| Title: | A multi-omics framework reveals strawberry flavor genes and their regulatory elements |
| Author(s): | Fan Z; Tieman DM; Knapp SJ; Zerbe P; Famula R; Barbey CR; Folta KM; Amadeu RR; Lee M; Oh Y; Lee S; Whitaker VM; |
| Address: | "Horticultural Sciences Department, University of Florida, IFAS Gulf Coast Research and Education Center, Wimauma, FL, 33597, USA. Horticultural Sciences Department, University of Florida, Gainesville, FL, 32611, USA. Department of Plant Sciences, University of California, Davis, Davis, CA, 95616, USA. Department of Plant Biology, University of California Davis, Davis, CA, 95616, USA" |
| ISSN/ISBN: | 1469-8137 (Electronic) 0028-646X (Print) 0028-646X (Linking) |
| Abstract: | "Flavor is essential to consumer preference of foods and is an increasing focus of plant breeding programs. In fruit crops, identifying genes underlying volatile organic compounds has great promise to accelerate flavor improvement, but polyploidy and heterozygosity in many species have slowed progress. Here we use octoploid cultivated strawberry to demonstrate how genomic heterozygosity, transcriptomic intricacy and fruit metabolomic diversity can be treated as strengths and leveraged to uncover fruit flavor genes and their regulatory elements. Multi-omics datasets were generated including an expression quantitative trait loci map with 196 diverse breeding lines, haplotype-phased genomes of a highly-flavored breeding selection, a genome-wide structural variant map using five haplotypes, and volatile genome-wide association study (GWAS) with > 300 individuals. Overlaying regulatory elements, structural variants and GWAS-linked allele-specific expression of numerous genes to variation in volatile compounds important to flavor. In one example, the functional role of anthranilate synthase alpha subunit 1 in methyl anthranilate biosynthesis was supported via fruit transient gene expression assays. These results demonstrate a framework for flavor gene discovery in fruit crops and a pathway to molecular breeding of cultivars with complex and desirable flavor" |
| Keywords: | Anthranilate Synthase/metabolism *Fragaria/genetics Fruit/genetics Genome-Wide Association Study Plant Breeding *Volatile Organic Compounds/metabolism Gwas eQTL fruit flavor phased genome assemblies regulatory elements strawberry structural variant map; |
| Notes: | "MedlineFan, Zhen Tieman, Denise M Knapp, Steven J Zerbe, Philipp Famula, Randi Barbey, Christopher R Folta, Kevin M Amadeu, Rodrigo R Lee, Manbo Oh, Youngjae Lee, Seonghee Whitaker, Vance M eng Research Support, Non-U.S. Gov't Research Support, U.S. Gov't, Non-P.H.S. England 2022/08/03 New Phytol. 2022 Nov; 236(3):1089-1107. doi: 10.1111/nph.18416. Epub 2022 Aug 20" |
