Pathogen metagenome next-generation sequencing(mNGS)technology has been widely used in the detection of clinical infectious diseases due to its advantages of short detection time,high resolution,and the ability to identify infections caused by rare and emerging pathogens or mixed infections.However,the lack of standardized bioinformatics analyses and high-quality clinical microbial genome reference databases has restricted the further clinical application of this technology.This paper introduces the current status of high-quality clinical microbial genome reference database construction,discusses the technical requirements,quality control processes,and implementation methods building such a database,and provides related thoughts and suggestions.