278
Views
10
CrossRef citations to date
0
Altmetric
Original Research

Detection of Viral and Bacterial Respiratory Pathogens Identified by Molecular Methods in COVID-19 Hospitalized Patients and Its Impact on Mortality and Unfavorable Outcomes

ORCID Icon, , , ORCID Icon, ORCID Icon, , ORCID Icon, , & ORCID Icon show all
Pages 2795-2807 | Published online: 21 Jul 2021

References

  • Tian S, Hu N, Lou J, et al. Characteristics of COVID-19 infection in Beijing. J Infect. 2020;80(4):401–406. doi:10.1016/j.jinf.2020.02.01832112886
  • Li L, Huang T, Wang Y, et al. COVID-19 patients’ clinical characteristics, discharge rate, and fatality rate of meta-analysis. J Med Virol. 2020;92(6):577–583. doi:10.1002/jmv.2575732162702
  • Zhou F, Yu T, Du R, et al. Clinical course and risk factors for mortality of adult inpatients with COVID-19 in Wuhan, China: a retrospective cohort study. The Lancet. 2020;395(10229):1054–1062. doi:10.1016/S0140-6736(20)30566-3
  • Jalili M, Payandemehr P, Saghaei A, Sari HN, Safikhani H, Kolivand P. Characteristics and mortality of hospitalized patients with COVID-19 in Iran: a national retrospective cohort study. Ann Intern Med. 2021;174(1):125–127. doi:10.7326/M20-2911.32687717
  • Mejía F, Medina C, Cornejo E, et al. Oxygen saturation as a predictor of mortality in hospitalized adult patients with COVID-19 in a public hospital in Lima, Peru. PLoS One. 2020;15(12):e0244171. doi:10.1371/journal.pone.024417133370364
  • Jordan RE, Adab P, Cheng KK. Covid-19: risk factors for severe disease and death. BMJ. 2020;368:m1198. doi:10.1136/bmj.m119832217618
  • Martin-Loeches I, Schultz MJ, Vincent JL, et al. Increased incidence of co-infection in critically ill patients with influenza. Intensive Care Med. 2017;43(1):48–58. doi:10.1007/s00134-016-4578-y27709265
  • Rudd JM, Ashar HK, Chow VT, Teluguakula N. Lethal synergism between influenza and Streptococcus pneumoniae. J Infect Pulm Dis. 2016;2(2). doi:10.16966/2470-3176.114.
  • Lansbury L, Lim B, Baskaran V, Lim WS. Co-infections in people with COVID-19: a systematic review and meta-analysis. J Infect. 2020;81(2):266–275. doi:10.1016/j.jinf.2020.05.04632473235
  • Frost I, Van Boeckel TP, Pires J, Craig J, Laxminarayan R. Global geographic trends in antimicrobial resistance: the role of international travel. J Travel Med. 2019;26(8):taz036. doi:10.1093/jtm/taz03631115466
  • Lee SH, Ruan SY, Pan SC, Lee TF, Chien JY, Hsueh PR. Performance of a multiplex PCR pneumonia panel for the identification of respiratory pathogens and the main determinants of resistance from the lower respiratory tract specimens of adult patients in intensive care units. J Microbiol Immunol Infect. 2019;52(6):920–928. doi:10.1016/j.jmii.2019.10.00931806539
  • Corman VM, Landt O, Kaiser M, et al. Detection of 2019 novel coronavirus (2019-nCoV) by real-time RT-PCR. Euro Surveill. 2020;25(3):2000045. doi:10.2807/1560-7917.ES.2020.25.3.2000045
  • Pan American Health Organization. Laboratory guidelines for detection and diagnosis of the novel coronavirus (2019-nCoV) infection. 2 1, 2020. Available from: https://iris.paho.org/bitstream/handle/10665.2/51895/ncov-lab-recommendations-en.pdf?sequence=1&isAllowed=y. Accessed 623, 2021.
  • Cilloniz C, Martin-Loeches I, Garcia-Vidal C, San Jose A, Torres A. Microbial etiology of pneumonia: epidemiology, diagnosis and resistance patterns. Int J Mol Sci. 2016;17(12):2120. doi:10.3390/ijms17122120
