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The present study aims to discuss the data on levels and distribution of rare earth elements, including Y, (REYs) in leaves of three different citrus species (lemon, orange, and tangerine) and provide additional information about the major, minor and trace elements in two biological certified reference materials (CRMs), Apple leave (NIST SRM 1515) and Rye grass (ERM CD281). In all samples, element concentrations were determined by High Resolution Inductively Coupled Plasma Mass Spectrometry. The obtained data display substantial variability in the distribution of REY elements, not only between different citrus species but also between different genera of plants indicating their different uptake and accumulation abilities. Measured concentrations of REYs in citrus leaves were substantially lower compared to the literature values, although the fractionation indices were comparable. The data for CRMs provide additional information for the 14 elements in NIST SRM 1515 and the 30 elements in ERM CD281, including rare earth elements. This work is licensed under a Creative Commons Attribution 4.0 International License.