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DNA sequencing-based technologies are highly reliable and powerful tools to authenticate botanicals, identify medicinal plants species and varieties in herbal products and dietary supplements. The use of Next Generation Sequencing analytical strategies paved the way to precisely assign a dry extract to a defined plant species and detect adulterants. The use of DNA mini-barcodes enables the routine analysis of highly processed botanical's matrices ensuring the ingredient's verification and purity, product's certification and the respect of consumer's choices.