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Next-generation sequencing as an advanced supplementary tool for the diagnosis of pathogens in lower respiratory tract infections: An observational trial in Xi'an, China

  • Authors:
    • Jie Shao
    • Amira Hassouna
    • Yaqin Wang
    • Ruirui Zhang
    • Lifang Zhen
    • Ruidan Li
    • Mingli Chen
    • Chengjie Liu
    • Xiangye Wang
    • Mingming Zhang
    • Peng Wang
    • Shenghua Yuan
    • Jie Chen
    • Jun Lu
  • View Affiliations / Copyright

    Affiliations: Norinco 521 Hospital, Xi'an, Shaanxi 710065, P.R. China, School of Public Health and Interdisciplinary Studies, Faculty of Health and Environmental Sciences, Auckland University of Technology, Auckland 0622, New Zealand, Guangzhou Sagene Biotech Co., Ltd., Guangzhou, Guangdong 510320, P.R. China
    Copyright: © Shao et al. This is an open access article distributed under the terms of Creative Commons Attribution License.
  • Article Number: 14
    |
    Published online on: December 28, 2021
       https://doi.org/10.3892/br.2021.1497
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Abstract

The application of next‑generation sequencing (NGS) in routine clinical analysis is still limited. The significance of NGS in the identification of pathogens of lower respiratory tract infection should be assessed as part of routine clinical bacterial examinations and chest imaging results. In the present study, the alveolar lavage fluid samples of 30 patients (25 males and 5 females, aged 19‑92 years old, with a median age of 62) were examined by routine bacterial culture and NGS, and the results of pathogen detection and identification were compared. Chest imaging showed consolidation in all 30 patients (100%), and pleural effusion in 13 of the 30 patients (43.33%). The routine bacterial culture of the lavage solution was only positive in 14 of the 30 patients (46.6%), and negative in 16 patients (53.33%). However, the positive rate of NGS test results of the lavage fluid was 100%. A total of 12 cases (40%) were completely consistent with the routine bacterial culture test, with 56 other pathogens of mixed infection detected, accounting for the short comings of the routine bacterial examination. Although NGS cannot distinguish between live and dead bacteria, it is still a useful detection technology for accurate diagnosis of clinical infectious diseases. It is worthy of adaptation in the clinic for more effective clinical management and treatment of the lower respiratory airway infection in addition to the routine bacterial culture testing.
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1 

Walker CLF, Rudan I, Liu L, Nair H, Theodoratou E, Bhutta ZA, O'Brien KL, Campbell H and Black RE: Global burden of childhood Pneumonia and Diarrhoea. Lancet. 381:1405–1416. 2013.PubMed/NCBI View Article : Google Scholar

2 

Reza MB, Lotfian F, Aghahosseini F, Cheraghvandi A, Khalilzadeh S, Farjah A and Boloursaz M: Epidemiology of lower respiratory tract infections in children. J Compr Ped. 3:93–98. 2013.

3 

GBD 2015 LRI Collaborators. Estimates of the global, regional, and national morbidity, mortality, and aetiologies of lower respiratory tract infections in 195 countries: A systematic analysis for the Global Burden of Disease Study 2015. Lancet Infect Dis. 17:1133–1161. 2017.PubMed/NCBI View Article : Google Scholar

4 

Mahendra M, Jayaraj BS, Lokesh KS, Chaya SK, Veerapaneni VV, Limaye S, Dhar R, Swarnakar R, Ambalkar S and Mahesh PA: Antibiotic prescription, organisms and Its resistance pattern in patients admitted to respiratory ICU with respiratory infection in Mysuru. Indian J Crit Care Med. 22:223–230. 2018.PubMed/NCBI View Article : Google Scholar

5 

Trenholme AA, Byrnes CA, McBride C, Lennon DR, Chan-Mow F, Vogel AM, Stewart JM and Percival T: Respiratory health outcomes 1 year after admission with severe lower respiratory tract infection. Pediatr Pulmonol. 48:772–779. 2013.PubMed/NCBI View Article : Google Scholar

6 

Nathan AM, The CSJ, Eg KP, Jabar KA, Zaki R, Hng SY, Thavagnanam S and de Bruyne JA: Respiratory sequelae and quality of life in children one-year after being admitted with a lower respiratory tract infection: A prospective cohort study from a developing country. Pediatr Pulmonol. 55:407–417. 2019.PubMed/NCBI View Article : Google Scholar

7 

Worrall G: Bronchiolitis. Can Fam Physician. 54:742–743. 2008.PubMed/NCBI

8 

World Health Organization (WHO): The top ten cause of death factsheet. WHO, Geneva, 2020. http://www.who.int/mediacentre/factsheets/fs310/en/index.html. Accessed December 9, 2020.

