Validation of saline, PBS and a locally produced VTM at varying storage conditions to detect the SARS-CoV-2 virus by qRT-PCR

Ngetsa, C.; Osoti, V.; Okanda, D.; Marura, F.; Shah, K.; Karanja, H.; Mugo, D.; Gitonga, J.; Mutunga, M.; Lewa, C.; Orindi, B.; Bejon, P.; Ochola-Oyier, L. I.

doi:10.1101/2022.08.29.505649

bioRxiv · 10.1101/2022.08.29.505649

Validation of saline, PBS and a locally produced VTM at varying storage conditions to detect the SARS-CoV-2 virus by qRT-PCR

Ngetsa, C.·Osoti, V.·Okanda, D.·Marura, F.·Shah, K.·Karanja, H.·Mugo, D.·Gitonga, J.·Mutunga, M.·Lewa, C.·Orindi, B.·Bejon, P.·Ochola-Oyier, L. I.

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Abstract

Coronavirus Disease-2019 tests require a Nasopharyngeal (NP) and/or Oropharyngeal (OP) specimen from the upper airway, from which virus RNA is extracted and detected through quantitative reverse transcription-Polymerase Chain Reaction (qRT-PCR). The viability of the virus is maintained after collection by storing the NP/OP swabs in Viral Transport Media (VTM). We evaluated the performance of four transport media: locally manufactured ("REVITAL") Viral Transport Media (RVTM), Standard Universal Transport Media (SUTM), PBS and 0.9% (w/v) NaCl (normal saline). We used laboratory cultured virus to evaluate: i) viral recovery and maintaining integrity at different time periods and temperatures; ii) stability in yielding detectable RNA consistently for all time points and conditions; and iii) their overall accuracy. Four vials of SARS-CoV-2 cultured virus (2 high and 2 low concentration samples) and 1 negative control sample were prepared for each media type (SUTM, RVTM, PBS and normal saline) and stored at the following temperatures, -80{degrees}C, 4{degrees}C, room temperature (25{degrees}C) and 37{degrees}C for 7 days. Viral Ribonucleic acid (RNA) extractions and qRT-PCR were done on the following days after inoculation with the cultured virus, days 1, 2, 3, 4 and 7 to assess virus stability and viral recovery. CT values fell over time at room temperature, but normal saline, PBS, RVTM and SUTM all showed comparable performance in maintaining virus integrity and stability allowing for the detection of SARS-CoV-2 viral RNA. Overall, this study demonstrated that normal saline, PBS and the locally manufactured VTM can be used for COVID-19 sample collection and testing, thus expanding the range of SARS-CoV-2 viral collection media.

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Ngetsa, C., Osoti, V., Okanda, D., Marura, F., Shah, K., Karanja, H., Mugo, D., Gitonga, J., Mutunga, M., Lewa, C., Orindi, B., Bejon, P., Ochola-Oyier, L. I.. 2022-08-29. Validation of saline, PBS and a locally produced VTM at varying storage conditions to detect the SARS-CoV-2 virus by qRT-PCR. https://doi.org/10.1101/2022.08.29.505649

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