Top

International Journal of Clinical Pharmacy

03-04-2024 | Joint Infection | Review Article

An umbrella review of the diagnostic value of next-generation sequencing in infectious diseases

Authors: Hong Cao, Yan Chen, Long Ge, Joey Sum-wing Kwong, Honghao Lai, Fangfang Hu, Rui Zhang, Huaye Zhao, Linfang Hu, Rui He, Wenyi Zheng, Jiaxing Zhang

Published in: International Journal of Clinical Pharmacy

Abstract

Background

An increasing number of systematic reviews (SRs) have evaluated the diagnostic values of next-generation sequencing (NGS) in infectious diseases (IDs).

Aim

This umbrella analysis aimed to assess the potential risk of bias in existing SRs and to summarize the published diagnostic values of NGS in different IDs.

Method

We searched PubMed, Embase, and the Cochrane Library until September 2023 for SRs assessing the diagnostic validity of NGS for IDs. Two investigators independently determined review eligibility, extracted data, and evaluated reporting quality, risk of bias, methodological quality, and evidence certainty in the included SRs.

Results

Eleven SRs were analyzed. Most SRs exhibited a moderate level of reporting quality, while a serious risk of bias was observed in all SRs. The diagnostic performance of NGS in detecting pneumocystis pneumonia and periprosthetic/prosthetic joint infection was notably robust, showing excellent sensitivity (pneumocystis pneumonia: 0.96, 95% CI 0.90–0.99, very low certainty; periprosthetic/prosthetic joint infection: 0.93, 95% CI 0.83–0.97, very low certainty) and specificity (pneumocystis pneumonia: 0.96, 95% CI 0.92–0.98, very low certainty; periprosthetic/prosthetic joint infection: 0.95, 95% CI 0.92–0.97, very low certainty). NGS exhibited high specificity for central nervous system infection, bacterial meningoencephalitis, and tuberculous meningitis. The sensitivity to these infectious diseases was moderate. NGS demonstrated moderate sensitivity and specificity for multiple infections and pulmonary infections.

Conclusion

This umbrella analysis indicates that NGS is a promising technique for diagnosing pneumocystis pneumonia and periprosthetic/prosthetic joint infection with excellent sensitivity and specificity. More high-quality original research and SRs are needed to verify the current findings.

Available only for authorised users

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. 2012;380:2095–128. https://doi.org/10.1016/S0140-6736(12)61728-0.CrossRefPubMedPubMedCentral

Wang X, Hong XZ, Li YW, et al. Microfluidics-based strategies for molecular diagnostics of infectious diseases. Mil Med Res. 2022;9(1):1–7. https://doi.org/10.1186/s40779-022-00374-3.CrossRef

Ackerman CM, Myhrvold C, Thakku SG, et al. Massively multiplexed nucleic acid detection with Cas13. Nature. 2020;582:277–82. https://doi.org/10.1038/s41586-020-2279-8.CrossRefPubMedPubMedCentral

Zhang XX, Liu JS, Han LF, et al. Towards a global one health index: a potential assessment tool for one health performance. Infect Dis Poverty. 2022;11(1):57. https://doi.org/10.1186/s40249-022-00979-9.CrossRefPubMedPubMedCentral

Liu Q, Jing W, Liu M, et al. Health disparity and mortality trends of infectious diseases in BRICS from 1990 to 2019. J Glob Health. 2022;12:04028. https://doi.org/10.7189/jogh.12.04028.CrossRefPubMedPubMedCentral

Acharya S, Barber SL, Lopez-Acuna D, et al. BRICS and global health. Bull World Health Organ. 2014;92:386-386A. https://doi.org/10.2471/BLT.14.140889.CrossRefPubMedPubMedCentral

Summer A. IDS working paper: where do the world’s poor live? A new update. 2012. Available: https://www.ids.ac.uk/download.php?file=files/dm-file/Wp393.pdf. Accessed: 20 Sept 2021.

