Soil’s potential as a carbon sink is uncertain due to biotic and abiotic interactions. Soil aggregates are important carriers of organic carbon (OC), and clarifying the response of aggregates and their associated OC to plant roots and earthworms can better understand the carbon cycle in terrestrial ecosystems. Herein, we determined the regulatory role of plant roots (Lolium perenne) and earthworms (Metaphire tschiliensis) in isolation and in combination on aggregate size distribution and their associated OC and readily oxidizable OC (ROOC) under contrasting soil types (Phaeozems and Anthrosols) and soil moisture conditions (constant wetting, CW; wetting–drying cycle repeated four times, 4WD) by a laboratory microcosm experiment. Results showed that earthworm presence significantly increased plant biomass by 30 % and 221 % in Phaeozems and Anthrosols, respectively (p < 0.05). For Phaeozems, plant alone (P) and plant and earthworm in combination (PE) had lower proportion of large aggregate (5–8 and 2–5 mm) than bare soil (CK) under 4WD condition (p < 0.05). For Anthrosols, the PE treatment decreased the proportion of 5–8 and 2–5 mm aggregate by 45 % and 25 %, respectively, under CW condition, and decreased the proportion of 5–8 mm aggregate by 37 % under 4WD condition (p < 0.05). Moreover, the proportion of 5–8 and 2–5 mm aggregate in P treatment was lower under CW condition (6.92 % and 22.13 %) but was higher under 4WD condition (11.49 % and 32.55 %) than those in CK (14.69 % and 29.91 %; 8.85 % and 20.56 %) (p < 0.05). Our results further indicated that the PE treatment had relatively higher OC and ROOC contents, especially for small aggregates in Anthrosols. The study indicates that plant roots and earthworms significantly influence aggregate turnover and the carbon cycle, with soil type and moisture playing a crucial role.