Exploring the value of hybrid capture-based next-generation sequencing technology in the suspected diagnosis of bloodstream infections

• Published in: PeerJ (San Francisco, CA) Vol. 12; p. e18471
• Main Authors: Liu, Xinyuan, Gan, Zhitao, Lin, Zengshun, Lin, Xiaojun, Yuan, Jianying, Rong, Lili, Chen, Jiachang, Liu, Jun, Li, Yingzhen, Hu, Chaohui
• Format: Journal Article
• Language: English
• Published: San Diego PeerJ. Ltd 08.11.2024; PeerJ, Inc; PeerJ Inc
• Subjects: Acids; Bacteria; Bioinformatics; Biotechnology; Blood; Blood culture; Bloodstream infections; Cell culture; Clinical; Diagnosis; DNA sequencing; Drug resistance; Fungi; Genomics; Hematological diseases; Hematology; Hospitals; Hybrid capture-based next generation sequencing; Infections; Infectious Diseases; Laboratories; Leukocytes; Medicine; Metagenomic next generation sequencing (mNGS); Microbiology; Microorganisms; Molecular Biology; Mortality; Next-generation sequencing; Nucleotide sequencing; Pathogens; Patients; Peripheral blood; Plasma; Sepsis; China; France
• ISSN: 2167-8359; 2167-8359
• DOI: 10.7717/peerj.18471

Background Determining the source of infection is significant for the treatment of bloodstream infections (BSI). The gold standard of blood infection detection, blood cultures, have low positive rates to meet clinical needs. In this study, we investigated the ability of hybrid capture-based next generation sequencing technology to detect pathogens in peripheral blood samples collected from patients with suspected BSI. Blood cultures and capture sequencing assays were also analyzed against the final clinical diagnoses. Methods In this study, peripheral blood samples were collected from patients with fever, chills, and suspected BSI at Jinshazhou Hospital of Guangzhou University of Chinese Medicine from March 2023 to January 2024. All samples were tested by three different technologies: plasma capture sequencing technology, white blood cell capture sequencing technology, and blood culture. Relevant clinical diagnostic information was also collected. The performances of the blood cultures were then compared to those of both plasma capture sequencing technology and white blood cell capture sequencing technology. Results A total of 98 patients were included in this study. The positive rates of probe capture next generation sequencing (NGS technology) in plasma and white blood cells were 81.63% and 65.31%, respectively, which were both significantly higher than that of the blood culture, which was 21.43% (p <0.001). Taking blood culture as the standard control, the sensitivity and specificity of plasma capture sequencing were 85.71% and 71.43%, respectively, while the sensitivity and specificity of white blood cell sequencing were 76.19% and 81.82%, respectively. Upon final clinical diagnosis, the clinical agreement rates of the blood cultures, plasma capture sequencing, and white blood cell capture sequencing were 39.80%, 83.67%, and 73.47%, respectively. Conclusion Our study demonstrates the high accuracy of probe capture sequencing technology compared to blood cultures in the identification of pathogenic microorganisms in BSI upon final clinical diagnosis. Among the different sample types, white blood cell samples had a lower clinical compliance rate compared to plasma samples, possibly due to the higher host rate in cell samples, which impairs the sensitivity of pathogen detection.