  • Kaku N, Hashiguchi K, Iwanaga Y, et al. Evaluation of FilmArray respiratory panel multiplex polymerase chain reaction assay for detection of pathogens in adult outpatients with acute respiratory tract infection. J Infect Chemother. 2018;24(9):734–738. doi:10.1016/j.jiac.2018.05.00629895452
  • Kolenda C, Ranc AG, Boisset S, et al. Assessment of respiratory bacterial coinfections among severe acute respiratory syndrome coronavirus 2-positive patients hospitalized in intensive care units using conventional culture and biofire, filmarray pneumonia panel plus assay. Open Forum Infect Dis. 2020;7(11):ofaa484. doi:10.1093/ofid/ofaa484.33204762
  • Xiong D, Muema C, Zhang X, et al. Enriched Opportunistic Pathogens Revealed by Metagenomic Sequencing Hint Potential Linkages between Pharyngeal Microbiota and COVID-19. Virol Sin. 2021:1–10. doi:10.1007/s12250-021-00391-x32720213
  • Barrasa H, Rello J, Tejada S, et al. SARS-Cov-2 in Spanish intensive care: early experience with 15-day survival in vitoria. Anaesth Crit Care Pain Med. 2020;39(5):553–561. doi:10.1016/j.accpm.2020.04.00132278670
  • Kim D, Quinn J, Pinsky B, Shah NH, Brown I. Rates of co-infection between SARS-CoV-2 and other respiratory pathogens. JAMA. 2020;323(20):2085–2086. doi:10.1001/jama.2020.626632293646
  • Nicastri E, Petrosillo N, Bartoli TA, et al. National institute for the infectious diseases “L. Spallanzani”, IRCCS. Recommendations for COVID-19 clinical management. Infect Dis Rep. 2020;12(1):3–9. doi:10.4081/idr.2020.8543
  • Li T. Diagnosis and clinical management of severe acute respiratory syndrome Coronavirus 2 (SARS-CoV-2) infection: an operational recommendation of Peking Union Medical College Hospital (V2.0). Emerg Microbes Infect. 2020;9(1):582–585. doi:10.1080/22221751.2020.173526532172669
  • Bhatraju PK, Ghassemieh BJ, Nichols M, et al. Covid-19 in critically ill patients in the seattle region - case series. N Engl J Med. 2020;382(21):2012–2022. doi:10.1056/NEJMoa200450032227758
  • Liu W, Tao ZW, Wang L, et al. Analysis of factors associated with disease outcomes in hospitalized patients with 2019 novel coronavirus disease. Chin Med J. 2020;133(9):1032–1038. doi:10.1097/CM9.000000000000077532118640
  • Resolución Ministerial N° 839-2020-MINSA [Internet]. Ministerio de Salud; 2020 [ cited February 16, 2021]. Available from: https://www.gob.pe/institucion/minsa/normas-legales/1264399-839-2020-minsa. Accessed 623, 2021.
  • Vásquez-Kunze S, Soto A, Indacochea-Cáceda S, Bisso-Andrade A. Guía rápida para la evaluación, diagnóstico y el manejo del paciente con COVID-19. 2020 [ cited February 16, 2021]. Available from: https://medicinainterna.net.pe/sites/default/files/Guia%20rapida%20COVID%2019%20V%203.0%20%289%20sept%29%20%20final.pdf. Accessed 623, 2021.
  • Ministerio de Salud y Protección Social. Lineamientos para el manejo clínico de pacientes con infección por nuevo Coronavirus COVID-19. 2020 [ cited February 16, 2021]. Available from: https://www.minsalud.gov.co/Ministerio/Institucional/Procesos%20y%20procedimientos/PSSS03.pdf.
  • Bhimraj A, Morgan RL, Shumaker AH, et al. COVID-19 guideline, part 1: treatment and management. 2020 [ cited February 16, 2021]. Available from: https://www.idsociety.org/practice-guideline/covid-19-guideline-treatment-and-management/. Accessed 623, 2021.
  • The National Institute for Health and Care Excellence. COVID-19 rapid guideline: antibiotics for pneumonia in adults in hospital [Internet]. NICE; 2020 [ cited February 16, 2021]. Available from: https://www.nice.org.uk/guidance/ng173. Accessed 623, 2021.