Detection of the Omicron (B.1.1.529) variant of SARS-CoV-2 in aircraft wastewater.
Detection of the Omicron (B.1.1.529) variant of SARS-CoV-2 in aircraft wastewater.
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DOI：
10.1016/j.scitotenv.2022.153171
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发表时间：
2022-05-10
期刊：
影响因子：
--
通讯作者：
Simpson SL
中科院分区：
文献类型：
--
作者：
Ahmed W;Bivins A;Smith WJM;Metcalfe S;Stephens M;Jennison AV;Moore FAJ;Bourke J;Schlebusch S;McMahon J;Hewitson G;Nguyen S;Barcelon J;Jackson G;Mueller JF;Ehret J;Hosegood I;Tian W;Wang H;Yang L;Bertsch PM;Tynan J;Thomas KV;Bibby K;Graber TE;Ziels R;Simpson SL
2021年11月26日，世界卫生组织（WHO）将新发现的B.1.1.529谱系严重急性呼吸综合征冠状病毒2型（SARS-CoV-2）指定为Omicron关注变体（VOC）。Omicron VOC的基因组包含50多个突变，其中许多与增加的传播性，不同的疾病严重程度以及逃避针对先前VOC（如Alpha和Delta）开发的免疫反应的潜力有关。自B.1.1.529被指定为VOC以来的几天里，地球仪各国都报告了该血统的感染，许多国家已经实施了旅行限制并加强了边境控制。根据WHO的指导，我们于2021年11月25日从南非约翰内斯堡抵达澳大利亚达尔文的一架航班的飞机废水样本中检测到Omicron变异体，CDC N1、CDC N2和del（69-70）RT-qPCR检测结果呈阳性。澳大利亚北领地卫生部门在该航班上检测到一名乘客感染了SARS-CoV-2，通过对鼻咽拭子样本进行测序，确定为Omicron VOC。随后使用ARTIC V3方案与Nanopore和ATOPlex对飞机废水样品进行测序，证实了具有与B.1.1.529 BA.1亚谱系聚类的共有基因组的Omicron变体的存在。我们通过飞机废水检测和确认了单一的Omicron感染，进一步加强了飞机废水作为传染病，特别是2019冠状病毒病的独立和非侵入性监测点的重要作用。
On the 26th of November 2021, the World Health Organization (WHO) designated the newly detected B.1.1.529 lineage of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) the Omicron Variant of Concern (VOC). The genome of the Omicron VOC contains more than 50 mutations, many of which have been associated with increased transmissibility, differing disease severity, and potential to evade immune responses developed for previous VOCs such as Alpha and Delta. In the days since the designation of B.1.1.529 as a VOC, infections with the lineage have been reported in countries around the globe and many countries have implemented travel restrictions and increased border controls in response. We putatively detected the Omicron variant in an aircraft wastewater sample from a flight arriving to Darwin, Australia from Johannesburg, South Africa on the 25th of November 2021 via positive results on the CDC N1, CDC N2, and del(69–70) RT-qPCR assays per guidance from the WHO. The Australian Northern Territory Health Department detected one passenger onboard the flight who was infected with SARS-CoV-2, which was determined to be the Omicron VOC by sequencing of a nasopharyngeal swab sample. Subsequent sequencing of the aircraft wastewater sample using the ARTIC V3 protocol with Nanopore and ATOPlex confirmed the presence of the Omicron variant with a consensus genome that clustered with the B.1.1.529 BA.1 sub-lineage. Our detection and confirmation of a single onboard Omicron infection via aircraft wastewater further bolsters the important role that aircraft wastewater can play as an independent and unintrusive surveillance point for infectious diseases, particularly coronavirus disease 2019.
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影响因子：
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DOI：
10.1016/j.scitotenv.2021.150376
发表时间：
2022-02-01
期刊：
The Science of the total environment
影响因子：
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