Some Zanthoxylum species have the potential to develop oil-oriented wood plants. But confusion of seed oils and low environmental adaptability of fatty acid lead to obstacles to their further development. In this work, a total of 99 seed samples of two widely distributed Zanthoxylum species (Zanthoxylum bungeanum and Zanthoxylum armatum) seeds were collected from 97 plantations located at 32 locations in China spread over a wide geographic area (a range of 17.2°longitude and 12.8°latitude) and fatty acid composition of seed oils extracted by supercritical CO2 extractor apparatus among individuals was determined. The random forest algorithm was employed to conduct a classification model to identity two species’ oils and the relationship between variation of fatty acid composition and environmental factors was analyzed. Two species seed oils contained C15-C20 fatty acids, of which palmitoleic acid was the most abundant in Z. armatum and oleic acid was the most abundant in Z. bungeanum. The built classification model showed 100% accuracy and explained proportions of total fatty acid composition’s variance by environmental factors between Z. armatum and Z. bungeanum were 83.15% and 67.43% respectively. Among all environmental factors, latitude had a significant contribution to variation of fatty acid composition in Z. armatum seed oil, while annual maximum precipitation greatly contributed to variation of fatty acid composition of Z. bungeanum seed oil.
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