A high-quality carrot genome assembly provides new insights into carotenoid accumulation and asterid genome evolution

Authors
Iorizzo, Massimo; Ellison, Shelby L.; Senalik, Douglas A.; Peng, Zeng; Satapoomin, Pimchanok; Jiaying, Huang; Bowman, Megan; Iovene, Marina; Sanseverino, Walter; Cavagnaro, Pablo; Yildiz, Mehtap; Macko-Podgórni, Alicja; Moranska, Emilia; Grzebelus, Ewa; Grzebelus, Dariusz; Ashrafi, Hamid; Zhijun, Zheng; Shifeng, Cheng; Spooner, David M.; Deynze, Allen Van; Simon, Philipp W.
Publication Year
2016
Language
English
Format
article
Status
Published version
Description
We report a high-quality chromosome-scale assembly and analysis of the carrot (Daucus carota) genome, the first sequenced genome to include a comparative evolutionary analysis among members of the euasterid II clade. We characterized two new polyploidization events, both occurring after the divergence of carrot from members of the Asterales order, clarifying the evolutionary scenario before and after radiation of the two main asterid clades. Large- and small-scale lineage-specific duplications have contributed to the expansion of gene families, including those with roles in flowering time, defense response, flavor, and pigment accumulation. We identified a candidate gene, DCAR_032551, that conditions carotenoid accumulation (Y) in carrot taproot and is coexpressed with several isoprenoid biosynthetic genes. The primary mechanism regulating carotenoid accumulation in carrot taproot is not at the biosynthetic level. We hypothesize that DCAR_032551 regulates upstream photosystem development and functional processes, including photomorphogenesis and root de-etiolation.
EEA La Consulta
Fil: Iorizzo, Massimo. University of Wisconsin. Department of Horticulture; Estados Unidos. North Carolina State University. Plants for Human Health Institute, Department of Horticultural Science; Estados Unidos
Fil: Ellison, Shelby L. University of Wisconsin. Department of Horticulture; Estados Unidos
Fil: Senalik, Douglas A. University of Wisconsin. Department of Horticulture; Estados Unidos. United States Department of Agriculture–Agricultural Research Service. Vegetable Crops Research Unit; Estados Unidos
Fil: Peng, Zeng. Beijing Genomics Institute–Shenzhen; China
Fil: Satapoomin, Pimchanok. University of Wisconsin. Department of Horticulture; Estados Unidos
Fil: Jiaying, Huang. Beijing Genomics Institute–Shenzhen; China
Fil: Bowman, Megan. Michigan State University. Department of Plant Biology; Estados Unidos
Fil: Iovene, Marina. Consiglio Nazionale delle Ricerche. Istituto di Bioscienze e Biorisorse; Italia
Fil: Sanseverino, Walter. Sequentia Biotech; España
Fil: Cavagnaro, Pablo Federico. . INTA. Estación Experimental Agropecuaria La Consulta; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Yildiz, Mehtap. Yuzuncu Yil University. Faculty of Agriculture. Department of Agricultural Biotechnology; Turquía
Fil: Macko-Podgórni, Alicja. University of Agriculture in Krakow. Institute of Plant Biology and Biotechnology; Polonia
Fil: Moranska, Emilia. University of Agriculture in Krakow. Institute of Plant Biology and Biotechnology; Polonia
Fil: Grzebelus, Ewa. University of Agriculture in Krakow. Institute of Plant Biology and Biotechnology; Polonia
Fil: Grzebelus, Dariusz. University of Agriculture in Krakow. Institute of Plant Biology and Biotechnology; Polonia
Fil: Ashrafi, Hamid. University of California. Seed Biotechnology Center; Estados Unidos. North Carolina State University. Plants for Human Health Institute, Department of Horticultural Science; Estados Unidos
Fil: Zhijun, Zheng. Beijing Genomics Institute–Shenzhen; China
Fil: Shifeng, Cheng. Beijing Genomics Institute–Shenzhen; China
Fil: Spooner, David M. University of Wisconsin. Department of Horticulture; Estados Unidos. United States Department of Agriculture–Agricultural Research Service. Vegetable Crops Research Unit; Estados Unidos
Fil: Deynze, Allen Van. University of California. Seed Biotechnology Center; Estados Unidos
Fil: Simon, Philipp W. University of Wisconsin. Department of Horticulture; Estados Unidos. United States Department of Agriculture–Agricultural Research Service. Vegetable Crops Research Unit; Estados Unidos
Source
Nature genetics 48 (6) : 657–666. (June 2016)
Subject
Zanahoria
Genomas
Carotenoides
Carrots
Genomes
Carotenoids
Access level
Open access
License
Repository
INTA Digital (INTA)
Institution
Instituto Nacional de Tecnología Agropecuaria
OAI Identifier
oai:localhost:20.500.12123/1162