Comparison of performance between Fast Track Diagnostics Respiratory Kit and the CDC global reference laboratory for influenza rRT‐PCR panel for detection of influenza A and influenza B

Abstract

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Changes in Prevalence and Seasonality of Pathogens Identified in Acute Respiratory Tract Infections in Hospitalised Individuals in Rural and Urban Settings in South Africa; 2018–2022

“…Once the lockdown was lifted, a delayed RSV outbreak occurred in May 2020. Other countries in Africa, such as Burkina Faso, reported the detection of influenza in different months compared to South Africa, affecting mostly children and correlating to the Northern Hemisphere influenza season [ 31 ]. Influenza A is seeded every year from the Northern Hemisphere in South Africa and usually starts in May and carries on through the winter season [ 32 ].…”

Patterns of Non‐influenza Respiratory Viruses Among Severe Acute Respiratory Infection Cases in Burkina Faso: A Surveillance Study

“…In addition, for each patient, nasopharyngeal (NP) and oropharyngeal (OP) specimens were collected within 24 h of hospitalization and placed into a tube of Universal Transport Media (Copan Diagnostics). Specimens were immediately refrigerated at 2–8°C for temporary storage and subsequently shipped to the NIRL within 72 h after collection, aliquoted for testing or long‐term storage in minus 80°C freezers [ 7 ].…”

“…The detailed laboratory work was described elsewhere [ 7 ]. Briefly, total nucleic acid (TNA) was extracted from 400 μL of Universal Transport Media that contained the specimens and was eluted into 110 μL using the EZ1 Advanced XL Instrument with the EZ1 Mini Viral 2.0 Kit (Qiagen) following the manufacturer's instructions.…”

“…Briefly, total nucleic acid (TNA) was extracted from 400 μL of Universal Transport Media that contained the specimens and was eluted into 110 μL using the EZ1 Advanced XL Instrument with the EZ1 Mini Viral 2.0 Kit (Qiagen) following the manufacturer's instructions. The extracts were screened for the detection of respiratory pathogens using the Fast Track Diagnostics 33 (FTD‐33) reverse‐transcriptase real‐time polymerase chain reactions (rRT‐PCR) kits [ 7 , 23 ]. The kits were used for the detection of the following respiratory viruses, bacteria, and fungi: influenza A , influenza A subtype A(H1N1)pdm09, influenza B , and influenza C ; parainfluenza viruses 1, 2, 3, and 4; coronaviruses NL63, 229E, OC43, and HKU1; human metapneumoviruses A and B; rhinovirus; respiratory syncytial viruses A and B; adenovirus; enterovirus; parechovirus; bocavirus; Pneumocystis jirovecii ; Mycoplasma pneumoniae ; Chlamydia pneumoniae ; Streptococcus pneumoniae ; Haemophilus influenzae ; H. influenzae type B; Staphylococcus aureus ; Moraxella catarrhalis ; Bordetella species (excluding Bordetella parapertussis ); Klebsiella pneumoniae ; Legionella species; and Salmonella species following the manufacturer's instructions [ 24 ].…”

“…Viral infections are major causes of SARI in sub‐Saharan Africa, but the responsibility of viruses other than influenza remains poorly documented despite that influenza causes only 20% of these infections [ 7 , 8 , 9 , 10 ]. A study in China showed that in addition to influenza A and B viruses, other viruses such as the human respiratory syncytial viruses (hRSV), enteroviruses (EnV), human metapneumovirus (hMPV), rhinovirus (hRV), adenovirus, and parainfluenza virus (hPIV) types 1–4 were also commonly causing severe respiratory infections [ 11 ].…”