GBD 2019 Diseases and Injuries Collaborators. Global burden of 369 diseases and injuries in 204 countries and territories, 1990–2019: a systematic analysis for the Global Burden of Disease Study 2019. Lancet. 2020;396(10258):1204–22. https://doi.org/10.1016/S0140-6736(20)30925-9.CrossRef

Huang G, Guo F. Loss of life expectancy due to respiratory infectious diseases: findings from the global burden of disease study in 195 countries and territories 1990–2017. J Popul Res (Canberra). 2022;39(1):1–43. https://doi.org/10.1007/s12546-021-09271-3.CrossRefPubMed

10.

Springer BD, Cahue S, Etkin CD, et al. Infection burden in total hip and knee arthroplasties: an international registry-based perspective. Arthroplast Today. 2017;3(2):137–40. https://doi.org/10.1016/j.artd.2017.05.003.CrossRefPubMedPubMedCentral

11.

Rietbergen L, Kuiper JW, Walgrave S, et al. Quality of life after staged revision for infected total hip arthroplasty: a systematic review. Hip Int. 2016;26(4):311–8. https://doi.org/10.5301/hipint.5000416.CrossRefPubMed

12.

Bozic KJ, Kurtz SM, Lau E, et al. The epidemiology of revision total knee arthroplasty in the United States. Clin Orthop Relat Res. 2010;468(1):45–51. https://doi.org/10.1007/s11999-009-0945-0.CrossRefPubMed

13.

Kumar A, Roberts D, Wood KE, et al. Duration of hypotension before initiation of effective antimicrobial therapy is the critical determinant of survival in human septic shock. Crit Care Med. 2006;34(6):1589–96. https://doi.org/10.1097/01.CCM.0000217961.75225.E9.CrossRefPubMed

14.

Glimåker M, Johansson B, Grindborg Ö, et al. Adult bacterial meningitis: earlier treatment and improved outcome following guideline revision promoting prompt lumbar puncture. Clin Infect Dis. 2015;60:1162–9. https://doi.org/10.1093/cid/civ011.CrossRefPubMed

15.

Weiss SL, Fitzgerald JC, Balamuth F, et al. Delayed antimicrobial therapy increases mortality and organ dysfunction duration in pediatric sepsis. Crit Care Med. 2014;42:2409–17. https://doi.org/10.1097/CCM.0000000000000509.CrossRefPubMedPubMedCentral

16.

Erickson TA, Muscal E, Munoz FM, et al. Infectious and autoimmune causes of encephalitis in children. Pediatrics. 2020;145(6): e20192543. https://doi.org/10.1542/peds.2019-2543.CrossRefPubMed

17.

Messacar K, Parker SK, Todd JK, et al. Implementation of rapid molecular infectious disease diagnostics: the role of diagnostic and antimicrobial stewardship. J Clin Microbiol. 2017;55:715–23. https://doi.org/10.1128/JCM.02264-16.CrossRefPubMedPubMedCentral

18.

Haidar G, Singh N. Fever of unknown origin. N Engl J Med. 2022;386(5):463–77. https://doi.org/10.1056/NEJMra2111003.CrossRefPubMed

19.

Heesterbeek H, Anderson RM, Andreasen V, et al. Modeling infectious disease dynamics in the complex landscape of global health. Science. 2015;347(6227):aaa4339. https://doi.org/10.1126/science.aaa4339.CrossRefPubMedPubMedCentral

20.

Denny KJ, De Waele J, Laupland KB, et al. When not to start antibiotics: avoiding antibiotic overuse in the intensive care unit. Clin Microbiol Infect. 2020;26(1):35–40. https://doi.org/10.1016/j.cmi.2019.07.007.CrossRefPubMed

21.

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:S231–40. https://doi.org/10.1093/cid/ciy693.CrossRefPubMed

22.

Peng JM, Du B, Qin HY, et al. Metagenomic next-generation sequencing for the diagnosis of suspected pneumonia in immunocompromised patients. J Infect. 2021;82:22–7. https://doi.org/10.1016/j.jinf.2021.01.029.CrossRefPubMed

23.

Yoon HK, Cho SH, Lee DY, et al. A review of the literature on culture-negative periprosthetic joint infection: epidemiology, diagnosis and treatment. Knee Surg Relat Res. 2017;29(3):155–64. https://doi.org/10.5792/ksrr.16.034.CrossRefPubMedPubMedCentral

24.

