The degradation of organic matter in soils plays an important role in the carbon cycle. Lignin is the main source of soil organics and it can be used to trace the source, distribution and turnover of organic matter. In this study the distribution and degradation of lignin were investigated to identify the source and degradation of soil organic matter during the succession of China's Zoige Plateau. Lignin monomers were determined by gas chromatography-mass spectrometry with alkaline CuO oxidation and the soils' δ13C and δ15N contents were interpreted to explore the turnover rate of lignin and organic matter. The main source of organics was identified as C3 non-woody angiosperm tissues. Lignin in the topsoil (0–30 cm) was derived from litter and roots, and it then migrated vertically to the deep soil (30–80 cm). Correlations of δ13C/δ15N with the soil's elemental composition showed that the organics degraded more quickly in meadow soil than in bog soil. The soil communities in the meadow and bog soils were generally similar, but there were certain differences in the dominant microbial phyla at different depths. The meadow soil's effectiveness as a carbon sink was gradually weakened, while that of the bog soil strengthened with depth. These results provide a scientific basis for accurately assessing the carbon sink capacity of the soils in Zoige Plateau.