Genetic diversity of astroviruses detected in wild aquatic birds in Hong Kong.

IF 5.4 3区材料科学 Q2 CHEMISTRY, PHYSICAL

ACS Applied Energy Materials Pub Date : 2024-07-07 DOI:10.1186/s12985-024-02423-w

Daisy Y M Ng, Wanying Sun, Thomas H C Sit, Christopher J Brackman, Anne C N Tse, Christine H T Bui, Amy W Y Tang, Andrew N C Wong, Andrew T L Tsang, Joe C T Koo, Samuel M S Cheng, Malik Peiris, Alex W H Chin, Leo L M Poon

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引用次数: 0

Abstract

Wild waterfowl serve as a reservoir of some astroviruses. Fecal samples from wild waterfowl collected at Hong Kong's Marshes were tested using pan-astrovirus reverse transcription-PCR. Positive samples underwent subsequent host identification using DNA barcoding. Based on deduced partial sequences, noteworthy samples from three astrovirus groups (mammalian, avian and unclassified astroviruses) were further analyzed by next-generation sequencing. One sample of Avastrovirus 4 clade, MP22-196, had a nearly complete genome identified. The results of ORF2 phylogenetic analysis and genetic distance analysis indicate that Avastrovirus 4 is classified as a distinct subclade within Avastrovirus. MP22-196 has typical astrovirus genome characteristics. The unique characteristics and potential differences of this genome, compared to other avian astrovirus sequences, involve the identification of a modified sgRNA sequence situated near the ORF2 start codon, which precedes the ORF1b stop codon. Additionally, the 3' UTR of MP22-196 is shorter than other avian astroviruses. This study expands our understanding of the Avastrovirus 4 clade.

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在香港野生水鸟体内检测到的星状病毒的基因多样性。

野生水禽是一些天体病毒的储库。在香港沼泽地采集的野生水禽粪便样本采用泛兽类病毒反转录-PCR技术进行检测。阳性样本随后通过 DNA 条形码进行宿主鉴定。根据推导出的部分序列，对三个天体病毒群（哺乳动物、禽类和未分类的天体病毒）中值得注意的样本进行了进一步的新一代测序分析。其中一个阿瓦斯特罗病毒 4 支系样本 MP22-196 的基因组几乎完整。ORF2系统进化分析和遗传距离分析的结果表明，阿瓦斯特病毒4在阿瓦斯特病毒中被划分为一个独特的亚支系。MP22-196 具有典型的天体病毒基因组特征。与其他禽类天体病毒序列相比，MP22-196基因组的独特之处和潜在差异在于，它在ORF2起始密码子附近发现了一个经过修饰的sgRNA序列，该序列位于ORF1b终止密码子之前。此外，MP22-196 的 3' UTR 比其他禽类天体病毒短。这项研究拓展了我们对禽天体病毒 4 支系的了解。

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

ACS Applied Energy Materials Materials Science-Materials Chemistry

CiteScore

10.30

自引率

6.20%

发文量

1368

期刊介绍： ACS Applied Energy Materials is an interdisciplinary journal publishing original research covering all aspects of materials, engineering, chemistry, physics and biology relevant to energy conversion and storage. The journal is devoted to reports of new and original experimental and theoretical research of an applied nature that integrate knowledge in the areas of materials, engineering, physics, bioscience, and chemistry into important energy applications.