9 

Welte T, Torres A and Nathwani D: Clinical and economic burden of community-acquired pneumonia among adults in Europe. Thorax. 67:71–79. 2011.PubMed/NCBI View Article : Google Scholar

10 

Mani CS and Murray DL: Acute pneumonia and its complications. Prin Prac Ped Inf Dis. 235–245. e4. 2012.

11 

Jain S, Self WH, Wunderink RG, Fakhran S, Balk R, Bramley AM, Reed C, Grijalva CG, Anderson EJ, Courtney DM, et al: Community-acquired pneumonia requiring hospitalization among U.S. adults. N Engl J Med. 373:415–427. 2015.PubMed/NCBI View Article : Google Scholar

12 

Gadsby NJ, Russell CD, McHugh MP, Mark H, Conway Morris A, Laurenson IF, Hill AT and Templeton KE: Comprehensive molecular testing for respiratory pathogens in community-acquired pneumonia. Clin Infect Dis. 62:817–823. 2016.PubMed/NCBI View Article : Google Scholar

13 

American Thoracic Society, Infectious Disease Society of America. Guidelines for the management of adults with hospital-acquired, ventilator-associated, and healthcare-associated pneumonia. Am J Respir Crit Cre Med. 171:388–416. 2005.PubMed/NCBI View Article : Google Scholar

14 

Mandell LA, Bartlett JG, Dowell SF, File TM Jr, Musher DM and Whitney C: Infectious diseases society of America. Update of practice guidelines for the management of community-acquired pneumonia in immunocompetent adults. Clin Infect Dis. 37:1405–1433. 2003.PubMed/NCBI View Article : Google Scholar

15 

Takeuchi S, Kawada JI, Horiba K, Okuno Y, Okumura T, Suzuki T, Torii Y, Kawabe S, Wada S, Ikeyama T and Ito Y: Metagenomic analysis using next-generation sequencing of pathogens in bronchoalveolar lavage fluid from pediatric patients with respiratory failure. Sci Rep. 9(12909)2019.PubMed/NCBI View Article : Google Scholar

16 

Hohenthal U, Itala M, Salonen J, Sipila J, Rantakokko-Jalava K, Meurman O, Nikoskelainen J, Vainionpaa R and Kotilainen P: Bronchoalveolar lavage in immunocompromised patients with haematological malignancy-value of new microbiological methods. Eur J Haematol. 74:203–211. 2005.PubMed/NCBI View Article : Google Scholar

17 

Bewig B, Haacke TC, Tiroke A, Bastian A, Böttcher H, Hirt SW, Rautenberg P and Haverich A: Detection of CMV pneumonitis after lung transplantation using PCR of DNA from bronchoalveolar lavage cells. Respiration. 67:166–172. 2000.PubMed/NCBI View Article : Google Scholar

18 

Nadimpalli S, Foca M, Satwani P, Sulis ML, Constantinescu A and Saiman L: Diagnostic yield of bronchoalveolar lavage in immunocompromised children with malignant and non-malignant disorders. Pediatr Pulmonol. 52:820–826. 2017.PubMed/NCBI View Article : Google Scholar

19 

Rao U, Piccin A, Malone A, O'Hanlon K, Breatnach F, O'Meara A, McDermott M, Butler K, O'Sullivan N, Russell J, et al: Utility of bronchoalveolar lavage in the diagnosis of pulmonary infection in children with haematological malignancies. Ir J Med Sci. 182:177–183. 2012.PubMed/NCBI View Article : Google Scholar

20 

Efrati O, Gonik U, Bielorai B, Modan-Moses D, Neumann Y, Szeinberg A, Vardi A, Barak A, Paret G and Toren A: Fiberoptic bronchoscopy and bronchoalveolar lavage for the evaluation of pulmonary disease in children with primary immunodeficiency and cancer. Pediatr Blood Cancer. 48:324–329. 2007.PubMed/NCBI View Article : Google Scholar

