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Population genomics identifies genetic signatures of carrot domestication and improvement and uncovers the origin of high-carotenoid orange carrots

Here an improved carrot reference genome and resequencing of 630 carrot accessions were used to investigate carrot domestication and improvement. The study demonstrated that carrot was domesticated during the Early Middle Ages in the region spanning western Asia to central Asia, and orange carrot wa...

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Autores principales: Coe, Kevin, Bostan, Hamed, Rolling, William, Turner-Hissong, Sarah, Macko-Podgórni, Alicja, Senalik, Douglas, Liu, Su, Seth, Romit, Curaba, Julien, Mengist, Molla Fentie, Grzebelus, Dariusz, Van Deynze, Allen, Dawson, Julie, Ellison, Shelby, Simon, Philipp, Iorizzo, Massimo
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10581907/
https://www.ncbi.nlm.nih.gov/pubmed/37770615
http://dx.doi.org/10.1038/s41477-023-01526-6
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author Coe, Kevin
Bostan, Hamed
Rolling, William
Turner-Hissong, Sarah
Macko-Podgórni, Alicja
Senalik, Douglas
Liu, Su
Seth, Romit
Curaba, Julien
Mengist, Molla Fentie
Grzebelus, Dariusz
Van Deynze, Allen
Dawson, Julie
Ellison, Shelby
Simon, Philipp
Iorizzo, Massimo
author_facet Coe, Kevin
Bostan, Hamed
Rolling, William
Turner-Hissong, Sarah
Macko-Podgórni, Alicja
Senalik, Douglas
Liu, Su
Seth, Romit
Curaba, Julien
Mengist, Molla Fentie
Grzebelus, Dariusz
Van Deynze, Allen
Dawson, Julie
Ellison, Shelby
Simon, Philipp
Iorizzo, Massimo
author_sort Coe, Kevin
collection PubMed
description Here an improved carrot reference genome and resequencing of 630 carrot accessions were used to investigate carrot domestication and improvement. The study demonstrated that carrot was domesticated during the Early Middle Ages in the region spanning western Asia to central Asia, and orange carrot was selected during the Renaissance period, probably in western Europe. A progressive reduction of genetic diversity accompanied this process. Genes controlling circadian clock/flowering and carotenoid accumulation were under selection during domestication and improvement. Three recessive genes, at the REC, Or and Y2 quantitative trait loci, were essential to select for the high α- and β-carotene orange phenotype. All three genes control high α- and β-carotene accumulation through molecular mechanisms that regulate the interactions between the carotenoid biosynthetic pathway, the photosynthetic system and chloroplast biogenesis. Overall, this study elucidated carrot domestication and breeding history and carotenoid genetics at a molecular level.
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spelling pubmed-105819072023-10-19 Population genomics identifies genetic signatures of carrot domestication and improvement and uncovers the origin of high-carotenoid orange carrots Coe, Kevin Bostan, Hamed Rolling, William Turner-Hissong, Sarah Macko-Podgórni, Alicja Senalik, Douglas Liu, Su Seth, Romit Curaba, Julien Mengist, Molla Fentie Grzebelus, Dariusz Van Deynze, Allen Dawson, Julie Ellison, Shelby Simon, Philipp Iorizzo, Massimo Nat Plants Article Here an improved carrot reference genome and resequencing of 630 carrot accessions were used to investigate carrot domestication and improvement. The study demonstrated that carrot was domesticated during the Early Middle Ages in the region spanning western Asia to central Asia, and orange carrot was selected during the Renaissance period, probably in western Europe. A progressive reduction of genetic diversity accompanied this process. Genes controlling circadian clock/flowering and carotenoid accumulation were under selection during domestication and improvement. Three recessive genes, at the REC, Or and Y2 quantitative trait loci, were essential to select for the high α- and β-carotene orange phenotype. All three genes control high α- and β-carotene accumulation through molecular mechanisms that regulate the interactions between the carotenoid biosynthetic pathway, the photosynthetic system and chloroplast biogenesis. Overall, this study elucidated carrot domestication and breeding history and carotenoid genetics at a molecular level. Nature Publishing Group UK 2023-09-28 2023 /pmc/articles/PMC10581907/ /pubmed/37770615 http://dx.doi.org/10.1038/s41477-023-01526-6 Text en © The Author(s) 2023 https://creativecommons.org/licenses/by/4.0/Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) .
spellingShingle Article
Coe, Kevin
Bostan, Hamed
Rolling, William
Turner-Hissong, Sarah
Macko-Podgórni, Alicja
Senalik, Douglas
Liu, Su
Seth, Romit
Curaba, Julien
Mengist, Molla Fentie
Grzebelus, Dariusz
Van Deynze, Allen
Dawson, Julie
Ellison, Shelby
Simon, Philipp
Iorizzo, Massimo
Population genomics identifies genetic signatures of carrot domestication and improvement and uncovers the origin of high-carotenoid orange carrots
title Population genomics identifies genetic signatures of carrot domestication and improvement and uncovers the origin of high-carotenoid orange carrots
title_full Population genomics identifies genetic signatures of carrot domestication and improvement and uncovers the origin of high-carotenoid orange carrots
title_fullStr Population genomics identifies genetic signatures of carrot domestication and improvement and uncovers the origin of high-carotenoid orange carrots
title_full_unstemmed Population genomics identifies genetic signatures of carrot domestication and improvement and uncovers the origin of high-carotenoid orange carrots
title_short Population genomics identifies genetic signatures of carrot domestication and improvement and uncovers the origin of high-carotenoid orange carrots
title_sort population genomics identifies genetic signatures of carrot domestication and improvement and uncovers the origin of high-carotenoid orange carrots
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10581907/
https://www.ncbi.nlm.nih.gov/pubmed/37770615
http://dx.doi.org/10.1038/s41477-023-01526-6
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