15Conspecific negative density-dependence (CNDD) has been recognized as a key mechanism 16 underlying species coexistence, especially in tropical forests. Recently, some studies have 17 reported that seedling survival is also negatively correlated with the phylogenetic relatedness 18 between neighbors and focal individuals -termed phylogenetic negative density-dependence 19 (PNDD). In contrast to CNDD or PNDD, shared habitat requirements between closely related 20 individuals are thought to be a cause of observed positive effects of closely related neighbors, 21 which may affect the strength and detectability of CNDD or PNDD. In order to investigate the 22 relative importance of these mechanisms for tropical tree seedling survival, we used generalized 23 linear mixed models to analyze how the survival of more than 10,000 seedlings of woody plant 24 species related to neighborhood and habitat variables in a tropical rainforest in southwest China. 25By comparing models with and without habitat variables, we tested how habitat filtering affected 26 the detection of CNDD and PNDD. The best-fitting model suggested that CNDD and habitat 27 filtering played key roles in seedling survival, but that, contrary to our expectations, phylogenetic 28 positive density-dependence (PPDD) had a distinct and important effect. While habitat filtering 29 affected the detection of CNDD by decreasing its apparent strength, it did not explain the 30 positive effects of closely-related neighbors. Our results demonstrate that a failure to control for 31 habitat variables and phylogenetic relationships may obscure the importance of conspecific and 32 heterospecific neighbor densities for seedling survival.