Utility of the biofire filmarray pneumonia panel plus assay for syndromic testing of lower-respiratory tract infections in a low-middle-income setting
type: CreativeWork
description: Background: Determining lower respiratory tract infection (LRTI) aetiology is complex. Culture-based methods are laborious with poor sensitivity. Molecular assays improve detection of potential pathogens, but incorrect interpretation of results may lead to inappropriate antimicrobial therapy. Methods: The utility of the BioFire® FilmArray® Pneumonia Panel plus (FA-PP) to detect LRTI pathogens, and the potential antimicrobial stewardship impacts in a low resource setting, was assessed. Routine LRT samples were included from adult patients with clinically suspected LRTI or with a concomitant blood culture at Groote Schuur Hospital and referring facilities. Culture and FA-PP results were compared, and pharmacy data analysed to determine appropriateness of antibiotic therapy. Results: There was an 80% correlation between cultured LRTI pathogens and the FA-PP bin ≥107 results. Compared to culture the FA-PP detected substantially more pathogens (86,6% versus 17,9%) and produced a combined 100% positive percent agreement, and 88% negative percent agreement. The FA-PP detected bacterial-viral coinfections in 27% of samples. Correlation of FA-PP results with pharmacy data (n=69) indicated a potential antibiotic change in 75% of cases, but this is difficult to accurately characterise without a ‘gold-standard' for treatment or complete clinical data. Conclusion: The FA-PP increased the number of positive samples with typical bacteria, but the semi-quantitative reporting algorithm does not describe the correlation between the different bin values and colonization versus infection. This complicates result interpretation and may lead to inappropriate antimicrobial treatment. This study highlights the potential positive impact of rapid molecular assays for routine care in lower income settings, but also underscores the interpretive challenges associated with these tests.
abstract: Background: Determining lower respiratory tract infection (LRTI) aetiology is complex. Culture-based methods are laborious with poor sensitivity. Molecular assays improve detection of potential pathogens, but incorrect interpretation of results may lead to inappropriate antimicrobial therapy. Methods: The utility of the BioFire® FilmArray® Pneumonia Panel plus (FA-PP) to detect LRTI pathogens, and the potential antimicrobial stewardship impacts in a low resource setting, was assessed. Routine LRT samples were included from adult patients with clinically suspected LRTI or with a concomitant blood culture at Groote Schuur Hospital and referring facilities. Culture and FA-PP results were compared, and pharmacy data analysed to determine appropriateness of antibiotic therapy. Results: There was an 80% correlation between cultured LRTI pathogens and the FA-PP bin ≥107 results. Compared to culture the FA-PP detected substantially more pathogens (86,6% versus 17,9%) and produced a combined 100% positive percent agreement, and 88% negative percent agreement. The FA-PP detected bacterial-viral coinfections in 27% of samples. Correlation of FA-PP results with pharmacy data (n=69) indicated a potential antibiotic change in 75% of cases, but this is difficult to accurately characterise without a ‘gold-standard' for treatment or complete clinical data. Conclusion: The FA-PP increased the number of positive samples with typical bacteria, but the semi-quantitative reporting algorithm does not describe the correlation between the different bin values and colonization versus infection. This complicates result interpretation and may lead to inappropriate antimicrobial treatment. This study highlights the potential positive impact of rapid molecular assays for routine care in lower income settings, but also underscores the interpretive challenges associated with these tests.
author: Van Der Westhuyzen, Mene
language: en
keywords: Syndromic testing
date published: 2025
date modified: 2026-07-22T22:23:29Z
provider: University of Cape Town
publisher: Networked Digital Library of Theses and Dissertations
type: WebPage
source organization: Department of Pathology

PropertyValue
property ID: Handle
value: http://hdl.handle.net/11427/41980