Constraint of Base Pairing on HDV Genome Evolution

Overview

Journal Viruses

Publisher MDPI

Specialty Microbiology

Date 2021 Dec 28

PMID 34960619

Citations 1

Authors

Saki Nagata

Ryoji Kiyohara

Hiroyuki Toh

Affiliations

Soon will be listed here.

Abstract

The hepatitis delta virus is a single-stranded circular RNA virus, which is characterized by high self-complementarity. About 70% of the genome sequences can form base-pairs with internal nucleotides. There are many studies on the evolution of the hepatitis delta virus. However, the secondary structure has not been taken into account in these studies. In this study, we developed a method to examine the effect of base pairing as a constraint on the nucleotide substitutions during the evolution of the hepatitis delta virus. The method revealed that the base pairing can reduce the evolutionary rate in the non-coding region of the virus. In addition, it is suggested that the non-coding nucleotides without base pairing may be under some constraint, and that the intensity of the constraint is weaker than that by the base pairing but stronger than that on the synonymous site.

Citing Articles

Genetic Spatio-Temporal Analysis of Hepatitis D Virus Infection in Western Brazilian Amazon.

Roca T, Queiroz J, Passos-Silva A, Araujo A, Lago B, Mello F Viruses. 2024; 16(11).

PMID: 39599805 PMC: 11598896. DOI: 10.3390/v16111690.

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