21 

Harris AM, Hicks LA and Qaseem A: High Value Care Task Force of the American College of Physicians and for the Centers for Disease Control and Prevention. Appropriate antibiotic use for acute respiratory tract infection in adults: Advice for high-value care from the American college of physicians and the centers for disease control and prevention. Ann Intern Med. 164:425–434. 2016.PubMed/NCBI View Article : Google Scholar

22 

Duan N, Du J, Huang C and Li H: Microbial distribution and antibiotic susceptibility of lower respiratory tract infections patients from pediatric ward, adult respiratory ward, and respiratory intensive care unit. Front Microbiol. 11(1480)2020.PubMed/NCBI View Article : Google Scholar

23 

Schlaberg R, Queen K, Simmon K, Tardif K, Stockmann C, Flygare S, Kennedy B, Voelkerding K, Bramley A, Zhang J, et al: Viral pathogen detection by metagenomics and pan-viral group polymerase chain reaction in children with pneumonia lacking identifiable etiology. J Infect Dis. 215:1407–1415. 2017.PubMed/NCBI View Article : Google Scholar

24 

Houldcroft CJ, Beale MA and Breuer J: Clinical and biological insights from viral genome sequencing. Nat Rev Microbiol. 15:183–192. 2017.PubMed/NCBI View Article : Google Scholar

25 

Wilson MR, Naccache SN, Samayoa E, Biagtan M, Bashir H, Yu G, Salamat SM, Somasekar S, Federman S, Miller S, et al: Actionable diagnosis of neuroleptospirosis by next-generation sequencing. N Engl J Med. 370:2408–2417. 2014.PubMed/NCBI View Article : Google Scholar

26 

Graf EH, Simmon KE, Tardif KD, Hymas W, Flygare S, Eilbeck K, Yandell M and Schlaberg R: Unbiased detection of respiratory viruses by use of RNA sequencing-based metagenomics: A systematic comparison to a commercial PCR panel. J Clin Microbiol. 54:1000–1007. 2016.PubMed/NCBI View Article : Google Scholar

27 

Thorburn F, Bennett S, Modha S, Murdoch D, Gunson R and Murcia PR: The use of next generation sequencing in the diagnosis and typing of respiratory infections. J Clin Virol. 69:96–100. 2015.PubMed/NCBI View Article : Google Scholar

28 

Kawada J, Okuno Y, Torii Y, Okada R, Hayano S, Ando S, Kamiya Y, Kojima S and Ito Y: Identification of viruses in cases of pediatric acute encephalitis and encephalopathy using next-generation sequencing. Sci Rep. 6(33452)2016.PubMed/NCBI View Article : Google Scholar

29 

Suzuki T, Kawada JI, Okuno Y, Hayano S, Horiba K, Torii Y, Takahashi Y, Umetsu S, Sogo T, Inui A and Ito Y: Comprehensive detection of viruses in pediatric patients with acute liver failure using next-generation sequencing. J Clin Virol. 96:67–72. 2017.PubMed/NCBI View Article : Google Scholar

30 

Horiba K, Kawada JI, Okuno Y, Tetsuka N, Suzuki T, Ando S, Kamiya Y, Torii Y, Yagi T, Takahashi Y and Ito Y: Comprehensive detection of pathogens in immunocompromised children with bloodstream infections by next-generation sequencing. Sci Rep. 8(3784)2018.PubMed/NCBI View Article : Google Scholar

31 

Takeuchi S, Kawada JI, Okuno Y, Horiba K, Suzuki T, Torii Y, Yasuda K, Numaguchi A, Kato T, Takahashi Y and Ito Y: Identification of potential pathogenic viruses in patients with acute myocarditis using next-generation sequencing. J Med Virol. 90:1814–1821. 2018.PubMed/NCBI View Article : Google Scholar

32 

Miao Q, Ma Y, Wang Q, Pan J, Zhang Y, Jin W, Yao Y, Su Y, Huang Y, Wang M, et al: Microbiological diagnostic performance of metagenomic next-generation sequencing when applied to clinical practice. Clin Infect Dis. 67 (Suppl 2):S231–S240. 2018.PubMed/NCBI View Article : Google Scholar

33 

Chinese Society of Laboratory Medicine. Expert consensus on the standardized management of bioinformatics analysis for the detection of pathogenic microorganisms in mNGS. Chin J Lab Med. 44:799–807. 2021.(In Chinese). DOI: 10.3760/cma.j.cn114452-20210322-00178.

