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SARS-CoV-2 within-host diversity and transmission
Science ( IF 56.9 ) Pub Date : 2021-04-16 , DOI: 10.1126/science.abg0821
Katrina A Lythgoe 1, 2 , Matthew Hall 1 , Luca Ferretti 1 , Mariateresa de Cesare 1, 3 , George MacIntyre-Cockett 1, 3 , Amy Trebes 3 , Monique Andersson 4, 5 , Newton Otecko 1 , Emma L Wise 6, 7 , Nathan Moore 6 , Jessica Lynch 6 , Stephen Kidd 6 , Nicholas Cortes 6, 8 , Matilde Mori 9 , Rebecca Williams 6 , Gabrielle Vernet 6 , Anita Justice 4 , Angie Green 3 , Samuel M Nicholls 10 , M Azim Ansari 11 , Lucie Abeler-Dörner 1 , Catrin E Moore 1 , Timothy E A Peto 4, 12 , David W Eyre 4, 13 , Robert Shaw 4 , Peter Simmonds 11 , David Buck 3 , John A Todd 3 , , Thomas R Connor 14, 15 , Shirin Ashraf 16 , Ana da Silva Filipe 16 , James Shepherd 16 , Emma C Thomson 16 , , David Bonsall 1, 3, 4 , Christophe Fraser 1, 3, 17 , Tanya Golubchik 1, 2
Affiliation  

Extensive global sampling and sequencing of the pandemic virus severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) have enabled researchers to monitor its spread and to identify concerning new variants. Two important determinants of variant spread are how frequently they arise within individuals and how likely they are to be transmitted. To characterize within-host diversity and transmission, we deep-sequenced 1313 clinical samples from the United Kingdom. SARS-CoV-2 infections are characterized by low levels of within-host diversity when viral loads are high and by a narrow bottleneck at transmission. Most variants are either lost or occasionally fixed at the point of transmission, with minimal persistence of shared diversity, patterns that are readily observable on the phylogenetic tree. Our results suggest that transmission-enhancing and/or immune-escape SARS-CoV-2 variants are likely to arise infrequently but could spread rapidly if successfully transmitted.



中文翻译:

SARS-CoV-2 宿主内多样性和传播

对大流行病毒严重急性呼吸综合征冠状病毒 2 (SARS-CoV-2) 进行的广泛全球采样和测序使研究人员能够监测其传播并识别相关的新变种。变异传播的两个重要决定因素是它们在个体中出现的频率以及它们传播的可能性。为了表征宿主内的多样性和传播,我们对来自英国的 1313 个临床样本进行了深度测序。SARS-CoV-2 感染的特点是病毒载量高时宿主内多样性水平低,并且传播瓶颈狭窄。大多数变异在传播时要么丢失,要么偶尔固定,共享多样性的持久性最小,这些模式在系统发育树上很容易观察到。我们的结果表明,传播增强和/或免疫逃逸的 SARS-CoV-2 变种可能很少出现,但如果成功传播,可能会迅速传播。

更新日期:2021-04-16
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