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动态演变的新型重叠基因是 SARS-CoV-2 大流行的一个因素。

Dynamically evolving novel overlapping gene as a factor in the SARS-CoV-2 pandemic.

机构信息

Biodiversity Research Center, Academia Sinica, Taipei, Taiwan.

Institute for Comparative Genomics, American Museum of Natural History, New York, United States.

出版信息

Elife. 2020 Oct 1;9:e59633. doi: 10.7554/eLife.59633.

DOI:10.7554/eLife.59633
PMID:33001029
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC7655111/
Abstract

Understanding the emergence of novel viruses requires an accurate and comprehensive annotation of their genomes. Overlapping genes (OLGs) are common in viruses and have been associated with pandemics but are still widely overlooked. We identify and characterize , a novel OLG in SARS-CoV-2 that is also present in Guangxi pangolin-CoVs but not other closely related pangolin-CoVs or bat-CoVs. We then document evidence of translation, characterize its protein sequence, and conduct an evolutionary analysis at three levels: between taxa (21 members of ), between human hosts (3978 SARS-CoV-2 consensus sequences), and within human hosts (401 deeply sequenced SARS-CoV-2 samples). has been independently identified and shown to elicit a strong antibody response in COVID-19 patients. However, it has been misclassified as the unrelated gene , leading to confusion. Our results liken to other accessory genes in emerging viruses and highlight the importance of OLGs.

摘要

要了解新型病毒的出现，需要对其基因组进行准确和全面的注释。重叠基因（OLGs）在病毒中很常见，与大流行有关，但仍被广泛忽视。我们在 SARS-CoV-2 中发现并表征了一个新的 OLG，该基因也存在于广西穿山甲-CoV 中，但不存在于其他密切相关的穿山甲-CoV 或蝙蝠-CoV 中。然后，我们记录了翻译的证据，对其蛋白质序列进行了表征，并在三个层面上进行了进化分析：种间（ 中的 21 个成员）、宿主间（3978 个 SARS-CoV-2 共识序列）和宿主内（401 个深度测序的 SARS-CoV-2 样本）。 在 COVID-19 患者中已经被独立鉴定出来，并显示出强烈的抗体反应。然而，它被错误地归类为不相关的基因 ，导致了混淆。我们的结果将 与新兴病毒中的其他辅助基因进行比较，并强调了 OLGs 的重要性。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/e752/7655111/a1d210db660b/elife-59633-fig8-figsupp1.jpg
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本文引用的文献

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