Soil sickness is a typical negative feedback which depends upon harmful interactions between plants and microbes resulting in autotoxicity, an imbalance of microbes and hence pathogenicity. Pyrosequencing approaches have provided recent insights into rhizosphere microbial variation in the chronosequence tea orchards. However, our knowledge of the connection between imbalance of plant-associated micro-biota with leaf lecheates in continuous monoculture is limited. The aim of this study was to show the impact of Camellia sinensis (L.) leaf lecheates on the distribution and assemblage of microbiota in the rhizosphere, rhizoplane and endosphere across a continuous monoculture system. High-throughput sequencing was used to determine the spatial structure of root associated-microbiota in fresh (2-years) tea plantation, old (30-years) tea plantation and adjacent uncultivated field. Moreover, High Performance Liquid Chromatography-Electro Spray Ionization-Mass Spectrometry was used to identify and quantify allelochemicals in leaf lecheates of C. sinensis (L.). Results indicated that the main phyla associated with root were Protobacteria, Acidobacteria, Cyanobacteria, Chloroflexi, Actinobacteria, Bacteroides, Nitrospirae, WD272, Gemmatimonadetes and Firmicutes showed distinct distribution patterns across chronosequenced tea plantation. Redundancy analysis showed that the Catechin, Epicatechin, Epigallocatechin, Epicatechin gallate and Epigallocatechin Gallate of leaf leachates were highly correlated with the majority of bacterial taxa. These results suggested that long-term tea cultivation resulted in the accumulation of autotoxin as the results of pruning and falling leaves. In addition, these autotoxins altered the composition and structure of the soil bacterial community in continuous monoculture soil directly or indirectly by changing the pH of rhizosphere soil. These results might be helpful to explore the reason why the quality and fertility were disturbed in long term monoculture tea field.