Periodontitis is a chronic infectious disease that alters the cellular microenvironment and promotes bone absorption. Bone morphogenetic protein 9 (BMP9) serves an important role in proliferation and differentiation, and tumor necrosis factor-alpha (TnF-α) is an important contributor to bone resorption. The present study aimed to investigate the effect of osteogenic differentiation in the presence of BMP9 and TnF-α in rat follicle stem cells (rdFcs). rdFcs were transfected with adenoviruses expressing BMP9 (adBMP9) and the expression levels of important proteins [BMP9, β-catenin, glycogen synthase kinase 3β (GSK3β), phosphorylated-GSK3β, calcium/calmodulin dependent protein kinase ii and nemo like kinase] were determined using western blotting. The effect of osteogenesis was analyzed using reverse transcription-quantitative Pcr, in addition to alkaline phosphatase, alizarin red S, and hematoxylin and eosin staining methods. The results of the present study revealed that TnF-α activated the canonical Wnt signaling pathway and suppressed osteogenesis. High concentrations of dickkopf 1 (dKK1) reduced the osteogenic differentiation of adBMP9-transduced rdFcs, whereas low concentrations of dKK1 promoted BMP9-induced bone formation, which was discovered to partially act via the canonical and non-canonical Wnt signaling pathways. In conclusion, the findings of the present study suggested that the enhanced promoting effect of BMP9 alongside the treatment with low concentrations of dKK1 may be useful for treating periodontitis bone absorption.