Circulating Lineage 3 Recombination with NADC30-Like and NADC34-Like Betaarterivirus suid 2 in Taiwan

IF 3.5 2区农林科学 Q2 INFECTIOUS DISEASES

Transboundary and Emerging Diseases Pub Date : 2024-06-14 DOI:10.1155/2024/6682052

Chi-Fen Lee, Yen-Chen Chang, Hui-Wen Chang

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Abstract

Porcine respiratory and reproductive syndrome (PRRS) caused by Betaarterivirus suid leads to severe economic losses. The emergence of highly pathogenic Betaarterivirus suid 2 (PRRSV-II), such as NADC30 and NADC34, has been reported in the USA and several Asian countries. NADC30-like PRRSV-II was first reported in 2018 in Taiwan. To investigate the PRRSV variants currently circulating in Taiwan, sequences covering ORF2-5 of Taiwan PRRSV isolates collected between 2020 and 2023 were analyzed. Phylogenetic analysis of the ORF5 nucleotide sequence indicated that most of the Taiwan isolates were clustered in lineage 3 and three isolates were grouped in lineage 1 and were closely related to the NADC34 strain. Interestingly, these three NADC34-like Taiwan PRRSV isolates carried amino acid deletions similar to NADC30 and were more closely related to NADC30 strains than the NADC34 strains in the Nsp2 gene. Next-generation sequencing and recombination detection program showed potential recombination of lineage 3 with NADC30- and NADC34-like PRRSV-II. Our results suggest the presence of circulating mosaic recombinants and lineage 3 PRRSV-II in Taiwan during 2020 and 2023.

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台湾的循环系3与NADC30-Like和NADC34-Like Betaterivirus suid 2重组

由 Betaarterivirus suid 引起的猪呼吸与繁殖综合征（PRRS）会导致严重的经济损失。据报道，美国和一些亚洲国家出现了高致病性Betaarterivirus suid 2（PRRSV-II），如NADC30和NADC34。2018 年，台湾首次报道了 NADC30-like PRRSV-II。为了研究目前在台湾流行的PRRSV变种，我们分析了2020年至2023年间收集的台湾PRRSV分离株的ORF2-5序列。ORF5核苷酸序列的系统进化分析表明，大多数台湾分离株被归入第3系，3个分离株被归入第1系，与NADC34株关系密切。有趣的是，这三个类似 NADC34 的台湾 PRRSV 分离物带有与 NADC30 相似的氨基酸缺失，在 Nsp2 基因上与 NADC30 株系的亲缘关系比 NADC34 株系更近。下一代测序和重组检测程序显示，3系可能与NADC30和NADC34-like PRRSV-II重组。我们的研究结果表明，在 2020 年和 2023 年期间，台湾存在循环的马赛克重组株和 3 系 PRRSV-II。

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来源期刊

Transboundary and Emerging Diseases 农林科学-传染病学

CiteScore

8.90

自引率

9.30%

发文量

350

审稿时长

1 months

期刊介绍： Transboundary and Emerging Diseases brings together in one place the latest research on infectious diseases considered to hold the greatest economic threat to animals and humans worldwide. The journal provides a venue for global research on their diagnosis, prevention and management, and for papers on public health, pathogenesis, epidemiology, statistical modeling, diagnostics, biosecurity issues, genomics, vaccine development and rapid communication of new outbreaks. Papers should include timely research approaches using state-of-the-art technologies. The editors encourage papers adopting a science-based approach on socio-economic and environmental factors influencing the management of the bio-security threat posed by these diseases, including risk analysis and disease spread modeling. Preference will be given to communications focusing on novel science-based approaches to controlling transboundary and emerging diseases. The following topics are generally considered out-of-scope, but decisions are made on a case-by-case basis (for example, studies on cryptic wildlife populations, and those on potential species extinctions): Pathogen discovery: a common pathogen newly recognised in a specific country, or a new pathogen or genetic sequence for which there is little context about — or insights regarding — its emergence or spread. Prevalence estimation surveys and risk factor studies based on survey (rather than longitudinal) methodology, except when such studies are unique. Surveys of knowledge, attitudes and practices are within scope. Diagnostic test development if not accompanied by robust sensitivity and specificity estimation from field studies. Studies focused only on laboratory methods in which relevance to disease emergence and spread is not obvious or can not be inferred (“pure research” type studies). Narrative literature reviews which do not generate new knowledge. Systematic and scoping reviews, and meta-analyses are within scope.