Impact of BioFire FilmArray Multiplex PCR in the Detection of Microbial Agents causing Severe Acute Respiratory Infection in the COVID-19 Era: A Cross-sectional Study from a Tertiary Care Hospital in Central India
Introduction: Many viral and bacterial respiratory tract infections can present with respiratory signs and progress to complicated pneumonia. In the recent Coronavirus Disease2019 (COVID-19) pandemic, it is crucial to test all Severe Acute Respiratory Infection (SARI) patients for other microbial...
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JCDR Research and Publications Private Limited
2024-01-01
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| Online Access: | https://www.jcdr.net/articles/PDF/18972/65688_CE[Ra1]_F(IS)_QC(SHE_RDW_IS)_PF1(AG_DK)_PFA(AG_KM)_PN(KM).pdf |
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| author | Meena Mishra Pooja Shendre Neeta Gade Vishal Shete Soumyabrata Nag SM Vibha Dutta |
| author_facet | Meena Mishra Pooja Shendre Neeta Gade Vishal Shete Soumyabrata Nag SM Vibha Dutta |
| author_sort | Meena Mishra |
| collection | DOAJ |
| description | Introduction: Many viral and bacterial respiratory tract
infections can present with respiratory signs and progress to
complicated pneumonia. In the recent Coronavirus Disease2019 (COVID-19) pandemic, it is crucial to test all Severe
Acute Respiratory Infection (SARI) patients for other microbial
infections in addition to COVID-19, enabling timely diagnosis
and treatment to reduce morbidity and mortality. The automated
system, BioFire FilmArray, utilises multiplex Polymerase Chain
Reaction (PCR) to rapidly detect and identify multiple respiratory
pathogens, including selected Antimicrobial Resistance (AMR)
genes, within an hour.
Aim: To detect bacterial and/or viral pathogens associated with
hospitalised COVID-19-negative SARI patients using the BioFire
FilmArray Pneumonia Panel (BFPP).
Materials and Methods: This laboratory-based cross-sectional
study was conducted at All India Institute of Medical Sciences
(AIIMS), Nagpur, Maharashtra, India, from June 2020 to February
2021. Respiratory samples, such as sputum, tracheal aspirate,
Endotracheal (ET) secretions, and Bronchoalveolar Lavage
(BAL), were collected from COVID-19-negative hospitalised
SARI cases. A total of 81 patients were included in the study.
The samples were tested using the BFPP (multiplex PCR)
system and processed using conventional culture techniques.
Patient characteristics, clinical and laboratory investigation data,
and findings of respiratory viral and bacterial agents, as well as
antibiotic resistance genes detected by BioFire FilmArray, were
recorded using paper case reports. The data were collected and
analysed using Statistical Package for Social Sciences (SPSS)
software.
Results: Out of the 81 clinical samples processed, the BFPP
detected 168 bacterial and 18 viral pathogens. Bacterial-viral codetection was observed in 13 (16%) samples. Atypical bacteria
were detected in 3% of cases. Among the bacterial pathogens,
the AMR gene for New Delhi Metallo-beta-lactamases (NDM)
was detected in 42 (25.9%) cases, followed by CTX-M betalactamases, VIM, and the oxacillinase group of β-lactamases.
Conclusion: The BFPP test is a valuable tool for the rapid
detection of a wide range of pathogens, including associated
AMR genes, with high sensitivity and specificity. This can greatly
aid in treatment decisions. |
| first_indexed | 2024-03-08T12:24:00Z |
| format | Article |
| id | doaj.art-341e9f50c54e4929a5db64ed8f73df98 |
| institution | Directory Open Access Journal |
| issn | 2249-782X 0973-709X |
| language | English |
| last_indexed | 2024-03-08T12:24:00Z |
| publishDate | 2024-01-01 |
| publisher | JCDR Research and Publications Private Limited |
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| series | Journal of Clinical and Diagnostic Research |
| spelling | doaj.art-341e9f50c54e4929a5db64ed8f73df982024-01-22T11:56:02ZengJCDR Research and Publications Private LimitedJournal of Clinical and Diagnostic Research2249-782X0973-709X2024-01-011801061210.7860/JCDR/2024/65688.18972Impact of BioFire FilmArray Multiplex PCR in the Detection of Microbial Agents causing Severe Acute Respiratory Infection in the COVID-19 Era: A Cross-sectional Study from a Tertiary Care Hospital in Central IndiaMeena Mishra0Pooja Shendre1Neeta Gade2Vishal Shete3Soumyabrata Nag4SM Vibha Dutta5Professor and Head, Department of Microbiology, AIIMS, Nagpur, Maharashtra, India.Assistant Professor, Department of Microbiology, Goverment Medical College, Nagpur, Maharashtra, India.Associate Professor, Department of Microbiology, AIIMS, Nagpur, Maharashtra, India.Associate Professor, Department of