The selection of tree species is critical for soil organic carbon (SOC) stock and dynamics under afforestation. Exotic tree species were widely introduced and have been considered as a form of human-induced global change. However, how exotic tree species, as compared with native ones, affect SOC storage and soil respiration (R s ) has not been sufficiently investigated. Here we studied this issue in an even-aged (22 years) plantation composed by native Masson pine (Pinus massoniana Lamb.) (MP) and exotic slash pine (Pinus elliottii Engelm.) (SP) in subtropical China. A trenching method was used to partition R s into heterotrophic (R h ) and autotrophic respiration (R a ). R s and R h were measured approximately biweekly during August 2007 to December 2009. Our results showed that seasonal patterns of R s and R h in both pine forests were mainly affected by soil temperature and moisture (R 2 = 0.56-0.78, P b 0.001). There was no difference in SOC stock (forest floor + mineral soil of 0-40 cm), R h and turnover rate (R h /SOC stock) between MP and SP forests. However, annual R s , R a and R a /R s of MP were significantly 24%, 119% and 74% higher than those of SP, respectively. In contrast, even though MP and SP had similar fine and coarse root biomass, MP had significant higher ratios of R a /fine root biomass and R a /coarse root biomass than SP, suggesting a higher respiration rate in native pine species on a root biomass basis. We concluded that the exotic SP, as compared with indigenous MP, did not alter SOC stock, R h and turnover rate but depressed R a and R s . Therefore, both pine species were recommended in case of reforestation in terms of SOC sequestration.