bWe selected 180 clinical isolates of the Mycobacterium tuberculosis complex (MTBC) from patients in China and performed comparative sequence analysis of the mpt64 gene after amplification. From the results, we found that polymorphisms of the mpt64 gene in the MTBC may be the reason for changes in the antigen produced, which may in turn cause alterations of related functions, thereby allowing immune evasion.T uberculosis (TB) is a major infectious disease with a worldwide prevalence. About one-third of the world's population is infected with Mycobacterium tuberculosis. Among those infected, 9.3 million people develop active TB, and 1.8 million people die of TB each year (1). Current efforts to reduce the global problem of TB are focused on improving diagnosis and effective vaccines. Biochemical, immunological, and molecular biological characterization of M. tuberculosis has led to the identification of several antigens that may be useful in the development of improved diagnostic methods and vaccines (2).MPT64 (Rv1980c), a 24-kDa protein of M. tuberculosis, is an important protein secreted by this pathogen (3, 4). It is hypothesized that actively secreted proteins of M. tuberculosis are the first to interact with the host immune system, and therefore that such proteins are important for activating the immune response in individuals infected with M. tuberculosis. Furthermore, this protein is recognized by human Th1 cells, and thus it could be useful for TB diagnosis or as part of a novel candidate vaccine against TB (5). A large amount of variability in the diagnostic accuracy of MPT64 has been reported, depending on the recombinant antigen used in assays (6, 7). Previous studies showed that the MPT64 antigen is highly conserved, but these studies were based on small samples (8). In this study, we selected 180 clinical isolates of the M. tuberculosis complex (MTBC) from patients in China, amplified the gene encoding the MPT64 antigen, and compared the sequences.The 180 clinical isolates were selected from 2,346 MTBC strains that were previously isolated in China and genotyped by spoligotyping (9). All major and rare genotypes in China were included (Table 1; Fig. 1). Considering the predominance of Beijing family strains in China, we chose about half Beijing family strains (92 strains) and half non-Beijing family strains (88 strains). We randomly selected the 92 Beijing family strains from 1,738 Beijing strains among 2,346 MTBC strains. The remaining 88 strains were selected from 608 non-Beijing family isolates. Furthermore, we attempted to purposely include strains representing different spoligotypes that were isolated from different places. Table 2 shows the numbers of strains used in this study that were obtained from different provinces and regions in China. The strains were cultured using standard Löwenstein-Jensen medium, heat inactivated, and then subjected to PCR. The nucleotide sequences of the primers (5= to 3=) were designed by DNAstar software according to the H37Rv genome sequence and were as follows:...