34 

Lagier JC, Edouard S, Pagnier I, Mediannikov O, Drancourt M and Raoult D: Current and past strategies for bacterial culture in clinical microbiology. Clin Microbiol Rev. 28:208–236. 2015.PubMed/NCBI View Article : Google Scholar

35 

Zhang YL: Analysis of the distribution and drug resistance of pathogenic bacteria in hospitalized infected patients in our hospital from 2015 to 2018. Clin Res Pract. 4:123–125. 2019.(In Chinese). DOI: 10.19347/j.cnki.2096-1413.201927054.

36 

Li Y, Sun B, Tang X, Liu YL, He HY, Li XY, Wang R, Guo F and Tong ZH: Application of metagenomic next-generation sequencing for bronchoalveolar lavage diagnostics in critically ill patients. Eur J Clin Microbiol Infect Dis. 39:369–374. 2020.PubMed/NCBI View Article : Google Scholar

37 

Cummings LA, Hoogestraat DR, Rassoulian-Barrett SL, Rosenthal CA, Salipante SJ, Cookson BT and Hoffman NG: Comprehensive evaluation of complex polymicrobial specimens using next generation sequencing and standard microbiological culture. Sci Rep. 10(5446)2020.PubMed/NCBI View Article : Google Scholar

38 

Zhang P, Chen Y, Li S, Li C, Zhang S, Zheng W, Chen Y, Ma J, Zhang X, Huang Y and Liu S: Metagenomic next-generation sequencing for the clinical diagnosis and prognosis of acute respiratory distress syndrome caused by severe pneumonia: A retrospective study. PeerJ. 8(e9623)2020.PubMed/NCBI View Article : Google Scholar

39 

Leo S, Gaïa N, Ruppé E, Emonet S, Girard M, Lazarevic V and Schrenzel J: Detection of Bacterial Pathogens from Broncho-Alveolar Lavage by Next-Generation sequencing. Int J Mol Sci. 18(2011)2017.PubMed/NCBI View Article : Google Scholar

40 

Huang J, Jiang E, Yang D, Wei J, Zhao M, Feng J and Cao J: Metagenomic next-generation sequencing versus traditional pathogen detection in the diagnosis of peripheral pulmonary infectious lesions. Infect Drug Resist. 13:567–576. 2020.PubMed/NCBI View Article : Google Scholar

41 

Jianchao J, Jianmin J and Zi L: Value of metagenomics next generation sequencing to the diagnosis of fungal infection in patients with severe pneumonia. J Chin Pract Diagn. 34:1023–1025. 2020.DOI number DOI: 10.13507/j.issn.1674-3474.2020.10.014.

42 

Shiqing Y, Jie Y and Chaochao L: The diagnostic value of respiratory aetiology gene detection in pulmonary alveolar lavage fluid in refractory lower respiratory tract infection. Mod Med Health Res. 3:85–87. 2019.https://kns.cnki.net/kcms/detail/detail.aspx?dbcode=CJFD&dbname=CJFDLAST2020&filename=XYJD201914041&uniplatform=NZKPT&v=EvKaKS8OMLbeS66kDFO8oBsldHJlcHgi8g9rEE5vAb8-TbAWSaYLv7gz2muZlRdf.

43 

Xu A, Zhu H, Gao B, Weng H, Ding Z, Li M, Weng X and He G: Diagnosis of severe community-acquired pneumonia caused by Acinetobacter baumannii through next-generation sequencing: A case report. BMC Infect Dis. 20(45)2020.PubMed/NCBI View Article : Google Scholar

44 

Irinyi L, Hu Y, Hoang MTV, Pasic L, Halliday C, Jayawardena M, Basu I, McKinney W, Morris AJ, Rathjen J, et al: Long-read sequencing based clinical metagenomics for the detection and confirmation of Pneumocystis jirovecii directly from clinical specimens: A paradigm shift in mycological diagnostics. Med Mycol. 58:650–660. 2020.PubMed/NCBI View Article : Google Scholar

