Genomic analysis of SARS-COV2 using Biopython and Simplot comparison.

Document Type : Original Article

Authors

1 Microbiology and Biochemistry Department University of M’sila, Sciences Faculty, Algeria

2 Chemistry department University of M’sila, Sciences Faculty, Algeria

3 Institut PASTEUR Algérie, Annexe M’sila 28000, Alegria

4 Natural and Life Sciences Department University of M’sila, Sciences Faculty, Algeria

Abstract

The presented work case interests pairwise sequence alignment algorithms for two analysis cases. The first analysis is SARS-COV2 Omicron in Algerian compared to the neighbor countries using Global and local alignment algorithms, and the second compared coronaviruses from animal sources like Pangolin, Bat, Civet, and Camal, to predict its origin. Of course, with real applications and samples from GISAID, NCBI, and GenBank, and deal with them using the Biopython command line in the Colab platform. The presented work confirms that the local alignment algorithm for the spike region provides better family classification and grouping by matching score sorting. The identity percentage of SARS-COV-2 compared to animal coronaviruses published previously using Simplot software from other authors have wrong values and reviewed in the presented work with the right values using the Biopython library. A high matching score found in bats and pangolins confirms that the origin of SARS-COV-2 is from animal wildlife.

Keywords

Journal of Bioscience and Applied Research
Volume 10, Issue 6 - Serial Number 6
Special issue; SPBH-IC: Biomedical
December 2024
Pages 42-53

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