Relative synonymous codon usage of ORF1ab in SARS-CoV-2 and SARS-CoV.
Genes Genomics
; 43(11): 1351-1359, 2021 11.
Article
in English
| MEDLINE | ID: covidwho-1296973
ABSTRACT
BACKGROUND:
COVID-19, as a novel coronavirus disease caused by new coronavirus SARS-CoV-2, spreads all over the world, and brings harm to human in many countries. Humans suffered a lot from both SARS-CoV-2 now and by SARS-CoV in the year 2003. It is important to understand the differences and the relationships between these two types of viruses.OBJECTIVE:
To compare relative synonymous codon usage of ORF1ab gene in SARS-CoV-2 and SARS-CoV, relative synonymous codon usage of their genomes are studied in this paper from the bioinformatics perspective.METHODS:
The ORF1ab gene, which is an important non-structural polyprotein coding gene and now used for nucleic acid detection markers in many measurement method, in both SARS-CoV-2 (30 strains) and SARS-CoV (20 strains) are considered to be the research object in the present paper. The relative synonymous codon usage values of the ORF1ab gene are calculated to characterize the differences and the evolutionary characteristics among 50 strains.RESULTS:
There is a significant difference between SARS-CoV and SARS-CoV-2 when the relative synonymous codon usage value of ORF1ab genes is concerned. The results suggest that codon usage pattern of SARS-CoV is more similar to human than that of the SARS-CoV-2, and that the inner difference in SARS-CoV-2 strains is larger than that of SARS-CoV, which denote the larger diversity exits in the SARS-CoV-2 virus.CONCLUSION:
These results show that the relative synonymous codon usage values in the coronavirus could be used for further research on their evolutionary phenomenon.Keywords
Full text:
Available
Collection:
International databases
Database:
MEDLINE
Main subject:
Viral Proteins
/
Polyproteins
/
Severe acute respiratory syndrome-related coronavirus
/
Codon Usage
/
SARS-CoV-2
Type of study:
Randomized controlled trials
Limits:
Humans
Language:
English
Journal:
Genes Genomics
Year:
2021
Document Type:
Article
Affiliation country:
S13258-021-01136-6
Similar
MEDLINE
...
LILACS
LIS