Quantitative proteomics across ten tissues in the Pacific abalone, Haliotis discus hannai

This study performed a quantitative proteomic comparison across ten major tissues of the Pacific abalone ( Haliotis discus hannai ) collected from a single cohort under identical conditions. A total of 4184 proteins were identified, and 1904 were quantitatively analyzed after normalization and batch correction. Using tandem mass tag-based liquid chromatography–mass spectrometry, differential expression analysis, multivariate statistics, and weighted gene co-expression network analysis (WGCNA), tissue-specific protein expression profiles were systematically characterized. The hepatopancreas exhibited high abundance of metabolic and detoxification proteins, whereas the hemolymph showed reduced translation-related proteins but elevated immune- and neural-associated proteins. The ovary was enriched with vitelline envelope receptor for lysin family proteins, and the gill was dominated by ciliary structural components such as tubulins and tektins. WGCNA revealed co-expression modules with significant tissue associations (|r| ≥ 0.5, p < 0.05), corroborating the differential expression results. The observed protein distributions corresponded well with the known physiological roles of each tissue, supporting the internal consistency of the dataset. This work provides an exploratory cross-tissue quantitative proteomic reference generated under matched analytical conditions that may serve as a baseline resource for hypothesis generation and subsequent validation studies in abalone. • Quantitative proteomic comparison across ten tissues of Haliotis discus hannai. • Total 4184 proteins detected and 1904 quantified after data processing. • Distinct proteomic patterns corresponding to its physiological functions. • Diverse methods such as DEA, PLS-DA, and WGCNA showed broadly consistent patterns. • This study provides a quantitative proteomic resource for physiological studies.