45 

McTaggart LR, Copeland JK, Surendra A, Wang PW, Husain S, Coburn B, Guttman DS and Kus JV: Mycobiome sequencing and analysis applied to fungal community profiling of the lower respiratory tract during fungal pathogenesis. Front Microbiol. 10(512)2019.PubMed/NCBI View Article : Google Scholar

46 

Chen X, Cao K, Wei Y, Qian Y, Liang J, Dong D, Tang J, Zhu Z, Gu Q and Yu W: Metagenomic next-generation sequencing in the diagnosis of severe pneumonias caused by Chlamydia psittaci. Infection. 48:535–542. 2020.PubMed/NCBI View Article : Google Scholar

47 

Wu X, Li Y, Zhang M, Li M, Zhang R, Lu X, Gao W and Li Q, Xia Y, Pan P and Li Q: Etiology of severe community-acquired pneumonia in adults based on metagenomic next-generation sequencing: A prospective multicenter study. Infect Dis Ther. 9:1003–1015. 2020.PubMed/NCBI View Article : Google Scholar

48 

Wang J, Han Y and Feng J: Metagenomic next-generation sequencing for mixed pulmonary infection diagnosis. BMC Pulm Med. 19(252)2019.PubMed/NCBI View Article : Google Scholar

49 

Fang X, Mei Q, Fan X, Zhu C, Yang T, Zhang L, Geng S and Pan A: Diagnostic value of metagenomic next-generation sequencing for the detection of pathogens in bronchoalveolar lavage fluid in ventilator-associated pneumonia patients. Front Microbiol. 11(599756)2020.PubMed/NCBI View Article : Google Scholar

50 

Xiao W, Han P, Xu Z and Huang M: Pulmonary scedosporiosis in a patient with acute hematopoietic failure: Diagnosis aided by next-generation sequencing. Int J Infect Dis. 85:114–116. 2019.PubMed/NCBI View Article : Google Scholar

51 

Liu S, Li Q, Chu X, Zeng M, Liu M, He X, Zou H, Zheng J, Corpe C, Zhang X, et al: Monitoring coronavirus disease 2019: A review of available diagnostic tools. Front Public Health. 9(672215)2021.PubMed/NCBI View Article : Google Scholar

52 

Kalantar KL, Moazed F, Christenson SC, Wilson J, Deiss T, Belzer A, Vessel K, Caldera S, Jauregui A, Bolourchi S, et al: Metagenomic comparison of tracheal aspirate and mini-bronchial alveolar lavage for assessment of respiratory microbiota. Am J Physiol Lung Cell Mol Physiol. 316:L578–L584. 2019.PubMed/NCBI View Article : Google Scholar

53 

Chen X, Ding S, Lei C, Qin J, Guo T, Yang D, Yang M, Qing J, He W, Song M, et al: Blood and bronchoalveolar lavage fluid metagenomic next-generation sequencing in pneumonia. Can J Infect Dis Med Microbiol. 2020(6839103)2020.PubMed/NCBI View Article : Google Scholar

54 

D'Cruz RJ, Currier AW and Sampson VB: Laboratory testing methods for novel severe acute respiratory syndrome-coronavirus-2 (SARS-CoV-2). Front Cell Dev Biol. 8(468)2020.PubMed/NCBI View Article : Google Scholar

55 

Hu Y, Chen T, Liu M, Zhang L, Wang F, Zhao S, Liu H, Xia H, Wang Y and Li L: Positive detection of SARS-CoV-2 combined HSV1 and HHV6B virus nucleic acid in tear and conjunctival secretions of a non-conjunctivitis COVID-19 patient with obstruction of common lacrimal duct. Acta Ophthalmol. 98:859–863. 2020.PubMed/NCBI View Article : Google Scholar

56 

Lin Y, Wang BX, Zhang NN, Zhang L, Gao ZB, Tian J and Jiang X: Metagenomic analysis identified Stenotrophomonas maltophilia pneumonia in an infant suffering from unexplained very severe pneumonia. Front Pediatr. 7(380)2019.PubMed/NCBI View Article : Google Scholar

