College of Veterinary Medicine, Northwest A&F University, Yangling, 712100, Shaanxi, People's Republic of China.
Department of Microbiology, Faculty of Life Sciences, University of Central Punjab, Johar Town, Lahore, 54000, Pakistan.
Arch Virol. 2024 Aug 24;169(9):186. doi: 10.1007/s00705-024-06113-4.
NADC34-like porcine reproductive and respiratory syndrome virus (PRRSV) employs complex strategies to synthesize subgenomic RNAs (sgRNAs); however, their plasticity and temporal dynamics remain largely unexplored. Using next-generation sequencing (NGS), we examined the high-resolution landscape of the PRRSV subgenome, highlighting considerable heterogeneity in temporal kinetics and transcriptional control and revealing extensive coordination between TRS-dependent and TRS-independent sgRNAs. In addition, a comprehensive re-annotation of transcription regulatory sequence (TRS) locations was conducted, clarifying that their usage involved canonical, alternative, and non-canonical splicing events for annotated genes. These insights emphasize that the coding of genetic material in PRRSV is far more intricate than previously anticipated. Collectively, the altered sgRNA phenotype offers distinctive insights into PRRSV transcription and gives additional impetus for mining the functional short- and long-range RNA-RNA interactome at active viral replication sites.
NADC34 样猪繁殖与呼吸综合征病毒（PRRSV）采用复杂的策略来合成亚基因组 RNA（sgRNA）；然而，它们的可塑性和时间动态仍然在很大程度上未被探索。使用下一代测序（NGS），我们检查了 PRRSV 亚基因组的高分辨率图谱，突出了时间动力学和转录控制的相当大的异质性，并揭示了 TRS 依赖性和 TRS 非依赖性 sgRNA 之间的广泛协调。此外，对转录调节序列（TRS）位置进行了全面的重新注释，阐明了它们的使用涉及到注释基因的典型、替代和非典型剪接事件。这些见解强调了 PRRSV 遗传物质的编码比以前预期的要复杂得多。总的来说，改变的 sgRNA 表型为 PRRSV 的转录提供了独特的见解，并为挖掘活跃病毒复制部位的功能短程和长程 RNA-RNA 相互作用组提供了额外的动力。