Ji XC, Zhou LF, Li CY, et al. Reduction of human DNA contamination in clinical cerebrospinal fluid specimens improvesthe sensitivity of metagenomic next-generation sequencing. J Mol Neurosci. 2020;70(5):659–66. https://doi.org/10.1007/s12031-019-01472-z.CrossRefPubMed

25.

Fei X, Li C, Zhang Y, et al. Next-generation sequencing of cerebrospinal fluid for the diagnosis of neurocysticercosis. Clin Neurol Neurosurg. 2020;193: 105752. https://doi.org/10.1016/j.clineuro.2020.105752.CrossRefPubMed

26.

Gu W, Miller S, Chiu CY. Clinical metagenomic next-generation sequencing for pathogen detection. Annu Rev Pathol. 2019;14:319–38. https://doi.org/10.1146/annurev-pathmechdis-012418-012751.CrossRefPubMed

27.

Wilson MR, Naccache SN, Samayoa E, et al. Actionable diagnosis of neuroleptospirosis by next-generation sequencing. N Engl J Med. 2014;370(25):2408–17. https://doi.org/10.1056/NEJMoa1401268.CrossRefPubMedPubMedCentral

28.

Yu X, Jiang W, Shi Y, et al. Applications of sequencing technology in clinical microbial infection. J Cell Mol Med. 2019;23(11):7143–50. https://doi.org/10.1111/jcmm.14624.CrossRefPubMedPubMedCentral

29.

To RK, Ramchandar N, Gupta A, et al. Use of plasma metagenomic next-generation sequencing for pathogen identification in pediatric endocarditis. Pediatr Infect Dis J. 2021;40(5):486–8. https://doi.org/10.1097/INF.0000000000003038.CrossRefPubMed

30.

Lieberman JA, Naureckas Li C, Lamb GS, et al. Case report: comparison of plasma metagenomics to bacterial PCR in a case of prosthetic valve endocarditis. Front Pediatr. 2020;8:575674. https://doi.org/10.3389/fped.2020.575674.CrossRefPubMed

31.

Farnaes L, Wilke J, Ryan Loker K, et al. Community-acquired pneumonia in children: cell-free plasma sequencing for diagnosis and management. Diagn Microbiol Infect Dis. 2019;94:188–91. https://doi.org/10.1016/j.diagmicrobio.2018.12.016.CrossRefPubMedPubMedCentral

32.

Wang J, Han Y, Feng J. Metagenomic next-generation sequencing for mixed pulmonary infection diagnosis. BMC Pulm Med. 2019;19(1):252. https://doi.org/10.1186/s12890-019-1022-4.CrossRefPubMedPubMedCentral

33.

Wilson MR, Sample HA, Zorn KC, et al. Clinical metagenomic sequencing for diagnosis of meningitis and encephalitis. N Engl J Med. 2019;380(24):2327–40. https://doi.org/10.1056/NEJMoa1803396.CrossRefPubMedPubMedCentral

34.

Cai Y, Fang X, Chen Y, et al. Metagenomic next generation sequencing improves diagnosis of prosthetic joint infection by detecting the presence of bacteria in periprosthetic tissues. Int J Infect Dis. 2020;96:573–8. https://doi.org/10.1016/j.ijid.2020.05.125.CrossRefPubMed

35.

Fang X, Cai Y, Shi T, et al. Detecting the presence of bacteria in low-volume preoperative aspirated synovial fluid by metagenomic next-generation sequencing. Int J Infect Dis. 2020;99:108–16. https://doi.org/10.1016/j.ijid.2020.07.039.CrossRefPubMed

36.

Kildow BJ, Ryan SP, Danilkowicz R, et al. Next-generation sequencing not superior to culture in periprosthetic joint infection diagnosis. Bone Joint J. 2021;103:26–31. https://doi.org/10.1302/0301-620X.103B1.BJJ-2020-0017.R3.CrossRefPubMed

37.

Tarabichi M, Shohat N, Goswami K, et al. Diagnosis of periprosthetic joint infection: the potential of next-generation sequencing. J Bone Joint Surg Am. 2018;100:147–54. https://doi.org/10.2106/JBJS.17.00434.CrossRefPubMed

38.

