Bacillus is an important microbial resource forming endospore to resist stress. Taxonomy research is vital to explore and utilize functional Bacillus strains. Based on the taxono-genomic method, the classification status of Bacillus is becoming more and more precise. Untill to June 2016, 813 Bacillus-like species have been reported worldwide, belonging to 74 genera within 5 Families including Bacillaceae, Alicyclobacillaceae, Paenibacillaceae, Planococcaceae, and Sporolactobacillaceae. The first new species of Bacillus-like bacteria was published by Chinese scientists in 2004. Up to now, 176 Bacillus-like new species have been recognized, which were isolated from China. In this review, we describe the present taxonomy method for Bacillus and their application in different fields, aiming to provide relevant information for peers.