Dataset Genotypic diversity DENV-2 [67]

Genotypic diversity and molecular characterization of DENV-2 in a Peruvian endemic region from 2016 to 2022: displacement of American/Asian genotypeABSTRACTBackground: Dengue is a serious and lethal disease in the Asian and Latin American tropical and subtropical regions. It is a serious public health problem in Peru due to its hyperendemic nature as serotype 2 (DENV-2), aside from being the most prevalent serotype, causes the most serious clinical manifestations of the disease. This study focuses on the molecular characterization and intraserotypic diversity analysis of the DENV-2 that circulates in the endemic region of Cajamarca.Methods: Thirty-nine hundred sixty-seven (3,967) blood serum samples of patients with acute febrile illness (AFI) were analyzed between 2016 and 2022 to detect DENV and DENV-2 through real-time RT-PCR technique, and the viral envelope (E) gene was then sequenced by the Sanger method. Finally, the reconstruction of the phylogeny was performed using the maximum likelihood method."Results: Thirty-two (32) complete sequences of gene E were obtained in total, and the phylogenetic and characterization analysis of the amino acid sequence revealed that, during the 2016-2022 period, two DENV-2 genotypes, i.e., the Am/As genotype and the cosmopolitan genotype in their lineages 2 and C, respectively, circulated.Conclusion: Likewise, our findings showed that every studied outbreak was characterized by novel autochthonous variants in the case of the Am/As genotype and by an imported variant in the case of the cosmopolitan genotype; this, therefore, shows a temporal distribution of the intraserotypic variability that denotes the Am/As genotype displacement around 2021 and the rooting of the cosmopolitan genotype. The need of a constant genetic or genomic surveillance of the cosmopolitan virus arises in order to understand its distribution and diversification patterns in Peru.

2016至2022年秘鲁流行地区登革病毒2型（DENV-2）的基因型多样性与分子特征研究——美洲/亚洲基因型的取代现象
摘要
背景：登革热是亚洲及拉丁美洲热带、亚热带地区的一种危重致死性传染病。在秘鲁，登革热因血清型2（DENV-2）的高度地方性流行而成为重大公共卫生问题；该血清型不仅是流行率最高的登革病毒血清型，还可引发该疾病最严重的临床症状。本研究针对卡哈马卡流行地区循环的登革病毒2型（DENV-2），开展分子特征分析与型内多样性研究。
方法：2016至2022年间，共纳入3967例急性发热疾病（acute febrile illness, AFI）患者的血清样本，通过实时逆转录聚合酶链反应（real-time RT-PCR）技术检测登革病毒及DENV-2；随后采用桑格（Sanger）测序法对病毒包膜（envelope, E）基因进行测序。最终使用最大似然法（maximum likelihood）构建系统发育树。
结果：共计获得32条完整的E基因序列。对氨基酸序列的系统发育与特征分析显示，2016-2022年期间，当地循环的DENV-2存在两种基因型，分别为美洲/亚洲（American/Asian, Am/As）基因型以及世界性（cosmopolitan）基因型，二者对应的谱系分别为谱系2与谱系C。
结论：本研究结果同时显示，本次研究覆盖的每一次暴发均具有特征性：美洲/亚洲基因型以新型本土变异株为主，而世界性基因型则以输入性变异株为主。上述结果表明，DENV-2的型内变异呈现时间分布特征：美洲/亚洲基因型于2021年左右发生取代，世界性基因型则在秘鲁实现本地化定植。因此，需对该世界性基因型病毒开展持续的基因或基因组监测，以明确其在秘鲁的传播与多样化模式。