Genome-wide association studies identify loci controlling specialized seed metabolites in Arabidopsis.

Autor:	Naake T; Central Metabolism, Max Planck Institute of Molecular Plant Physiology, Am Muehlenberg 1, 14476 Potsdam-Golm, Germany., Zhu F; Central Metabolism, Max Planck Institute of Molecular Plant Physiology, Am Muehlenberg 1, 14476 Potsdam-Golm, Germany., Alseekh S; Central Metabolism, Max Planck Institute of Molecular Plant Physiology, Am Muehlenberg 1, 14476 Potsdam-Golm, Germany.; Center of Plant Systems Biology and Biotechnology, 4000 Plovdiv, Bulgaria., Scossa F; Central Metabolism, Max Planck Institute of Molecular Plant Physiology, Am Muehlenberg 1, 14476 Potsdam-Golm, Germany.; Research Center for Genomics and Bioinformatics (CREA-GB), Council for Agricultural Research and Economics, Via Ardeatina 546, 00178 Rome, Italy., Perez de Souza L; Central Metabolism, Max Planck Institute of Molecular Plant Physiology, Am Muehlenberg 1, 14476 Potsdam-Golm, Germany., Borghi M; Central Metabolism, Max Planck Institute of Molecular Plant Physiology, Am Muehlenberg 1, 14476 Potsdam-Golm, Germany.; Department of Biology, Utah State University, 5305 Old Main Hill, Logan, UT 84321-5305, USA., Brotman Y; Department of Life Sciences, Ben-Gurion University of the Negev, 8410501 Be'er Sheva, Israel., Mori T; RIKEN Center for Sustainable Resource Science, Tsurumi, 1-7-22 Suehiro, Yokohama, Kanagawa 230-0045, Japan., Nakabayashi R; RIKEN Center for Sustainable Resource Science, Tsurumi, 1-7-22 Suehiro, Yokohama, Kanagawa 230-0045, Japan., Tohge T; Graduate School of Biological Science, Nara Institute of Science and Technology, 8916-5 Takayama-cho, Ikoma, Nara 630-0192, Japan., Fernie AR; Central Metabolism, Max Planck Institute of Molecular Plant Physiology, Am Muehlenberg 1, 14476 Potsdam-Golm, Germany.; Center of Plant Systems Biology and Biotechnology, 4000 Plovdiv, Bulgaria.
Jazyk:	angličtina
Zdroj:	Plant physiology [Plant Physiol] 2024 Feb 29; Vol. 194 (3), pp. 1705-1721.
DOI:	10.1093/plphys/kiad511
Abstrakt:	Plants synthesize specialized metabolites to facilitate environmental and ecological interactions. During evolution, plants diversified in their potential to synthesize these metabolites. Quantitative differences in metabolite levels of natural Arabidopsis (Arabidopsis thaliana) accessions can be employed to unravel the genetic basis for metabolic traits using genome-wide association studies (GWAS). Here, we performed metabolic GWAS on seeds of a panel of 315 A. thaliana natural accessions, including the reference genotypes C24 and Col-0, for polar and semi-polar seed metabolites using untargeted ultra-performance liquid chromatography-mass spectrometry. As a complementary approach, we performed quantitative trait locus (QTL) mapping of near-isogenic introgression lines between C24 and Col-0 for specific seed specialized metabolites. Besides common QTL between seeds and leaves, GWAS revealed seed-specific QTL for specialized metabolites, indicating differences in the genetic architecture of seeds and leaves. In seeds, aliphatic methylsulfinylalkyl and methylthioalkyl glucosinolates associated with the ALKENYL HYDROXYALKYL PRODUCING loci (GS-ALK and GS-OHP) on chromosome 4 containing alkenyl hydroxyalkyl producing 2 (AOP2) and 3 (AOP3) or with the GS-ELONG locus on chromosome 5 containing methylthioalkyl malate synthase (MAM1) and MAM3. We detected two unknown sulfur-containing compounds that were also mapped to these loci. In GWAS, some of the annotated flavonoids (kaempferol 3-O-rhamnoside-7-O-rhamnoside, quercetin 3-O-rhamnoside-7-O-rhamnoside) were mapped to transparent testa 7 (AT5G07990), encoding a cytochrome P450 75B1 monooxygenase. Three additional mass signals corresponding to quercetin-containing flavonols were mapped to UGT78D2 (AT5G17050). The association of the loci and associating metabolic features were functionally verified in knockdown mutant lines. By performing GWAS and QTL mapping, we were able to leverage variation of natural populations and parental lines to study seed specialized metabolism. The GWAS data set generated here is a high-quality resource that can be investigated in further studies. Competing Interests: Conflict of interest statement. None declared. (© The Author(s) 2023. Published by Oxford University Press on behalf of American Society of Plant Biologists.)
Databáze:	MEDLINE
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