Department of Infectious Diseases, Mengchao Hepatobiliary Hospital of Fujian Medical University, Fuzhou 350025, China.
Institute of Applied Genomics, Fuzhou University, Fuzhou 350108, China.
Biomed Res Int. 2021 Nov 17;2021:6287280. doi: 10.1155/2021/6287280. eCollection 2021.
Traditional pathogenic diagnosis presents defects such as a low positivity rate, inability to identify uncultured microorganisms, and time-consuming nature. Clinical metagenomics next-generation sequencing can be used to detect any pathogen, compensating for the shortcomings of traditional pathogenic diagnosis. We report third-generation long-read sequencing results and second-generation short-read sequencing results for ascitic fluid from a patient with liver ascites and compared the two types of sequencing results with the results of traditional clinical microbial culture. The distribution of pathogenic microbial species revealed by the two types of sequencing results was quite different, and the third-generation sequencing results were consistent with the results of traditional microbial culture, which can effectively guide subsequent treatment. Short reads, the lack of amplification, and enrichment to amplify signals from trace pathogens, and host background noise may be the reasons for the high error in the second-generation short-read sequencing results. Therefore, we propose that long-read-based rRNA analysis technology is superior to the short-read shotgun-based metagenomics method in the identification of pathogenic bacteria.
传统的病原学诊断存在阳性率低、无法识别未培养的微生物以及耗时等缺陷。临床宏基因组下一代测序可用于检测任何病原体，弥补了传统病原学诊断的不足。我们报告了一位肝腹水患者的腹水的第三代长读测序结果和第二代短读测序结果，并将这两种测序结果与传统临床微生物培养的结果进行了比较。两种测序结果揭示的病原微生物种类分布差异很大，第三代测序结果与传统微生物培养的结果一致，能有效指导后续治疗。短读序列缺乏扩增，且富集以放大痕量病原体的信号，以及宿主背景噪声，可能是第二代短读测序结果高错误率的原因。因此，我们提出基于长读序列的 rRNA 分析技术在鉴定病原菌方面优于基于短读序列的宏基因组 shotgun 方法。
