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This invention discloses a lutein composition for relieving eye fatigue and its preparation method, belonging to the field of functional foods. The process involves: reacting phycocyanin and kelp polyphenols to obtain modified phycocyanin; reacting fucoidan and β-glucuronidase to obtain modified fucose; reacting fish collagen peptides and zinc chloride to obtain collagen peptide-zinc chelate; reacting lutein silica cage complex and modified phycocyanin to obtain a first complex; reacting the first complex and modified fucose to obtain a second complex; reacting the second complex, collagen peptide-zinc chelate, and krill oil to obtain a lutein complex; reacting the second complex, collagen peptide-zinc chelate, and krill oil, then adding trehalose to obtain the lutein complex; and finally mixing the lutein complex with maltodextrin to obtain the lutein composition.