Objective:A method for rapid and high-throughput extraction of pepper genomic DNA was obtained,which laid a foundation for a large number of pepper molecular breeding work.Methods:By optimizing the treatment time of alkali boiling method,the DNA extraction effect and preservation time of different tissues of pepper were further studied,and the results of SSR molecular marker amplification were compared with those of DNA extracted by CTAB method.Results:Compared with the traditional extraction method,there was no significant difference in the amplification effect of DNA extracted by NaOH and Tween-20 treatment for 3-5 min,and it could be stored for about a week at 4 ℃.And it could also obtain better extraction effect in plant roots.Conclusion:The pepper DNA extracted by alkali boiling method could be applied to molecular marker-assisted breeding and hybrid purity identification.This method was more rapid and convenient.