Triclosan is a common antibacterial agent widely applied in various household and personal care products. The molecule, cell, organ and organism-level understanding of its toxicity pose to some target organisms has been investigated, whereas, the alteration of a single metabolic reaction, gene or protein cannot reflect the impact of triclosan on metabolic network. To clarify the interaction between triclosan stress and metabolism at network and system levels, phospholipid synthesis, and cellular proteome and metabolism of Bacillus thuringiensis under 1muM of triclosan stress were investigated through omics approaches. The results showed that C14:0, C16:1omega7, C16:0 and C18:2omega6 were significantly up-produced, and 19 proteins were differentially expressed. Whereas, energy supply, protein repair and the synthesis of DNA, RNA and protein were down-regulated. PyrH and Eno could be biomarkers to reflect triclosan stress. At network level, the target proteins ACOX1, AHR, CAR, CYP1A, CYP1B1, DNMT1, ENO, HSP60, HSP70, SLC5A5, TPO and UGT expressed in different species shared high sequence homology with the same function proteins found in Homo sapiens not only validated their role as biomarkers but also implied the potential impact of triclosan on the metabolic pathways and network of humans. These findings provided novel insights into the metabolic influence of triclosan at network levels, and developed an omics approach to evaluate the safety of target compound.