Tarabichi M, Alvand A, Shohat N, et al. Diagnosis of Streptococcus canis periprosthetic joint infection: the utility of next-generation sequencing. Arthroplast Today. 2018;4:20–3. https://doi.org/10.1016/j.artd.2017.08.005.CrossRefPubMed

39.

Tarabichi M, Shohat N, Goswami K, et al. Can next generation sequencing play a role in detecting pathogens in synovial fluid? Bone Joint J. 2018;100:127–33. https://doi.org/10.1302/0301-620X.100B2.BJJ-2017-0531.R2.CrossRefPubMed

40.

Torchia MT, Amakiri I, Werth P, et al. Characterization of native knee microorganisms using next-generation sequencing in patients undergoing primary total knee arthroplasty. Knee. 2020;27:1113–9. https://doi.org/10.1016/j.knee.2019.12.013.CrossRefPubMed

41.

Goggin KP, Gonzalez-Pena V, Inaba Y, et al. Evaluation of plasma microbial cell-free DNA sequencing to predict bloodstream infection in pediatric patients with relapsed or refractory cancer. JAMA Oncol. 2020;6(4):552–6. https://doi.org/10.1001/jamaoncol.2019.4120.CrossRefPubMed

42.

Eichenberger EM, de Vries CR, Ruffin F, et al. Microbial cell-free DNA identifies etiology of bloodstream infections, persists longer than conventional blood cultures, and its duration of detection is associated with metastatic infection in patients with staphylococcus aureus and gram-negative bacteremia. Clinic Infect Dis. 2022;74(11):2020–7. https://doi.org/10.1093/cid/ciab742.CrossRef

43.

Gosiewski T, Ludwig-Galezowska AH, Huminska K, et al. Comprehensive detection and identification of bacterial DNA in the blood of patients with sepsis and healthy volunteers using next-generation sequencing method-the observation of DNAemia. Eur J Clin Microbiol Infect Dis. 2017;36(2):329–36. https://doi.org/10.1007/s10096-016-2805-7.CrossRefPubMed

44.

Grumaz S, Grumaz C, Vainshtein Y, et al. Enhanced performance of next-generation sequencing diagnostics compared with standard of care microbiological diagnostics in patients suffering from septic shock. Crit Care Med. 2019;47:e394-402. https://doi.org/10.1097/CCM.0000000000003658.CrossRefPubMedPubMedCentral

45.

Zhang HC, Ai JW, Cui P, et al. Incremental value of metagenomic next generation sequencing for the diagnosis of suspected focal infection in adults. J Infect. 2019;79:419–25.CrossRefPubMed

46.

Hong DK, Blauwkamp TA, Kertesz M, et al. Liquid biopsy for infectious diseases: sequencing of cell-free plasma to detect pathogen DNA in patients with invasive fungal disease. Diagn Microbiol Infect Dis. 2018;92(3):210–3. https://doi.org/10.1016/j.diagmicrobio.2018.06.009.CrossRefPubMed

47.

Armstrong AE, Rossoff J, Hollemon D, et al. Cell-free DNA next-generation sequencing successfully detects infectious pathogens in pediatric oncology and hematopoietic stem cell transplant patients at risk for invasive fungal disease. Pediatr Blood Cancer. 2019;66: e27734. https://doi.org/10.1002/pbc.27734.CrossRefPubMed

48.

Yan L, Sun W, Lu Z, et al. Metagenomic next-generation Sequencing (mNGS) in cerebrospinal fluid for rapid diagnosis of tuberculosis meningitis in HIV-negative population. Int J Infect Dis. 2020;96:270–5. https://doi.org/10.1016/j.ijid.2020.04.048.CrossRefPubMed

49.

Fung M, Zompi S, Seng H, et al. Plasma cell-free DNA next-generation sequencing to diagnose and monitor infections in allogeneic hematopoietic stem cell transplant patients. Open Forum Infect Dis. 2018;5:ofy301. https://doi.org/10.1093/ofid/ofy301.CrossRefPubMedPubMedCentral

50.

Zhou Y, Hemmige V, Dalai SC, et al. Utility of whole-genome next-generation sequencing of plasma in identifying opportunistic infections in HIV/AIDS. Open AIDS J. 2019;13:7–11.CrossRef

51.

