References
- Lozano R, Naghavi M, Foreman K, et al. Global and regional mortality from 235 causes of death for 20 age groups in 1990 and 2010: a systematic analysis for the Global Burden of Disease Study 2010. Lancet Lond Engl. 2012;380(9859):2095–2128. doi:10.1016/S0140-6736(12)61728-0
- Howard DH, Scott RD, Packard R, Jones D. The global impact of drug resistance. Clin Infect Dis. 2003;36(Suppl 1):S4–10. doi:10.1086/344656
- Moehring RW, Sloane R, Chen LF, et al. Delays in appropriate antibiotic therapy for gram-negative bloodstream infections: a multicenter, community hospital study. PLoS One. 2013;8(10):e76225. doi:10.1371/journal.pone.0076225
- Rea B, Maisel JR, Glaser L, Alby K. Identification of clinically relevant mycobacterial species after extended incubation times in the BACTEC MGIT system. Am J Clin Pathol. 2019;151(1):63–67. doi:10.1093/ajcp/aqy086
- Huang H, Deng J, Qin C, Zhou J, Duan M. Disseminated coinfection by Mycobacterium fortuitum and Talaromyces marneffei in a non-HIV case. Infect Drug Resist. 2021;14:3619–3625. doi:10.2147/IDR.S316881
- Lin LN, Zhou JS, Hua CZ, Bai GN, Mi YM, Zhou MM. Epidemiological and clinical characteristics of pertussis in children and their close contacts in households: a cross-sectional survey in Zhejiang Province, China. Front Pediatr. 2022;10:976796. doi:10.3389/fped.2022.976796
- Zhang H, Han Y, Jin Z, et al. Detection of viruses by multiplex real-time polymerase chain reaction in bronchoalveolar lavage fluid of patients with nonresponding community-acquired pneumonia. Can Respir J. 2020;2020:8715756. doi:10.1155/2020/8715756
- Peri AM, Harris PNA, Paterson DL. Culture-independent detection systems for bloodstream infection. Clin Microbiol Infect. 2022;28(2):195–201. doi:10.1016/j.cmi.2021.09.039
- Ahmed A, Rushworth JV, Hirst NA, Millner PA. Biosensors for whole-cell bacterial detection. Clin Microbiol Rev. 2014;27(3):631–646. doi:10.1128/CMR.00120-13
- Gu W, Deng X, Lee M, et al. Rapid pathogen detection by metagenomic next-generation sequencing of infected body fluids. Nat Med. 2021;27(1):115–124. doi:10.1038/s41591-020-1105-z
- Yan G, Liu J, Chen W, et al. Metagenomic next-generation sequencing of bloodstream microbial cell-free nucleic acid in children with suspected sepsis in pediatric intensive care unit. Front Cell Infect Microbiol. 2021;11:665226. doi:10.3389/fcimb.2021.665226
- Chiu CY, Miller SA. Clinical metagenomics. Nat Rev Genet. 2019;20(6):341–355. doi:10.1038/s41576-019-0113-7
- Miller S, Naccache SN, Samayoa E, et al. Laboratory validation of a clinical metagenomic sequencing assay for pathogen detection in cerebrospinal fluid. Genome Res. 2019;29(5):831–842. doi:10.1101/gr.238170.118
- Hogan CA, Yang S, Garner OB, et al. Clinical impact of metagenomic next-generation sequencing of plasma cell-free DNA for the diagnosis of infectious diseases: a multicenter retrospective cohort study. Clin Infect Dis. 2021;72(2):239–245. doi:10.1093/cid/ciaa035
- Shi L, Xia H, Moore MD, et al. Metagenomic next-generation sequencing in the diagnosis of HHV-1 reactivation in a critically ill COVID-19 patient: a case report. Front Med. 2021;8:715519. doi:10.3389/fmed.2021.715519
- Cao J, Cai Q, Su W, et al. Case report: metagenomic next-generation sequencing confirmed a case of central nervous system infection with Brucella melitensis in non-endemic areas. Front Med. 2021;8:723197. doi:10.3389/fmed.2021.723197
- Chen Y, Feng W, Ye K, et al. Application of metagenomic next-generation sequencing in the diagnosis of pulmonary infectious pathogens from bronchoalveolar lavage samples. Front Cell Infect Microbiol. 2021;11:541092. doi:10.3389/fcimb.2021.541092
