Detection and characterisation of coronaviruses in migratory and non-migratory Australian wild birds.
Detection and characterisation of coronaviruses in migratory and non-migratory Australian wild birds.
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DOI：
10.1038/s41598-018-24407-x
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发表时间：
2018-04-13
影响因子：
4.6
通讯作者：
Alexandersen S
中科院分区：
文献类型：
--
作者：
Chamings A;Nelson TM;Vibin J;Wille M;Klaassen M;Alexandersen S
我们对2016-17年收集的918份澳大利亚野鸟样本进行了冠状病毒PCR检测。在多个采样点的鸭、滨鸟和苍鹭的141份样本中检测到冠状病毒（15.3%）。对选定的阳性样本进行测序，发现主要是γ冠状病毒，也有部分是三角冠状病毒。由于没有一种方法可以检测到所有阳性样本，因此采用多重PCR方法提高了冠状病毒的检出率。对相对保守的Orf1 PCR扩增子测序发现，澳大利亚鸭伽玛冠状病毒与世界各地的鸭伽玛冠状病毒相似。一些经测序的滨鸟伽玛冠状病毒属于隼形目谱系，而另一些则与鸭伽玛冠状病毒有更密切的关系。澳大利亚鸭和苍鹭的三角冠状病毒与其他鸭和苍鹭的三角冠状病毒同属一个谱系，但在核苷酸序列上与其他可用的三角冠状病毒序列相差近20%。来自滨鸟的冠状病毒序列与来自美国检测到的红石的冠状病毒形成了一个谱系。鉴于澳大利亚鸭的冠状病毒与其他地区发现的冠状病毒高度相似，而且澳大利亚鸭很少与迁徙的古北鸭物种接触，我们假设迁徙的滨鸟是将野鸟冠状病毒带入和带出澳大利亚的重要载体。
We evaluated the presence of coronaviruses by PCR in 918 Australian wild bird samples collected during 2016–17. Coronaviruses were detected in 141 samples (15.3%) from species of ducks, shorebirds and herons and from multiple sampling locations. Sequencing of selected positive samples found mainly gammacoronaviruses, but also some deltacoronaviruses. The detection rate of coronaviruses was improved by using multiple PCR assays, as no single assay could detect all coronavirus positive samples. Sequencing of the relatively conserved Orf1 PCR amplicons found that Australian duck gammacoronaviruses were similar to duck gammacoronaviruses around the world. Some sequenced shorebird gammacoronaviruses belonged to Charadriiformes lineages, but others were more closely related to duck gammacoronaviruses. Australian duck and heron deltacoronaviruses belonged to lineages with other duck and heron deltacoronaviruses, but were almost 20% different in nucleotide sequence to other deltacoronavirus sequences available. Deltacoronavirus sequences from shorebirds formed a lineage with a deltacoronavirus from a ruddy turnstone detected in the United States. Given that Australian duck gammacoronaviruses are highly similar to those found in other regions, and Australian ducks rarely come into contact with migratory Palearctic duck species, we hypothesise that migratory shorebirds are the important vector for moving wild bird coronaviruses into and out of Australia.
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