Chen S, Kang Y, Li D, et al. Diagnostic performance of metagenomic next-generation sequencing for the detection of pathogens in bronchoalveolar lavage fluid in patients with pulmonary infections: systematic review and meta-analysis. Int J Infect Dis. 2022;122:867–73. https://doi.org/10.1016/j.ijid.2022.07.054.CrossRefPubMed

52.

Tekin A, Truong HH, Rovati L, et al. The diagnostic accuracy of metagenomic next-generation sequencing in diagnosing pneumocystis pneumonia: a systemic review and meta-analysis. Open Forum Infect Dis. 2023;10(9):442. https://doi.org/10.1093/ofid/ofad442.CrossRef

53.

Qu C, Chen Y, Ouyang Y, et al. Metagenomics next-generation sequencing for the diagnosis of central nervous system infection: a systematic review and meta-analysis. Front Neurol. 2022;13: 989280. https://doi.org/10.3389/fneur.2022.989280.CrossRefPubMedPubMedCentral

54.

Kanaujia R, Biswal M, Angrup A, et al. Diagnostic accuracy of the metagenomic next-generation sequencing (mNGS) for detection of bacterial meningoencephalitis: a systematic review and meta-analysis. Eur J Clin Microbiol Infect Dis. 2022;41(6):881–91. https://doi.org/10.1007/s10096-022-04445-0.CrossRefPubMed

55.

Yu G, Zhao W, Shen Y, et al. Metagenomic next generation sequencing for the diagnosis of tuberculosis meningitis: a systematic review and meta-analysis. PLoS ONE. 2020;15(12): e0243161. https://doi.org/10.1371/journal.pone.0243161.CrossRefPubMedPubMedCentral

56.

Li M, Zeng Y, Wu Y, et al. Performance of sequencing assays in diagnosis of prosthetic joint infection: a systematic review and meta-analysis. J Arthroplasty. 2019;34(7):1514-1522.e4. https://doi.org/10.1016/j.arth.2019.02.044.CrossRefPubMed

57.

Tan J, Liu Y, Ehnert S, et al. The effectiveness of metagenomic next-generation sequencing in the diagnosis of prosthetic joint infection: a systematic review and meta-analysis. Front Cell Infect Microbiol. 2022;12: 875822. https://doi.org/10.3389/fcimb.2022.875822.CrossRefPubMedPubMedCentral

58.

Tang Y, Zhao D, Wang S, et al. Diagnostic value of next-generation sequencing in periprosthetic joint infection: a systematic review. Orthop Surg. 2022;14(2):190–8. https://doi.org/10.1111/os.13191.CrossRefPubMed

59.

Cheok T, Smith T, Siddiquee S, et al. Synovial fluid calprotectin performs better than synovial fluid polymerase chain reaction and interleukin-6 in the diagnosis of periprosthetic joint infection : a systematic review and meta-analysis. Bone Joint J. 2022;104(3):311–20. https://doi.org/10.1302/0301-620X.104B3.BJJ-2021-1320.R1.CrossRefPubMed

60.

Hantouly AT, Alzobi O, Toubasi AA, et al. Higher sensitivity and accuracy of synovial next-generation sequencing in comparison to culture in diagnosing periprosthetic joint infection: a systematic review and meta-analysis. Knee Surg Sports Traumatol Arthrosc. 2023;31(9):3672–83. https://doi.org/10.1007/s00167-022-07196-9.CrossRefPubMed

61.

Aromataris E, Fernandez R, Godfrey CM, et al. Summarizing systematic reviews: methodological development, conduct and reporting of an umbrella review approach. Int J Evid Based Healthc. 2015;13(3):132–40. https://doi.org/10.1097/XEB.0000000000000055.CrossRefPubMed

62.

Gates M, Gates A, Pieper D, et al. Reporting guideline for overviews of reviews of healthcare interventions: development of the PRIOR statement. BMJ. 2022;9(378): e070849. https://doi.org/10.1136/bmj-2022-070849.CrossRef

63.

