Discovering the underlying mechanisms between carbon metabolism and carbon balance of human-natural system is of important theoretical and practical significance for reducing regional carbon emissions and promoting low-carbon development. Taking Xiamen-Zhangzhou-Quanzhou region from 2000 to 2020 as an example, we constructed the framework of spatial network model of land carbon metabolism based on carbon flow, and inquired into the spatial and temporal heterogeneity in the carbon metabolic structure, function and ecological relationships by using the ecological network analysis. The results showed that the dominant negative carbon transitions related with land use changes came from the conversion of cultivated land to industrial and transportation land, and that the high value areas of negative carbon flow were mainly distributed in the areas with relatively developed industries in the middle and east parts of Xiamen-Zhangzhou-Quanzhou region. Competition relationships were the dominant type and the spatial expansion was obvious, which led to the decreases of the integral ecological utility index and affected the regional carbon metabolic balance. The ecological network hierarchy of driving weight changed from a pyramid structure to a relatively more regular structure, with the producer contributing the most. The ecological network hie-rarchy of pull weight changed from a pyramid structure to an inverted pyramid structure, mainly due to the excessive increase of industrial and transportation land weights. Low-carbon development should focus on the sources of negative carbon transitions caused by land use conversion and its comprehensive impacts on carbon metabolic balance, to formulate differentiated low-carbon land use patterns and carbon emission reduction policies.