National Mosquito-Borne Diseases Control Research Center, National Health Research Institutes, Tainan, Taiwan.
Department of Medical Laboratory Science and Biotechnology, National Cheng Kung University, Tainan, Taiwan.
J Virol Methods. 2019 Apr;266:95-102. doi: 10.1016/j.jviromet.2019.01.013. Epub 2019 Jan 25.
The first deep sequencing method was announced in 2005. Due to an increasing number of sequencing data and a reduction in the costs of each sequencing dataset, this innovative technique was soon applied to genetic investigations of viral genome diversity in various viruses, particularly RNA viruses. These deep sequencing findings documented viral epidemiology and evolution and provided high-resolution data on the genetic changes in viral populations. Here, we review deep sequencing platforms that have been applied in viral quasispecies studies. Further, we discuss recent deep sequencing studies on viral inter- and intrahost evolution, drug resistance, and humoral immune selection, especially in emerging and re-emerging viruses. Deep sequencing methods are becoming the standard for providing comprehensive results of viral population diversity, and their applications are discussed.
2005 年首次宣布了第一代深度测序方法。由于测序数据的数量不断增加，每个测序数据集的成本降低，这种创新技术很快被应用于各种病毒的病毒基因组多样性的遗传研究，特别是 RNA 病毒。这些深度测序结果记录了病毒的流行病学和进化，并提供了有关病毒群体遗传变化的高分辨率数据。在这里，我们综述了已应用于病毒准种研究的深度测序平台。此外，我们还讨论了最近关于病毒种内和种间进化、耐药性和体液免疫选择的深度测序研究，特别是在新发和再发病毒中。深度测序方法正在成为提供病毒群体多样性综合结果的标准，我们讨论了它们的应用。