Liberati A, Altman DG, Tetzlaff J, et al. The PRISMA statement for reporting systematic reviews and meta-analyses of studies that evaluate healthcare interventions: explanation and elaboration. BMJ. 2009;21(339): b2700. https://doi.org/10.1136/bmj.b2700.CrossRef

64.

Whiting P, Savović J, Higgins JP, et al. A new tool to assess risk of bias in systematic reviews was developed. J Clin Epidemiol. 2016;69:225–34. https://doi.org/10.1016/j.jclinepi.2015.06.005.CrossRefPubMedPubMedCentral

65.

Huan T, Yang L, An P, et al. Interpretation of quality evaluation tool AMSTAR 2 for systematic evaluation of randomized and nonrandomized preventive studies. Chin J Evid-Based Med. 2018;18(01):101–8. https://doi.org/10.7507/1672-2531.201711005.CrossRef

66.

Zhang F, Shen A, Zeng X, et al. Interpretation of systematic evaluation methodology quality evaluation tool AMSTAR 2. Chin J Evid-Based Cardiovasc Med. 2018;10(01):14–8. https://doi.org/10.3969/j.issn.1674-4055.2018.01.03.CrossRef

67.

Shea BJ, Reeves BC, Wells G, et al. AMSTAR 2: a critical appraisal tool for systematic reviews that include randomised or non-randomised studies of healthcare interventions, or both. BMJ. 2017;358: j4008. https://doi.org/10.1136/bmj.j4008.CrossRefPubMedPubMedCentral

68.

Hultcrantz M, Mustafa RA, Leeflang MMG, et al. Defining ranges for certainty ratings of diagnostic accuracy: a GRADE concept paper. J Clin Epidemiol. 2020;117:138–48. https://doi.org/10.1016/j.jclinepi.2019.05.002.CrossRefPubMed

69.

Guyatt G, Oxman AD, Akl EA, et al. GRADE guidelines: 1. Introduction-GRADE evidence profiles and summary of findings tables. J Clin Epidemiol. 2011;64(4):383–94. https://doi.org/10.1016/j.jclinepi.2010.04.026.CrossRefPubMed

70.

Honghao L, Qiuyu Y, Mingyao S, et al. Advance in the GRADE approach to grade evidence from a systematic review of single diagnostic test accuracy. Chin J Evid Based Med. 2022;22(9):1090–8. https://doi.org/10.1007/s00259-022-05769-x.CrossRef

71.

Atkins D, Best D, Briss PA, et al. Grading quality of evidence and strength of recommendations. BMJ. 2004;328(7454):1490. https://doi.org/10.1136/bmj.328.7454.1490.CrossRefPubMed

72.

Liu J, Zhang Q, Dong YQ, et al. Diagnostic accuracy of metagenomic next-generation sequencing in diagnosing infectious diseases: a meta-analysis. Sci Rep. 2022;12(1):21032. https://doi.org/10.1038/s41598-022-25314-y.CrossRefPubMedPubMedCentral

73.

Whiting PF, Rutjes AW, Westwood ME, et al. QUADAS-2: a revised tool for the quality assessment of diagnostic accuracy studies. Ann Intern Med. 2011;155(8):529–36. https://doi.org/10.7326/0003-4819-155-8-201110180-00009.CrossRefPubMed

74.

Lv M, Zhu C, Zhu C, et al. Clinical values of metagenomic next-generation sequencing in patients with severe pneumonia: a systematic review and meta-analysis. Front Cell Infect Microbiol. 2023;13:1106859. https://doi.org/10.3389/fcimb.2023.1106859.CrossRefPubMedPubMedCentral

75.

The Editor Board of Chinese Journal of Infectious Diseases. Expert consensus on the clinical application of metagenomics next-generation sequencing on pathogen detection of infectious diseases. Chin J Infect Dis. 2020;38(11):681–9.

76.

Clinical Microbiology Group of Chinese Society of Laboratory Medicine, Clinical Microbiology Group of Chinese Society of Microbiology and Immunology, and Society of Clinical Microbiology and Infection of China International Exchange and Promotion Association for Medical and Healthcare. Expert consensus on metagenomics next-generation sequencing application on pathogen detection of infectious diseases. Chin J Lab Med. 2021; 44(2):107–20.

