Design and Validation of Multiplexed Respiratory RT-LAMP assay for the differentiation of SARS-CoV-2, Influenza A and Respiratory Syncytial Virus (RSV) in COVID-19 Pandemic Samples from Western Kenya.

@misc{greenlandbews2026design,
  title = {{Design and Validation of Multiplexed Respiratory RT-LAMP assay for the differentiation of SARS-CoV-2, Influenza A and Respiratory Syncytial Virus (RSV) in COVID-19 Pandemic Samples from Western Kenya.}},
  author = {C. Greenland-Bews and M. I. Suwara and I. A. P. Voto and S. Shah and M. Achieng and E. S. Badoum and H. C. Barsosio and H. Brazal-Monzo and J. Canizales and A. Drabko and L. Hannan and J.-M. T. Kabore and M. Lesosky and T. Marlais and J. Matthewman and I. Nebie and E. D. Onyango and A. Ouedraogo and K. Otieno and S. Serme and S. B. Sirima and B. I. Soulama and B. Tangara and A. B. Tiono and W. Wu and I. Soulama and M. Rehak and S. Kariuki and C. Drakeley and F. O. ter Kuile and D. J. Allen and E. R. Adams and E. A. Gillies and T. Edwards},
  howpublished = {medRxiv},
  year = {2026},
  month = nov,
  doi = {10.64898/2026.11.02.26366519},
  url = {https://www.medrxiv.org/content/10.64898/2026.11.02.26366519v1},
  note = {CC BY-NC},
}

TY  - UNPB
TI  - Design and Validation of Multiplexed Respiratory RT-LAMP assay for the differentiation of SARS-CoV-2, Influenza A and Respiratory Syncytial Virus (RSV) in COVID-19 Pandemic Samples from Western Kenya.
AU  - C. Greenland-Bews
AU  - M. I. Suwara
AU  - I. A. P. Voto
AU  - S. Shah
AU  - M. Achieng
AU  - E. S. Badoum
AU  - H. C. Barsosio
AU  - H. Brazal-Monzo
AU  - J. Canizales
AU  - A. Drabko
AU  - L. Hannan
AU  - J.-M. T. Kabore
AU  - M. Lesosky
AU  - T. Marlais
AU  - J. Matthewman
AU  - I. Nebie
AU  - E. D. Onyango
AU  - A. Ouedraogo
AU  - K. Otieno
AU  - S. Serme
AU  - S. B. Sirima
AU  - B. I. Soulama
AU  - B. Tangara
AU  - A. B. Tiono
AU  - W. Wu
AU  - I. Soulama
AU  - M. Rehak
AU  - S. Kariuki
AU  - C. Drakeley
AU  - F. O. ter Kuile
AU  - D. J. Allen
AU  - E. R. Adams
AU  - E. A. Gillies
AU  - T. Edwards
PY  - 2026
DA  - 2026/11/02
PB  - medRxiv
DO  - 10.64898/2026.11.02.26366519
UR  - https://www.medrxiv.org/content/10.64898/2026.11.02.26366519v1
AB  - The COVID-19 pandemic highlighted the importance of widespread, accessible viral surveillance to ensure pandemic-preparedness. The rapid diagnosis of respiratory infections is crucial not only for effective patient management but also to inform ongoing surveillance for the detection of outbreaks. Reverse transcriptase-Loop mediated isothermal amplification (RT-LAMP) assays are an attractive alternative to reverse transcriptase polymerase chain reaction (RT-PCR) for rapid, decentralised testing in resource limited settings due being rapid and low cost. Here we present the design and evaluation of a multiplexed RT-LAMP assay for the simultaneous detection of SARS-CoV-2, Influenza A and Respiratory Syncytial Virus via the incorporation of fluorescently labelled LAMP probes. Mid-nasal swabs collected from 175 participants on the day of enrolment in the MALCOV Cohort study in Kisumu, Kenya were used in the evaluation of the RT-LAMP assay. Overall, 114 SARS-CoV-2, six Influenza A, two Influenza B and zero RSV samples were identified in the cohort by the Allplex SARS-CoV-2/FluA/FluB/RSV RT-PCR kit (Seegene Inc) reference test, in addition to 53 negatives. Sensitivity and specificity of the RT-LAMP assay (SARS-CoV-2/FluA/RSV) when compared to RT-PCR was 82.64% [CI95%:74.70-88.92%] and 100% [CI95%:93.40-100%] at 40 minutes for all samples respectively. The mean time to a positive result was 11minutes, highlighting the speed of this technology compared to the more commonly used RT-PCR. RT-LAMP enables rapid multi-pathogen detection with comparable diagnostic accuracy to RT-PCR.
ER  -