lionel X. King, Graham J. White, Philip J. Broadley, Martin R. |
| author_sort | Graham, Neil S. |
| building | Nottingham Research Data Repository |
| collection | Online Access |
| description | Although Ca transport in plants is highly complex, the overexpression of vacuolar Ca2+ transporters in crops is a promising new technology to improve dietary Ca supplies through biofortification. Here, we sought to identify novel targets for increasing plant Ca accumulation using genetical and comparative genomics. Expression quantitative trait locus (eQTL) mapping to 1895 cis- and 8015 trans-loci were identified in shoots of an inbred mapping population of Brassica rapa (IMB211 x R500); 23 cis- and 948 trans-eQTLs responded specifically to altered Ca supply. eQTLs were screened for functional significance using a large database of shoot Ca concentration phenotypes of Arabidopsis thaliana. From 31 Arabidopsis gene identifiers tagged to robust shoot Ca concentration phenotypes, 21 mapped to 27 B. rapa eQTLs, including orthologs of the Ca2+ transporters At-CAX1 and At-ACA8. Two of three independent missense mutants of BraA.cax1a, isolated previously by targeting induced local lesions in genomes, have allele-specific shoot Ca concentration phenotypes compared with their segregating wild types. BraA.CAX1a is a promising target for altering the Ca composition of Brassica, consistent with prior knowledge from Arabidopsis. We conclude that multiple-environment eQTL analysis of complex crop genomes combined with comparative genomics is a powerful technique for novel gene identification/prioritization. |
| first_indexed | 2025-11-14T19:33:15Z |
| format | Article |
| id | nottingham-37687 |
| institution | University of Nottingham Malaysia Campus |
| institution_category | Local University |
| last_indexed | 2025-11-14T19:33:15Z |
| publishDate | 2014 |
| publisher | American Society of Plant Biologists |
| recordtype | eprints |
| repository_type | Digital Repository |
| spelling | nottingham-376872020-05-04T16:50:12Z https://eprints.nottingham.ac.uk/37687/ Genetical and comparative genomics of Brassica under altered Ca supply identifies Arabidopsis Ca-transporter orthologs Graham, Neil S. Hammond, John P. Lysenko, Artem Mayes, Sean Ó Lochlainn, Seosamh Blasco, Bego Bowen, Helen C. Rawlings, Chris J. Rios, Juan J. Welham, Susan Carion, Pierre W.C. Dupuy, Lionel X. King, Graham J. White, Philip J. Broadley, Martin R. Although Ca transport in plants is highly complex, the overexpression of vacuolar Ca2+ transporters in crops is a promising new technology to improve dietary Ca supplies through biofortification. Here, we sought to identify novel targets for increasing plant Ca accumulation using genetical and comparative genomics. Expression quantitative trait locus (eQTL) mapping to 1895 cis- and 8015 trans-loci were identified in shoots of an inbred mapping population of Brassica rapa (IMB211 x R500); 23 cis- and 948 trans-eQTLs responded specifically to altered Ca supply. eQTLs were screened for functional significance using a large database of shoot Ca concentration phenotypes of Arabidopsis thaliana. From 31 Arabidopsis gene identifiers tagged to robust shoot Ca concentration phenotypes, 21 mapped to 27 B. rapa eQTLs, including orthologs of the Ca2+ transporters At-CAX1 and At-ACA8. Two of three independent missense mutants of BraA.cax1a, isolated previously by targeting induced local lesions in genomes, have allele-specific shoot Ca concentration phenotypes compared with their segregating wild types. BraA.CAX1a is a promising target for altering the Ca composition of Brassica, consistent with prior knowledge from Arabidopsis. We conclude that multiple-environment eQTL analysis of complex crop genomes combined with comparative genomics is a powerful technique for novel gene identification/prioritization. American Society of Plant Biologists 2014-07-31 Article PeerReviewed Graham, Neil S., Hammond, John P., Lysenko, Artem, Mayes, Sean, Ó Lochlainn, Seosamh, Blasco, Bego, Bowen, Helen C., Rawlings, Chris J., Rios, Juan J., Welham, Susan, Carion, Pierre W.C., Dupuy, Lionel X., King, Graham J., White, Philip J. and Broadley, Martin R. (2014) Genetical and comparative genomics of Brassica under altered Ca supply identifies Arabidopsis Ca-transporter orthologs. Plant Cell, 26 (7). pp. 2818-2830. ISSN 1532-298X http://www.plantcell.org/content/26/7/2818 doi:10.1105/tpc.114.128603 doi:10.1105/tpc.114.128603 |
| spellingShingle | Graham, Neil S. Hammond, John P. Lysenko, Artem Mayes, Sean Ó Lochlainn, Seosamh Blasco, Bego Bowen, Helen C. Rawlings, Chris J. Rios, Juan J. Welham, Susan Carion, Pierre W.C. Dupuy, Lionel X. King, Graham J. White, Philip J. Broadley, Martin R. Genetical and comparative genomics of Brassica under altered Ca supply identifies Arabidopsis Ca-transporter orthologs |
| title | Genetical and comparative genomics of Brassica under altered Ca supply identifies Arabidopsis Ca-transporter orthologs |
| title_full | Genetical and comparative genomics of Brassica under altered Ca supply identifies Arabidopsis Ca-transporter orthologs |
| title_fullStr | Genetical and comparative genomics of Brassica under altered Ca supply identifies Arabidopsis Ca-transporter orthologs |
| title_full_unstemmed | Genetical and comparative genomics of Brassica under altered Ca supply identifies Arabidopsis Ca-transporter orthologs |
| title_short | Genetical and comparative genomics of Brassica under altered Ca supply identifies Arabidopsis Ca-transporter orthologs |
| title_sort | genetical and comparative genomics of brassica under altered ca supply identifies arabidopsis ca-transporter orthologs |
| url | https://eprints.nottingham.ac.uk/37687/ https://eprints.nottingham.ac.uk/37687/ https://eprints.nottingham.ac.uk/37687/ |