Quantitative Food Compounds Enable Dietary Ontology Referencing across 500 Foods and Human Plasma

Accurate and reproducible dietary assessment remains a persistent challenge in the clinical and nutritional sciences. We present a validated liquid chromatography–tandem mass spectrometry (LC–MS/MS) method for the absolute quantification of 200 literature-curated food compounds across 500 food item extracts and human plasma samples. The assay uses external matrix-matched calibration and robust quality control, including postextraction recovery, matrix effect assessment, and intra- and interday precision validation, demonstrating high linearity (R2 > 0.99), low coefficients of variation (75% of analytes. Using 200 authentic food standards against 500 complex food items resulted in reproducible detection and quantification of 102 food compounds across diverse food classes. Their specificity and distribution were evaluated at multiple levels of dietary ontology. Supervised multivariate analysis (PLS-DA) identified discriminative compound panels that classified foods such as citrus, dairy, and vegetables with high accuracy. Key compounds such as hesperidin, hypaphorine, and piperine demonstrated strong source specificity and were applied to human plasma samples from an inflammatory bowel disease (IBD) cohort following a Mediterranean diet. Food compound concentrations tracked with dietary intake, confirming hypaphorine’s association with hummus and piperine’s correlation with black-pepper-containing meals. This study demonstrates the utility of a rigorously validated targeted metabolomics workflow for both food chemistry and translational dietary intake research. The framework enables quantitative mapping of food molecules to dietary exposures and supports the development of more objective, chemistry-based dietary assessment strategies in clinical contexts.