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To achieve an effective deconstruction for preparation of xylooligosaccharides (XOS) and lignin nanoparticles (LNPs) from Eucommia ulmoides, a synergistic pretreatment was successfully developed. Herein, the hemicelluloses were preferentially dissociated in acetic acid-catalyzed hydrothermal pretreatment (HTP) for preparation of XOS, and the hydrothermally-pretreated substrate was then subjected to deep eutectic solvents (DES) delignification for fabrication of LNPs. Results showed that the optimal yield (33.88% based on xylan) of XOS is obtained under the given HTP condition (170 °C, 0.5 h). NMR characterization showed that the linkages of lignin were mainly composed of β-O-4, β-β, β-5, etc. Besides, GPC analysis showed that the molecular weight of DES lignin fractions was lower (1130-1200 g/mol) than those of corresponding parent lignin fractions (8500-9620 g/mol). Further TEM characterization indicated that the optimal LNPs fraction has a narrow size distribution and the corresponding size is ranged from 60 to 110 nm. In short, the synergistic pretreatment could be used as a green and cost-effective approach for the development of bio-based chemicals and biomaterials from Eucommia ulmoides biomass.