A high-quality carrot genome assembly reveals new insights into carotenoid accumulation and Asterid genome evolution

Authors
Iorizzo, Massimo; Ellison, Shelby; Senalik, Douglas A.; Zeng, Peng; Satapoomin, Pimchanok; Huang, Jiaying; Bowman, Megan; Iovene, Marina; Sanseverino, Walter; Cavagnaro, Pablo Federico; Yildiz, Mehtap; Macko Podgórni, Alicja; Moranska, Emilia; Grzebelus, Ewa; Grzebelus, Dariusz; Ashrafi, Hamid; Zheng, Zhijun; Cheng, Shifeng; Spooner, David; Van Deynze, Allen; Simon, Philipp
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.
Fil: Iorizzo, Massimo. North Carolina State University; Estados Unidos. University Of Wisconsin Madison; Estados Unidos
Fil: Ellison, Shelby. University Of Wisconsin Madison; Estados Unidos
Fil: Senalik, Douglas A.. University Of Wisconsin Madison; . US Department of Agriculture; Estados Unidos
Fil: Zeng, Peng. Beijing Genomics Institute–Shenzhen; China
Fil: Satapoomin, Pimchanok. University Of Wisconsin Madison; Estados Unidos
Fil: Huang, Jiaying. Beijing Genomics Institute–Shenzhen; China
Fil: Bowman, Megan. Michigan State University; Estados Unidos
Fil: Iovene, Marina. Consiglio Nazionale delle Ricerche; Italia
Fil: Sanseverino, Walter. Sequentia Biotech; España
Fil: Cavagnaro, Pablo Federico. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Universidad Nacional de Cuyo; Argentina. Instituto Nacional de Tecnología Agropecuaria; Argentina
Fil: Yildiz, Mehtap. Yuzuncu Yil Universitesi; Turquía
Fil: Macko Podgórni, Alicja. niversity of Agriculture in Krakow; Polonia
Fil: Moranska, Emilia. niversity of Agriculture in Krakow; Polonia
Fil: Grzebelus, Ewa. niversity of Agriculture in Krakow; Polonia
Fil: Grzebelus, Dariusz. niversity of Agriculture in Krakow; Polonia
Fil: Ashrafi, Hamid. North Carolina State University; Estados Unidos. University of California at Davis; Estados Unidos
Fil: Zheng, Zhijun. Beijing Genomics Institute–Shenzhen; China
Fil: Cheng, Shifeng. Beijing Genomics Institute–Shenzhen; China
Fil: Spooner, David. University Of Wisconsin Madison; Estados Unidos. US Department of Agriculture; Estados Unidos
Fil: Van Deynze, Allen. University of California at Davis; Estados Unidos
Fil: Simon, Philipp. University Of Wisconsin Madison; Estados Unidos. US Department of Agriculture; Estados Unidos
Subject
DAUCUS CAROTA
GENOME SEQUENCE
EVOLUTION
CAROTENOID
Otras Ciencias Biológicas
Ciencias Biológicas
CIENCIAS NATURALES Y EXACTAS
Access level
Restricted access
License
https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
Repository
CONICET Digital (CONICET)
Institution
Consejo Nacional de Investigaciones Científicas y Técnicas
OAI Identifier
oai:ri.conicet.gov.ar:11336/60386