Exploring the genetic diversity of the 3' untranslated region (UTR) of Dengue virus.

IF 4 3区医学 Q2 VIROLOGY

Virology Journal Pub Date : 2025-06-18 DOI:10.1186/s12985-025-02800-z

Alessandra Lo Presti, Arnold Knijn, Enrico Palermo, Alessandra D'Auria, Miriana Quaranta, Stefano Pascarella, Federica Frasca, Carolina Scagnolari

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引用次数: 0

Abstract

Background: Dengue virus (DENV), with its four antigenically distinct serotypes, is the etiological agent of dengue fever, which is endemic in tropical and subtropical regions but has recently spread to previously non-endemic areas such as Europe. Given the growing body of evidence suggesting that sequence diversification in the 3' UTR of DENV contributes to its epidemiological fitness and host adaptation, we conducted phylogenetic and genetic diversity analyses on four DENV 3' UTR datasets (DENV-1, DENV-2, DENV-3 and DENV-4).

Methods: A maximum likelihood phylogenetic analysis was performed using IQ-TREE, and the average evolutionary divergence was estimated using MEGA X. Maximum likelihood analysis combined with genetic distance calculations provided insight into the evolutionary dynamics of the DENV 3' UTR.

Results: A higher number of supported internal clusters/clades were found in the DENV-2 and DENV-1 3' UTR trees, probably indicating strains with similar evolutionary histories. In terms of cluster composition, apart from a general mixing of DENV 3' UTR sequences from different sites and years, the majority of supported internal clusters were composed of sequences aggregated according to their location. Genetic distances showed that the DENV-1 3' UTR has a higher variability (5%) compared to DENV-2 (3%), DENV-3 and DENV-4 (2%). The average length of the 3' UTR, as estimated from our datasets, showed that it was longest in DENV-2, followed by DENV-3, DENV-1 and DENV-4.

Conclusions: In conclusion, this study provided a comprehensive analysis of 3' UTR evolution and phylogenies in all four DENV serotypes, suggesting that this viral genomic sequence is subject to genetic variability and length changes.

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登革病毒3′非翻译区（UTR）遗传多样性的探讨。

背景：登革热病毒（DENV）具有四种抗原性不同的血清型，是登革热的病原，登革热在热带和亚热带地区流行，但最近已蔓延到以前非流行地区，如欧洲。鉴于越来越多的证据表明，DENV的3′UTR序列多样化有助于其流行病学适应性和宿主适应性，我们对DENV的4个3′UTR数据集（DENV-1、DENV-2、DENV-3和DENV-4）进行了系统发育和遗传多样性分析。方法：利用IQ-TREE进行最大似然系统发育分析，利用MEGA x估计平均进化分歧，最大似然分析结合遗传距离计算，深入了解denv3 ' UTR的进化动力学。结果：DENV-2和DENV-1 3' UTR树中支持的内部簇/枝数量较多，可能表明菌株具有相似的进化历史。在聚类组成方面，除了来自不同地点和年份的DENV 3' UTR序列普遍混合外，大多数支持的内部聚类都是由根据位置聚集的序列组成的。遗传距离表明，与DENV-2（3%）、DENV-3和DENV-4（2%）相比，DENV-1 3' UTR具有更高的变异性（5%）。3′UTR的平均长度在DENV-2中最长，其次是DENV-3、DENV-1和DENV-4。结论：本研究全面分析了DENV所有4种血清型的3′UTR进化和系统发育，表明该病毒基因组序列受遗传变异性和长度变化的影响。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

Virology Journal 医学-病毒学

CiteScore

7.40

自引率

2.10%

发文量

186

审稿时长

1 months

期刊介绍： Virology Journal is an open access, peer reviewed journal that considers articles on all aspects of virology, including research on the viruses of animals, plants and microbes. The journal welcomes basic research as well as pre-clinical and clinical studies of novel diagnostic tools, vaccines and anti-viral therapies. The Editorial policy of Virology Journal is to publish all research which is assessed by peer reviewers to be a coherent and sound addition to the scientific literature, and puts less emphasis on interest levels or perceived impact.