Unknown

Dataset Information

0

Detection of homologous recombination events in SARS-CoV-2.


ABSTRACT:

Purpose

The COVID-19 disease with acute respiratory symptoms emerged in 2019. The causal agent of the disease, the SARS-CoV-2 virus, is classified into the Betacoronaviruses family. Coronaviruses (CoVs) are a huge family of viruses. Therefore, homologous recombination studies can help recognize the phylogenetic relationships among these viruses.

Methods

In order to detect possible recombination events in SASRS-CoV-2, the genome sequences of Betacoronaviruses were obtained from the GenBank. The nucleotide sequences with the identity ≥ 60% to SARS-CoV-2 genome sequence were selected and then analyzed using different algorithms.

Results

The results showed two recombination events at the beginning and the end of the genome sequence of SARS-CoV-2. Bat-SL-CoVZC21 (GenBank accession number MG772934) was specified as the minor parent for both events with p-values of 8.66 × 10-87 and 3.29 × 10-48, respectively. Furthermore, two recombination regions were detected at the beginning and the middle of the SARS-CoV-2 spike gene. Pangolin-CoV (PCoV_GX-P4L) and Rattus CoV (ChRCoV-HKU24) were determined as the potential parents with the GenBank accession number MT040333 and KM349742, respectively. Analysis of the spike gene revealed more similarity and less nucleotide diversity between SARS-CoV-2 and pangolin-CoVs.

Conclusion

Detection of the ancestors of SARS-CoV-2 in the coronaviruses family can help identify and define the phylogenetic relationships of the family Coronaviridae. Furthermore, constructing a phylogenetic tree based on the recombination regions made changes in the phylogenetic relationships of Betacoronaviruses.

SUBMITTER: Lohrasbi-Nejad A 

PROVIDER: S-EPMC8761517 | biostudies-literature |

REPOSITORIES: biostudies-literature

Similar Datasets

| S-EPMC3792089 | biostudies-literature
| S-EPMC1310898 | biostudies-literature
2015-12-30 | GSE76395 | GEO
| S-EPMC10458065 | biostudies-literature
| S-SCDT-EMBOR-2020-51252V1 | biostudies-other
| S-EPMC4150228 | biostudies-literature
| S-EPMC2862710 | biostudies-literature
| S-EPMC4788294 | biostudies-literature
| S-EPMC10705160 | biostudies-literature
| S-EPMC7523100 | biostudies-literature