- Xu H, Hu X, Wang W, et al. Clinical application and evaluation of metagenomic next-generation sequencing in pulmonary infection with pleural effusion. Infect Drug Resist. 2022;15:2813–2824. doi:10.2147/IDR.S365757
- Shi Y, Wu J, Liu T, et al. Analysis of metagenomic next-generation sequencing results of 25 Pus samples. Infect Drug Resist. 2022;15:6515–6524. doi:10.2147/IDR.S385925
- Miao Q, Ma Y, Wang Q, et al. Microbiological diagnostic performance of metagenomic next-generation sequencing when applied to clinical practice. Clin Infect Dis. 2018;67(suppl_2):S231–S240. doi:10.1093/cid/ciy693
- Yang A, Chen C, Hu Y, et al. Application of Metagenomic Next-Generation Sequencing (mNGS) using Bronchoalveolar Lavage Fluid (BALF) in diagnosing pneumonia of children. Microbiol Spectr. 2022;10(5):e01488–22. doi:10.1128/spectrum.01488-22
- Qian YY, Wang HY, Zhou Y, et al. Improving pulmonary infection diagnosis with metagenomic next generation sequencing. Front Cell Infect Microbiol. 2021;10:567615. doi:10.3389/fcimb.2020.567615
- Lin P, Chen Y, Su S, et al. Diagnostic value of metagenomic next-generation sequencing of bronchoalveolar lavage fluid for the diagnosis of suspected pneumonia in immunocompromised patients. BMC Infect Dis. 2022;22:416. doi:10.1186/s12879-022-07381-8
- Goldberg B, Sichtig H, Geyer C, Ledeboer N, Weinstock GM. Making the leap from research laboratory to clinic: challenges and opportunities for next-generation sequencing in infectious disease diagnostics. mBio. 2015;6(6):e01888–15. doi:10.1128/mBio.01888-15
- Zhang M, Wang Z, Wang J, et al. The value of metagenomic next-generation sequencing in hematological malignancy patients with febrile neutropenia after empiric antibiotic treatment failure. Infect Drug Resist. 2022;15:3549–3559. doi:10.2147/IDR.S364525
- Wallace E, Hendrickson D, Tolli N, et al. Culturing mycobacteria. Methods Mol Biol Clifton. 2021;2314:1–58. doi:10.1007/978-1-0716-1460-0_1
- Alsayed AR, Al-Dulaimi A, Alkhatib M, Al Maqbali M, Al-Najjar MAA, Al-Rshaidat MMD. A comprehensive clinical guide for Pneumocystis jirovecii pneumonia: a missing therapeutic target in HIV-uninfected patients. Expert Rev Respir Med. 2022;16:1167–1190. doi:10.1080/17476348.2022.2152332
- Lu H, Ma L, Zhang H, et al. The comparison of metagenomic next-generation sequencing with conventional microbiological tests for identification of pathogens and antibiotic resistance genes in infectious diseases. Infect Drug Resist. 2022;15:6115–6128. doi:10.2147/IDR.S370964
- Wang J, Han Y, Feng J. Metagenomic next-generation sequencing for mixed pulmonary infection diagnosis. BMC Pulm Med. 2019;19(1):252. doi:10.1186/s12890-019-1022-4
- Huang J, Jiang E, Yang D, et al. Metagenomic next-generation sequencing versus traditional pathogen detection in the diagnosis of peripheral pulmonary infectious lesions. Infect Drug Resist. 2020;13:567–576. doi:10.2147/IDR.S235182
- Duan H, Li X, Mei A, et al. The diagnostic value of metagenomic next⁃generation sequencing in infectious diseases. BMC Infect Dis. 2021;21(1):62. doi:10.1186/s12879-020-05746-5
- Qu Y, Ding W, Liu S, et al. Metagenomic next-generation sequencing vs. traditional pathogen detection in the diagnosis of infection after allogeneic hematopoietic stem cell transplantation in children. Front Microbiol. 2022;13. doi:10.3389/fmicb.2022.868160
- Blauwkamp TA, Thair S, Rosen MJ, et al. Analytical and clinical validation of a microbial cell-free DNA sequencing test for infectious disease. Nat Microbiol. 2019;4(4):663–674. doi:10.1038/s41564-018-0349-6
- Wilson MR, Sample HA, Zorn KC, et al. Clinical metagenomic sequencing for diagnosis of meningitis and encephalitis. N Engl J Med. 2019;380(24):2327–2340. doi:10.1056/NEJMoa1803396