Analysis of 329,942 SARS-CoV-2 records retrieved from GISAID database.

ABSTRACT:

Background

The SARS-CoV-2 virus caused a worldwide pandemic - although none of its predecessors from the coronavirus family ever achieved such a scale. The key to understanding the global success of SARS-CoV-2 is hidden in its genome.

Materials and methods

We retrieved data for 329,942 SARS-CoV-2 records uploaded to the GISAID database from the beginning of the pandemic until the January 8, 2021. A Python variant detection script was developed to process the data using pairwise2 from the BioPython library. Sequence alignments were performed for every gene separately (except ORF1ab, which was not studied). Genomes less than 26,000 nucleotides long were excluded from the research. Clustering was performed using HDBScan.

Results

Here, we addressed the genetic variability

SUBMITTER: Zelenova M 

PROVIDER: S-EPMC8547852 | biostudies-literature | 2021 Dec

REPOSITORIES: biostudies-literature