77.

The Society of Pediatrics of Chinese Medical Association, the Editor Board of Chinese Journal of Pediatrics. The Expert consensus on clinical of invasive pulmonary fungal infections in children. Chin J Pediatr. 2022;60(4):274–82. https://doi.org/10.3760/cma.j.cn112140-20220210-00112.CrossRef

78.

Infectious Disease Group of Respiratory Disease Branch of Chinese Medical Association. Guidelines for the diagnostic and treatment of adults with hospital-acquired pneumonia and ventilator-associated pneumonia in China. Chin J Tuberc Respir Dis. 2018;41(4):255–78.

79.

The Subspecialty Group of Neurology of the Society of Pediatrics of Chinese Medical Association. Expert consensus on diagnosis and treatment of community acquired bacterial meningitis in children. Chin J Pediatr. 2019;57(8):584–291. https://doi.org/10.3760/cma.j.issn.0578-1310.2019.08.003.CrossRef

80.

Brown JR, Bharucha T, Breuer J. Encephalitis diagnosis using metagenomics: application of next generation sequencing for undiagnosed cases. J Infect. 2018;76(3):225–40. https://doi.org/10.1016/j.jinf.2017.12.014.CrossRefPubMedPubMedCentral

81.

Kato H, Hagihara M, Asai N, et al. Comparison of microbial detection rates in microbial culture methods versus next-generation sequencing in patients with prosthetic joint infection: a systematic review and meta-analysis. J Orthop Surg Res. 2023;18(1):604. https://doi.org/10.1186/s13018-023-03973-5.CrossRefPubMedPubMedCentral

82.

Lee RA, Al Dhaheri F, Pollock NR, et al. Assessment of the clinical utility of plasma metagenomic next-generation sequencing in a pediatric hospital population. J Clin Microbiol. 2020;58(7):e00419-420. https://doi.org/10.1128/JCM.00419-20.CrossRefPubMedPubMedCentral

83.

Rossoff J, Chaudhury S, Soneji M, et al. Noninvasive diagnosis of infection using plasma next-generation sequencing: a single-center experience. Open Forum Infect Dis. 2019;6:327. https://doi.org/10.1093/ofid/ofz327.CrossRef

84.

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):239–45. https://doi.org/10.1093/cid/ciaa035.CrossRefPubMed

85.

Xu C, Chen X, Zhu G, et al. Utility of plasma cell-free DNA next-generation sequencing for diagnosis of infectious diseases in patients with hematological disorders. J Infect. 2023;86(1):14–23. https://doi.org/10.1016/j.jinf.2022.11.020.CrossRefPubMed

86.

87.

NCT05290454: https://clinicaltrials.gov/study/NCT05290454. Accessed 15 Nov 2023.

88.

NCT05979350: https://clinicaltrials.gov/study/NCT05979350. Accessed 15 Nov 2023.

89.

NCT03884881: https://clinicaltrials.gov/study/NCT03884881. Accessed 15 Nov 2023.

90.

NCT04946682 https://clinicaltrials.gov/study/NCT04946682. Accessed 15 Nov 2023.

91.

Brenner T, Skarabis A, Stevens P, et al. Optimization of sepsis therapy based on patient-specific digital precision diagnostics using next generation sequencing (DigiSep-Trial)-study protocol for a randomized, controlled, interventional, open-label, multicenter trial. Trials. 2021;22(1):714. https://doi.org/10.1186/s13063-021-05667-x.CrossRefPubMedPubMedCentral

92.

NCT05887037 https://clinicaltrials.gov/study/NCT05887037. Accessed 15 Nov 2023.

93.

Perry R, Whitmarsh A, Leach V, et al. A comparison of two assessment tools used in overviews of systematic reviews: ROBIS versus AMSTAR-2. Syst Rev. 2021;10(1):273. https://doi.org/10.1186/s13643-021-01819-x.CrossRefPubMedPubMedCentral

94.

Pieper D, Puljak L, González-Lorenzo M, et al. Minor differences were found between AMSTAR 2 and ROBIS in the assessment of systematic reviews including both randomized and nonrandomized studies. J Clin Epidemiol. 2019;108:26–33. https://doi.org/10.1016/j.jclinepi.2018.12.004.CrossRefPubMed

95.

