Modification of Indonesian Kaolinite-Based Silica Coarse (SC) for RNA Extraction Method of SARS-CoV-2
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Keywords:
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SARS-CoV, Silica Matrix, Kaolinite, RNA Extraction Methods
Abstract
One of the strategies to overcome the COVID-19 disease is through rapid diagnostic tests using the Reverse-Transcriptase Polymerase Chain Reaction (RT-PCR) test. The RT-PCR test is a detection and quantification test of nucleic acids, initiated by the pre-analytical step of purification of the nucleic acids. Purification of nucleic acid requires silica-based materials as a solid phase-extraction matrix or column. Herein, Silica Coarse (SC) in the form of suspension and powder columns; was prepared from natural Indonesian Kaolinite as an alternative extraction column to binding RNA of SARS-CoV-2. The RNA binding and releasing ability in SC was enhanced with the support of chaotropic agents in the form of Na+ and Guanidium+ as charged balancing cations, embedded in the silicate layer inside the kaolinite framework. SC, which has been supported with Na+ and Guanidium+ respectively, then studied its physicochemical characteristics using FTIR spectroscopy, X-ray diffraction technique, scanning electron microscopy, and BET surface area and pore size measurement. This work shows that the modified SC suspension column could extract RNA of SARS-CoV-2 that amplified better in the RT PCR test than SC powder columns, with the initial Ct value of all the SARS-CoV-2 specimens in the range < 20.
References
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Margenot, A. J., F. J. Calderón, K. W. Goyne, F. N. Dmukome, and S. Parikh (2016). Ir Spectroscopy, Soil Analysis Applications. In Encyclopedia of Spectroscopy and Spectrometry. Elsevier, pages 448–454
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Oyebanjo, O., G. I. Ekosse, and J. Odiyo (2020). PhysicopChemical, Mineralogical, and Chemical Characterisation of Cretaceous–Paleogene/neogene Kaolins within Eastern Dahomey and Niger Delta Basins from Nigeria: Possible Industrial Applications. Minerals, 10(8); 670
Pegram, L. M., T. Wendorff, R. Erdmann, I. Shkel, D. Bellissimo, D. J. Felitsky, and M. T. Record Jr (2010). Why Hofmeister Effects of Many Salts Favor Protein Folding but Not DNA Helix Formation. Proceedings of the National Academy of Sciences, 107(17); 7716–7721
Phillips, M. C., D. Quintero, N. Wald-Dickler, P. Holtom, and S. M. Butler-Wu (2022). SARS-CoV-2 Cycle Threshold (Ct) Values predict Future COVID-19 Cases. Journal of Clinical Virology, 150; 105153
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Authors
Marintan, M. M. ., Sjatha, F. ., Nurani, D. A., Krisnandi, Y. K., & Sariman, S. . (2024). Modification of Indonesian Kaolinite-Based Silica Coarse (SC) for RNA Extraction Method of SARS-CoV-2. Science and Technology Indonesia, 9(2), 325–335. https://doi.org/10.26554/sti.2024.9.2.325-335
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