57 

Yang Y, Hu X, Min L, Dong X and Guan Y: Balamuthia mandrillaris-related primary amoebic encephalitis in China diagnosed by next generation sequencing and a review of the literature. Lab Med. 51:e20–e26. 2020.PubMed/NCBI View Article : Google Scholar

58 

Li Y, Zang Y, Wang Y, Jin F and Liu W: Peripheral pulmonary nodule diagnosed as mycobacterium chelonae using electromagnetic navigation bronchoscopy combined with next generation sequencing: A case report. Am J Transl Res. 12:4066–4073. 2020.PubMed/NCBI

59 

Xu S, Dong L, Shi Y, Chen L, Yuan P, Wang S, Li Z, Sun Y, Han S, Yin J, et al: The novel landscape of long non-coding RNAs in response to human foamy virus infection characterized by RNA-Seq. AIDS Res Hum Retroviruses. 33:452–464. 2017.PubMed/NCBI View Article : Google Scholar

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Shao J, Hassouna A, Wang Y, Zhang R, Zhen L, Li R, Chen M, Liu C, Wang X, Zhang M, Zhang M, et al: Next-generation sequencing as an advanced supplementary tool for the diagnosis of pathogens in lower respiratory tract infections: An observational trial in Xi'an, China. Biomed Rep 16: 14, 2022.
APA
Shao, J., Hassouna, A., Wang, Y., Zhang, R., Zhen, L., Li, R. ... Lu, J. (2022). Next-generation sequencing as an advanced supplementary tool for the diagnosis of pathogens in lower respiratory tract infections: An observational trial in Xi'an, China. Biomedical Reports, 16, 14. https://doi.org/10.3892/br.2021.1497
MLA
Shao, J., Hassouna, A., Wang, Y., Zhang, R., Zhen, L., Li, R., Chen, M., Liu, C., Wang, X., Zhang, M., Wang, P., Yuan, S., Chen, J., Lu, J."Next-generation sequencing as an advanced supplementary tool for the diagnosis of pathogens in lower respiratory tract infections: An observational trial in Xi'an, China". Biomedical Reports 16.2 (2022): 14.
Chicago
Shao, J., Hassouna, A., Wang, Y., Zhang, R., Zhen, L., Li, R., Chen, M., Liu, C., Wang, X., Zhang, M., Wang, P., Yuan, S., Chen, J., Lu, J."Next-generation sequencing as an advanced supplementary tool for the diagnosis of pathogens in lower respiratory tract infections: An observational trial in Xi'an, China". Biomedical Reports 16, no. 2 (2022): 14. https://doi.org/10.3892/br.2021.1497
Copy and paste a formatted citation
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Spandidos Publications style
Shao J, Hassouna A, Wang Y, Zhang R, Zhen L, Li R, Chen M, Liu C, Wang X, Zhang M, Zhang M, et al: Next-generation sequencing as an advanced supplementary tool for the diagnosis of pathogens in lower respiratory tract infections: An observational trial in Xi'an, China. Biomed Rep 16: 14, 2022.
APA
Shao, J., Hassouna, A., Wang, Y., Zhang, R., Zhen, L., Li, R. ... Lu, J. (2022). Next-generation sequencing as an advanced supplementary tool for the diagnosis of pathogens in lower respiratory tract infections: An observational trial in Xi'an, China. Biomedical Reports, 16, 14. https://doi.org/10.3892/br.2021.1497
MLA
Shao, J., Hassouna, A., Wang, Y., Zhang, R., Zhen, L., Li, R., Chen, M., Liu, C., Wang, X., Zhang, M., Wang, P., Yuan, S., Chen, J., Lu, J."Next-generation sequencing as an advanced supplementary tool for the diagnosis of pathogens in lower respiratory tract infections: An observational trial in Xi'an, China". Biomedical Reports 16.2 (2022): 14.
Chicago
Shao, J., Hassouna, A., Wang, Y., Zhang, R., Zhen, L., Li, R., Chen, M., Liu, C., Wang, X., Zhang, M., Wang, P., Yuan, S., Chen, J., Lu, J."Next-generation sequencing as an advanced supplementary tool for the diagnosis of pathogens in lower respiratory tract infections: An observational trial in Xi'an, China". Biomedical Reports 16, no. 2 (2022): 14. https://doi.org/10.3892/br.2021.1497
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