Agudelo-Pérez S, Fernández-Sarmiento J, Rivera León D, et al. Metagenomics by next-generation sequencing (mNGS) in the etiological characterization of neonatal and pediatric sepsis: a systematic review. Front Pediatr. 2023;30(11):1011723. https://doi.org/10.3389/fped.2023.1011723.CrossRef

96.

Szlachta-McGinn A, Douglass KM, Chung UYR, et al. Molecular diagnostic methods versus conventional urine culture for diagnosis and treatment of urinary tract infection: a systematic review and meta-analysis. Eur Urol Open Sci. 2022;44:113–24. https://doi.org/10.1016/j.euros.2022.08.009.CrossRefPubMedPubMedCentral

97.

Haddad SF, DeSimone DC, Chesdachai S, et al. Utility of metagenomic next-generation sequencing in infective endocarditis: a systematic review. Antibiotics (Basel). 2022;11(12):1798. https://doi.org/10.3390/antibiotics11121798.CrossRefPubMed

Title: An umbrella review of the diagnostic value of next-generation sequencing in infectious diseases
Authors: Hong Cao
Yan Chen
Long Ge
Joey Sum-wing Kwong
Honghao Lai
Fangfang Hu
Rui Zhang
Huaye Zhao
Linfang Hu
Rui He
Wenyi Zheng
Jiaxing Zhang
Publication date: 03-04-2024
Publisher: Springer International Publishing
Keywords: Joint Infection
Meningitis
Meningoencephalitis
Published in: International Journal of Clinical Pharmacy
Print ISSN: 2210-7703
Electronic ISSN: 2210-7711
DOI: https://doi.org/10.1007/s11096-024-01704-2

Obesity Clinical Trial Summary

At a glance: The STEP trials

A round-up of the STEP phase 3 clinical trials evaluating semaglutide for weight loss in people with overweight or obesity.

Developed by: Springer Medicine

Highlights from the ACC 2024 Congress

Year in Review: Pediatric cardiology

Pediatric Cardiology Video

Watch Dr. Anne Marie Valente present the last year's highlights in pediatric and congenital heart disease in the official ACC.24 Year in Review session.

Year in Review: Pulmonary vascular disease

Cardiopulmonary Comorbidity Video

The last year's highlights in pulmonary vascular disease are presented by Dr. Jane Leopold in this official video from ACC.24.

Year in Review: Valvular heart disease

Valvular Heart Disease Video

Watch Prof. William Zoghbi present the last year's highlights in valvular heart disease from the official ACC.24 Year in Review session.

Year in Review: Heart failure and cardiomyopathies

Heart Failure Video

Watch this official video from ACC.24. Dr. Biykem Bozkurt discuss last year's major advances in heart failure and cardiomyopathies.

ACC 2024 Congress Coverage

Year in Review: Heart failure and cardiomyopathies

Heart Failure Video

Watch this official video from ACC.24. Dr. Biykem Bozkurt discuss last year's major advances in heart failure and cardiomyopathies.

Watch now

Semaglutide benefits people with type 2 diabetes and obesity-related heart failure

16-04-2024 Type 2 Diabetes News

Incentivised to exercise

11-04-2024 Lifestyle Modifications News

New intervention for STEMI-related cardiogenic shock

10-04-2024 Myocardial Infarction News

» View more highlights on the ACC 2024 congress hub page

Image Credits

STEP AAG HeroTeaserCollection image/© Tarek / Generated with AI / Stock.adobe.com, ACC 2024 Pediatric and Congenital Heart Disease: Year in Review/© 2024 American College of Cardiology, ACC 2024 Pulmonary Vascular Disease: Year in Review/© 2024 American College of Cardiology, ACC 2024 Valvular Heart Disease: Year in Review/© 2024 American College of Cardiology, ACC 2024 HF and Cardiomyopathies: Year in Review/© 2024 American College of Cardiology, Woman out walking/© Seventyfour / stock.adobe.com (symbolic image with model), Woman checking smartwatch /© saltdium / stock.adobe.com (symbolic image with model), Cardiac catheterization/© Damian / stock.adobe.com