Viral genomes reveal patterns of the SARS-CoV-2 outbreak in Washington State.
Viral genomes reveal patterns of the SARS-CoV-2 outbreak in Washington State.
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DOI：
10.1126/scitranslmed.abf0202
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发表时间：
2021-05-26
影响因子：
17.1
通讯作者：
Bedford T
中科院分区：
文献类型：
--
作者：
Müller NF;Wagner C;Frazar CD;Roychoudhury P;Lee J;Moncla LH;Pelle B;Richardson M;Ryke E;Xie H;Shrestha L;Addetia A;Rachleff VM;Lieberman NAP;Huang ML;Gautom R;Melly G;Hiatt B;Dykema P;Adler A;Brandstetter E;Han PD;Fay K;Ilcisin M;Lacombe K;Sibley TR;Truong M;Wolf CR;Boeckh M;Englund JA;Famulare M;Lutz BR;Rieder MJ;Thompson M;Duchin JS;Starita LM;Chu HY;Shendure J;Jerome KR;Lindquist S;Greninger AL;Nickerson DA;Bedford T
华盛顿州最初的SARS-CoV-2动态是由区域干预和引入不同病毒载量的变体驱动的。了解新出现的SARS-CoV-2变体的影响对于制定有效的抗病毒措施至关重要。研究表明，SARS-CoV-2刺突蛋白中的D614G替代可能会增加传播性，但这种变体在多大程度上推动了大流行仍存在争议。通过分析数千个病毒基因组和临床数据，m<e:1>勒等人发现，没有证据表明614G变异在2020年中期由于传播性或毒性增加而在华盛顿州出现频率上升。相反，这些数据提供了一个更强烈的信号，即614G的激增可以通过该州的反复引入以及各地封锁措施的差异来解释，这两者都是人为催化的因素。严重急性呼吸综合征冠状病毒2 （SARS-CoV-2）的迅速传播严重影响了世界各地的社会。全球不同地区的疫情是由反复引入新的病毒谱系以及随后这些病毒谱系的当地传播造成的。在这里，我们对来自华盛顿州（美国）的3940个SARS-CoV-2病毒基因组进行了测序，以表征2020年初华盛顿州SARS-CoV-2的传播是如何受到各县缓解策略时间差异和病毒谱系反复引入该州的影响的。此外，我们表明，随着时间的推移，可能更具传染性的病毒变体（614G）的频率增加可能是由区域流动性差异和多次引入614G而不是另一种变体（614D）来解释的。在个体水平上，我们观察到感染614G变异的患者病毒载量较高的证据。然而，使用临床记录数据，我们没有发现任何证据表明614G变异会影响临床严重程度或患者预后。总的来说，这表明就D614G而言，个人行为在影响华盛顿州大流行的过程中比这种病毒变体更重要。
Initial SARS-CoV-2 dynamics in Washington State were driven by regional interventions and introductions of variants differing in viral loads. Understanding the impact of emerging SARS-CoV-2 variants is essential to inform the development of effective antiviral measures. Studies have indicated that the D614G substitution in the SARS-CoV-2 Spike protein may increase transmissibility, but to what extent this variant has propelled the pandemic is debated. Analyzing thousands of viral genomes together with clinical data, Müller et al. found no evidence that the 614G variant rose in frequency in Washington State mid-2020 due to increased transmissibility or virulence. Instead, the data provided a stronger signal that the surge in 614G was explainable by its repeated introduction into the state as well as local differences in lockdown measures—both human-catalyzed factors. The rapid spread of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has gravely affected societies around the world. Outbreaks in different parts of the globe have been shaped by repeated introductions of new viral lineages and subsequent local transmission of those lineages. Here, we sequenced 3940 SARS-CoV-2 viral genomes from Washington State (USA) to characterize how the spread of SARS-CoV-2 in Washington State in early 2020 was shaped by differences in timing of mitigation strategies across counties and by repeated introductions of viral lineages into the state. In addition, we show that the increase in frequency of a potentially more transmissible viral variant (614G) over time can potentially be explained by regional mobility differences and multiple introductions of 614G but not the other variant (614D) into the state. At an individual level, we observed evidence of higher viral loads in patients infected with the 614G variant. However, using clinical records data, we did not find any evidence that the 614G variant affects clinical severity or patient outcomes. Overall, this suggests that with regard to D614G, the behavior of individuals has been more important in shaping the course of the pandemic in Washington State than this variant of the virus.
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影响因子：
2.7
作者：
Müller NF;Bouckaert RR
通讯作者：
Bouckaert RR
影响因子：
82.9
作者：
He, Xi;Lau, Eric H. Y.;Leung, Gabriel M.
通讯作者：
Leung, Gabriel M.
影响因子：
9.4
作者：
Greninger, Alexander L.;Zerr, Danielle M.;Jerome, Keith R.
通讯作者：
Jerome, Keith R.
影响因子：
64.5
作者：
Korber, Bette;Fischer, Will M.;Montefiori, David C.
通讯作者：
Montefiori, David C.
DOI：
10.1126/science.abc0523
发表时间：
2020-10-30
期刊：
Science (New York, N.Y.)
影响因子：
--
作者：
Bedford T;Greninger AL;Roychoudhury P;Starita LM;Famulare M;Huang ML;Nalla A;Pepper G;Reinhardt A;Xie H;Shrestha L;Nguyen TN;Adler A;Brandstetter E;Cho S;Giroux D;Han PD;Fay K;Frazar CD;Ilcisin M;Lacombe K;Lee J;Kiavand A;Richardson M;Sibley TR;Truong M;Wolf CR;Nickerson DA;Rieder MJ;Englund JA;Seattle Flu Study Investigators;Hadfield J;Hodcroft EB;Huddleston J;Moncla LH;Müller NF;Neher RA;Deng X;Gu W;Federman S;Chiu C;Duchin JS;Gautom R;Melly G;Hiatt B;Dykema P;Lindquist S;Queen K;Tao Y;Uehara A;Tong S;MacCannell D;Armstrong GL;Baird GS;Chu HY;Shendure J;Jerome KR
通讯作者：
Jerome KR