Rice (Oryza sativa L.) contains many high-value nutritional compounds, including nutraceutical lipid compounds that offer health benefits. An understanding of the genetic variability in the lipid contents of different rice germplasms is necessary to support breeding programs. The goals of this study were: i) to investigate varietal differences in levels of the nutraceutical lipid α-tocopherol, γ-oryzanol, campesterol, β-sitosterol, octacosanol, and squalene and ii) to identify clusters of rice germplasms based on their lipid contents. Eighty-three indica rice subspecies were evaluated using a randomized complete block design with three replications. Research was conducted in Thailand during the 2016 rice-growing season. Significant differences were found among genotypes across all traits. The largest variation was found for β-sitosterol, followed by campesterol, octacosanol, and α-tocopherol. Variation in squalene content was small. Four principal components were found that accounted for 93.47% of overall variability. β-sitosterol, campesterol, and squalene were the principal discriminatory constituents. No significant correlation was found between color parameters and levels of these compounds, suggesting that former are of little use as an indirect marker for selection of fat-soluble nutraceuticals. Cluster analysis sorted the germplasm into nine clusters, based on their nutraceutical lipid content. TU-010, TU-027, TU-093, and TU-244 genotypes had the highest levels, making them a potentially useful genetic resource in breeding programs for nutraceutically-improved rice. The findings of this study can support the introduction of novel rice varieties with high added-value bioactive properties.world might be associated with the high-value antioxidants that rice contains [3]. However, as dietary patterns have become more Western-oriented, consumption of rice has been decreasing. Policies that increase rice consumption can contribute to solving the economic problems of rural communities. One approach is the development of novel rice varieties with improved nutritional and bioactive properties [4].Rice (Oryza sativa L.) contains more than a hundred bioactive compounds, including phytic acid, isovitexin, flavonoids, phenolics, polyphenols, anthocyanins, and proanthocyanins, and previously unknown compounds have been characterized and quantified in the rice germplasm [5][6][7][8]. Rice also has a high level of nutraceutical lipid compounds, such as tocopherol, tocotrienol, phytosterols, γ-oryzanol, octacosanol, and squalene, which are known to be powerful antioxidants [9,10]. These are potential inhibitors of cholesterol oxidation, have been shown to reduce serum cholesterol levels in animals, and are effective in treating anxiety neurosis, menopausal disorders, inflammatory diseases, and in inhibiting tumor growth [11][12][13]. These bioactive lipid compounds are concentrated in the rice germ or bran and are lost during milling or polishing [14]. Most consumers also prefer the palatability of milled or white rice, wh...