Wild oat (Avena fatua L.) is among the most harmful of gramineous weeds infiltrating crops, resulting in reductions in crop quality and yield. The moderately halophilic bacterium Bacillus altitudinis D30202 has a good biological control effect on wild oat. In order to explore the biocontrol mechanism of B. altitudinis D30202, through whole-genome sequencing analysis, we explored the genome composition of B. altitudinis D30202, and conducted research on the prediction of herbicide secondary metabolite synthesis gene clusters to provide a reference for follow-up research on the mechanism of biological control of weeds.The whole gene sequencing results showed that the genome size of the B. altitudinis D30202 strain was 3,777,154 bp, the GC content was 41.32%, and there were a total of 3809 coding genes. In addition, The strain can also produce substances that may have herbicidal activity, including 4-hydroxy-3-methoxycinnamic acid and indole derivative. Online predictive analysis found that the strain has 10 secondary metabolite gene clusters. The results of whole-genome sequencing obtained in this study provide an information basis for the research and development of the molecular mechanism of weed inhibition. Genomic information reveals the interaction between several enzyme genes and wild oat, provides a reference for the study of metabolite synthesis and regulatory mechanisms, and lays the foundation for the development of new biological control agents.