Aquatic plant biomass is characterised by high moisture content and a lignocellulose structure. To apply the anaerobic digestion (AD) treatment to aquatic plants, the simultaneous achievement of high methane (CH4) recovery per biomass volume and high biodegradability have been a challenge owing to these characteristics. Herein, we propose a novel two-stage serial wet- and solid-state AD (SS-AD) system that quickly digests the labile cytoplasm fraction in the first wet AD reactor in a short retention time while slowly digesting the lignocellulosic fraction in the later SS-AD with long retention time. In this study, the effect of this serial AD on CH4 recovery and chemical oxygen demand (COD) balance from aquatic plant biomass was examined in a semi-continuous operation. Elodea nuttallii, which grows excessively in the southern basin of Lake Biwa, Japan, was used as the substrate. For comparison, single-stage AD with different hydraulic retention times (HRTs) (30 d and 15 d) was performed. The CH4 conversion efficiency in single-stage AD deteriorated from 47.6 to 33.1% COD with shortened HRT, probably owing to the low degradability of slowly degrading fraction (i.e. lignocellulose) in the short retention time. In contrast, the serial AD under the same HRT (15 d) as a single-stage AD exhibited higher CH4 conversion efficiency of 65.1% COD, mainly owing to the enhanced degradation of slowly degrading fraction because of the prolonged solid retention time (52.2 d) of the entire system. The CH4 recovery from the wet AD alone in the serial AD system surpassed that from the 30 d-HRT of the single-stage AD, possibly due to the appropriate HRT for labile fraction and/or the microbial recirculation. The serial wet and SS-AD was suggested as a suitable technology for the treatment of aquatic plant biomass with recalcitrant cell walls and a labile cytoplasm.