Microbiology, AIIMS, Nagpur, Maharashtra, India.Associate Professor, Department of Microbiology, AIIMS, Nagpur, Maharashtra, India.Ex-Director and CEO, Director Secretariat, AIIMS, Nagpur, Maharashtra, India.Introduction: Many viral and bacterial respiratory tract infections can present with respiratory signs and progress to complicated pneumonia. In the recent Coronavirus Disease2019 (COVID-19) pandemic, it is crucial to test all Severe Acute Respiratory Infection (SARI) patients for other microbial infections in addition to COVID-19, enabling timely diagnosis and treatment to reduce morbidity and mortality. The automated system, BioFire FilmArray, utilises multiplex Polymerase Chain Reaction (PCR) to rapidly detect and identify multiple respiratory pathogens, including selected Antimicrobial Resistance (AMR) genes, within an hour. Aim: To detect bacterial and/or viral pathogens associated with hospitalised COVID-19-negative SARI patients using the BioFire FilmArray Pneumonia Panel (BFPP). Materials and Methods: This laboratory-based cross-sectional study was conducted at All India Institute of Medical Sciences (AIIMS), Nagpur, Maharashtra, India, from June 2020 to February 2021. Respiratory samples, such as sputum, tracheal aspirate, Endotracheal (ET) secretions, and Bronchoalveolar Lavage (BAL), were collected from COVID-19-negative hospitalised SARI cases. A total of 81 patients were included in the study. The samples were tested using the BFPP (multiplex PCR) system and processed using conventional culture techniques. Patient characteristics, clinical and laboratory investigation data, and findings of respiratory viral and bacterial agents, as well as antibiotic resistance genes detected by BioFire FilmArray, were recorded using paper case reports. The data were collected and analysed using Statistical Package for Social Sciences (SPSS) software. Results: Out of the 81 clinical samples processed, the BFPP detected 168 bacterial and 18 viral pathogens. Bacterial-viral codetection was observed in 13 (16%) samples. Atypical bacteria were detected in 3% of cases. Among the bacterial pathogens, the AMR gene for New Delhi Metallo-beta-lactamases (NDM) was detected in 42 (25.9%) cases, followed by CTX-M betalactamases, VIM, and the oxacillinase group of β-lactamases. Conclusion: The BFPP test is a valuable tool for the rapid detection of a wide range of pathogens, including associated AMR genes, with high sensitivity and specificity. This can greatly aid in treatment decisions.https://www.jcdr.net/articles/PDF/18972/65688_CE[Ra1]_F(IS)_QC(SHE_RDW_IS)_PF1(AG_DK)_PFA(AG_KM)_PN(KM).pdfantimicrobial drug resistanceco-infectionpolymerase chain reaction |
| spellingShingle | Meena Mishra Pooja Shendre Neeta Gade Vishal Shete Soumyabrata Nag SM Vibha Dutta Impact of BioFire FilmArray Multiplex PCR in the Detection of Microbial Agents causing Severe Acute Respiratory Infection in the COVID-19 Era: A Cross-sectional Study from a Tertiary Care Hospital in Central India Journal of Clinical and Diagnostic Research antimicrobial drug resistance co-infection polymerase chain reaction |
| title | Impact of BioFire FilmArray Multiplex PCR in the Detection of Microbial Agents causing Severe Acute Respiratory Infection in the COVID-19 Era: A Cross-sectional Study from a Tertiary Care Hospital in Central India |
| title_full | Impact of BioFire FilmArray Multiplex PCR in the Detection of Microbial Agents causing Severe Acute Respiratory Infection in the COVID-19 Era: A Cross-sectional Study from a Tertiary Care Hospital in Central India |
| title_fullStr | Impact of BioFire FilmArray Multiplex PCR in the Detection of Microbial Agents causing Severe Acute Respiratory Infection in the COVID-19 Era: A Cross-sectional Study from a Tertiary Care Hospital in Central India |
| title_full_unstemmed | Impact of BioFire FilmArray Multiplex PCR in the Detection of Microbial Agents causing Severe Acute Respiratory Infection in the COVID-19 Era: A Cross-sectional Study from a Tertiary Care Hospital in Central India |
| title_short | Impact of BioFire FilmArray Multiplex PCR in the Detection of Microbial Agents causing Severe Acute Respiratory Infection in the COVID-19 Era: A Cross-sectional Study from a Tertiary Care Hospital in Central India |
| title_sort | impact of biofire filmarray multiplex pcr in the detection of microbial agents causing severe acute respiratory infection in the covid 19 era a cross sectional study from a tertiary care hospital in central india |
| topic | antimicrobial drug resistance co-infection polymerase chain reaction |
| url | https://www.jcdr.net/articles/PDF/18972/65688_CE[Ra1]_F(IS)_QC(SHE_RDW_IS)_PF1(AG_DK)_PFA(AG_KM)_PN(KM).pdf |
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