Next Article in Journal
Enhanced Resorption of Liposomal Packed Vitamin C Monitored by Ultrasound
Next Article in Special Issue
Estimating the Risk of COVID-19 Death during the Course of the Outbreak in Korea, February–May 2020
Previous Article in Journal
Analysis of Usage Data from a Self-Guided App-Based Virtual Reality Cognitive Behavior Therapy for Acrophobia: A Randomized Controlled Trial
Previous Article in Special Issue
The COVID-19 Infection in Italy: A Statistical Study of an Abnormally Severe Disease
Open AccessArticle

Early Phylogenetic Diversification of SARS-CoV-2: Determination of Variants and the Effect on Epidemiology, Immunology, and Diagnostics

Department of Medical Sciences, Uppsala University, 752 36 Uppsala, Sweden
J. Clin. Med. 2020, 9(6), 1615; https://doi.org/10.3390/jcm9061615
Received: 24 April 2020 / Revised: 20 May 2020 / Accepted: 25 May 2020 / Published: 26 May 2020
The phylogenetic clustering of 95 SARS-CoV-2 sequences from the first 3 months of the pandemic reveals insights into the early evolution of the virus and gives first indications of how the variants are globally distributed. Variants might become a challenge in terms of diagnostics, immunology, and effectiveness of drugs. All available whole genome sequence data from the NCBI database (March 16, 2020) were phylogenetically analyzed, and gene prediction as well as analysis of selected variants were performed. Antigenic regions and the secondary protein structure were predicted for selected variants. While some clusters are presenting the same variant with 100% identical bases, other SARS-CoV-2 lineages show a beginning diversification and phylogenetic clustering due to base substitutions and deletions in the genomes. First molecular epidemiological investigations are possible with the results by adding metadata as travelling history to the presented data. The advantage of variants in source tracing can be a challenge in terms of virulence, immune response, and immunological memory. Variants of viruses often show differences in virulence or antigenicity. This must also be considered in decisions like herd immunity. Diagnostic methods might not work if the variations or deletions are in target regions for the detection of the pathogen. One base substitution was detected in a primer binding site. View Full-Text
Keywords: molecular epidemiology; SARS-CoV-2; COVID-19; virus variant detection molecular epidemiology; SARS-CoV-2; COVID-19; virus variant detection
Show Figures

Figure 1

MDPI and ACS Style

Kaden, R. Early Phylogenetic Diversification of SARS-CoV-2: Determination of Variants and the Effect on Epidemiology, Immunology, and Diagnostics. J. Clin. Med. 2020, 9, 1615.

Show more citation formats Show less citations formats
Note that from the first issue of 2016, MDPI journals use article numbers instead of page numbers. See further details here.

Article Access Map by Country/Region

1
Search more from Scilit
 
Search
Back to TopTop