• Genome-wide analysis of codon...

Treffer: Genome-wide analysis of codon usage bias in Ascovirus: Insights into viral evolution and host adaptation.

Title:
Genome-wide analysis of codon usage bias in Ascovirus: Insights into viral evolution and host adaptation.
Authors:
Aktürk Dizman Y; Department of Biology, Faculty of Arts and Sciences, Recep Tayyip Erdoğan University, 53100, Rize, Türkiye. Electronic address: yesim.akturk@erdogan.edu.tr.
Source:
Microbial pathogenesis [Microb Pathog] 2025 Oct; Vol. 207, pp. 107892. Date of Electronic Publication: 2025 Jul 10.
Publication Type:
Journal Article
Language:
English
Journal Info:
Publisher: Academic Press Country of Publication: England NLM ID: 8606191 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1096-1208 (Electronic) Linking ISSN: 08824010 NLM ISO Abbreviation: Microb Pathog Subsets: MEDLINE
Imprint Name(s):
Original Publication: London ; Orlando : Academic Press, c1986-
MeSH Terms:
Codon Usage* , Genome, Viral* , Evolution, Molecular* , Ascoviridae*/genetics , Host Adaptation*/genetics, Base Composition ; Selection, Genetic ; Codon
Contributed Indexing:
Keywords: Ascoviridae; Ascovirus; Codon usage bias; Host adaptation; Mutation pressure
Substance Nomenclature:
0 (Codon)
Entry Date(s):
Date Created: 20250711 Date Completed: 20250810 Latest Revision: 20250810
Update Code:
20250811
DOI:
10.1016/j.micpath.2025.107892
PMID:
40645355
Database:
MEDLINE

Weitere Informationen

Ascoviruses are circular double-stranded DNA viruses that infect lepidopterans, producing large enveloped virions and causing a chronic, deadly disease with apoptosis-like cytopathology. Understanding the codon usage patterns of ascoviruses could shed light on host-virus interactions, evolutionary pressure, gene expression optimization. Nevertheless, thorough analyses of codon usage bias (CUB) within the genomes of Ascovirus (a genus in the Ascoviridae family) have yet to be conducted. Herein, a systematic analysis was performed to clarify the codon usage patterns in nine viruses of the Ascovirus genus, using their complete genomes. The results revealed a higher average nucleotide composition for A and T compared to G and C, with a preference for A/T nucleotides, particularly at the third codon position. Moreover, the results indicated that Ascovirus has a relatively low CUB. Dinucleotide composition significantly influences the codon usage patterns in Ascovirus. Further analyses, including ENC plot, neutrality plot, parity rule 2 (PR2) analysis, correspondence analysis, and correlation analysis, confirmed that mutational pressure had a more significant influence than natural selection in shaping codon usage. Codon adaptation index (CAI) analysis indicated that Ascovirus is strongly adapted to its hosts. The results of our study illustrated the codon usage patterns in Ascovirus genomes and provided essential primary data for foundational evolutionary research on these viruses.
(Copyright © 2025 Elsevier Ltd. All rights reserved.)

Declaration of competing interest The authors declare that they have no known competing financial interests or personal relationships that could have appeared to influence the work reported in this paper.