ArticleGenome biology2023
Metabolic GWAS-based dissection of genetic basis underlying nutrient quality variation and domestication of cassava storage root.
Article in Genome biology, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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15 citing papers in PubMed, 26 citations in OpenAlex.
- Review
- The Landscape of Long Non-Coding RNAs Provides Insights Into the Domestication and Improvement of Pear Fruit.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
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- Fruit respiration: putting alternative pathways into perspective.The New phytologist · 2026Review
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- Genomic Differentiation, Diversity, and Genetic Structuring ofEcology and evolution · 2026Article
- Genetic enhancement of root, tuber and cereal crops via pangenomics, multi-omics integration and AI-driven prediction.Frontiers in plant science · 2026Review
- Investigating cis-regulatory elements and gene expression in multiple tomato varieties using interpretable deep learning.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Review
- Advancements and strategies of genetic improvement in cassava (Horticulture research · 2025Article
- Review
- GenoBaits Cassava35K: high-resolution multi-SNP arrays for genetic analysis and molecular breeding using targeted sequencing and liquid chip technology.Horticulture research · 2025Article
- Multi-Omics Analysis Uncovers the Mechanism for Enhanced Organic Acid Accumulation in Peach (Plants (Basel, Switzerland) · 2024Article
- New Insights into the Genetic Basis of Lysine Accumulation in Rice Revealed by Multi-Model GWAS.International journal of molecular sciences · 2024Article
- Multi-omics analysis provides new insights into the changes of important nutrients and fructose metabolism in loquat bud sport mutant.Frontiers in plant science · 2024Article
- Metabolic GWAS-based dissection of genetic basis underlying nutrient quality variation and domestication of cassava storage root.Genome biology · 2023Article
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Authors and funding
24 authors at 2 institutions in 1 country.
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Abstract
backgroundMetabolites play critical roles in regulating nutritional qualities of plants, thereby influencing their consumption and human health. However, the genetic basis underlying the metabolite-based nutrient quality and domestication of root and tuber crops remain largely unknown.
resultsWe report a comprehensive study combining metabolic and phenotypic genome-wide association studies to dissect the genetic basis of metabolites in the storage root (SR) of cassava. We quantify 2,980 metabolic features in 299 cultivated cassava accessions. We detect 18,218 significant marker-metabolite associations via metabolic genome-wide association mapping and identify 12 candidate genes responsible for the levels of metabolites that are of potential nutritional importance. Me3GT, MeMYB4, and UGT85K4/UGT85K5, which are involved in flavone, anthocyanin, and cyanogenic glucoside metabolism, respectively, are functionally validated through in vitro enzyme assays and in vivo gene silencing analyses. We identify a cluster of cyanogenic glucoside biosynthesis genes, among which CYP79D1, CYP71E7b, and UGT85K5 are highly co-expressed and their allelic combination contributes to low linamarin content. We find MeMYB4 is responsible for variations in cyanidin 3-O-glucoside and delphinidin 3-O-rutinoside contents, thus controlling SR endothelium color. We find human selection affects quercetin 3-O-glucoside content and SR weight per plant. The candidate gene MeFLS1 is subject to selection during cassava domestication, leading to decreased quercetin 3-O-glucoside content and thus increased SR weight per plant.
conclusionsThese findings reveal the genetic basis of cassava SR metabolome variation, establish a linkage between metabolites and agronomic traits, and offer useful resources for genetically improving the nutrition of cassava and other root crops.
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