SARS-CoV-2 genomic characterization and clinical manifestation of the COVID-19 outbreak in Uruguay.
SARS-CoV-2 genomic characterization and clinical manifestation of the COVID-19 outbreak in Uruguay.
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DOI：
10.1080/22221751.2020.1863747
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发表时间：
2021-12
影响因子：
13.2
通讯作者：
Duerr R
中科院分区：
文献类型：
--
作者：
Elizondo V;Harkins GW;Mabvakure B;Smidt S;Zappile P;Marier C;Maurano MT;Perez V;Mazza N;Beloso C;Ifran S;Fernandez M;Santini A;Perez V;Estevez V;Nin M;Manrique G;Perez L;Ross F;Boschi S;Zubillaga MN;Balleste R;Dellicour S;Heguy A;Duerr R
COVID-19 是由严重急性呼吸综合征冠状病毒 2 (SARS-CoV-2) 引起的呼吸道疾病，世界卫生组织已宣布其为全球突发公共卫生事件。在南美洲爆发的严重疫情中，乌拉圭因出色地遏制 SARS-CoV-2 而闻名。为了了解 SARS-CoV-2 在乌拉圭的传入、本地传播以及与基因组和临床参数的关联，我们对 2020 年 3 月至 5 月在乌拉圭首都蒙得维的亚的一个私人医疗系统中的 44 名门诊患者和住院患者的病毒基因组进行了测序。我们使用我们的队列和其他研究中的序列进行了系统发育地理学分析，表明至少有 23 个独立的传入乌拉圭，从而形成了 5 个主要传播集群。我们的数据表明，大多数导致传播链的传入都来自其他南美国家，该病毒最早传播于 2020 年 2 月下旬，即对所有非公民关闭边境并实施部分封锁的几周前。遗传分析表明，S 和 G 进化枝（G、GH、GR）占主导地位，它们构成了我们研究中超过 90% 的病毒株。在我们的队列中，SARS-CoV-2 感染的致死结果与动脉高血压、肾衰竭和入住 ICU (FDR < 0.01) 显着相关，但与结构或非结构蛋白的任何突变（例如尖峰 D614G 突变）无关。我们的研究提供了关于乌拉圭 SARS-CoV-2 疫情得到特别有效控制的遗传、系统动力学和临床相关数据，这进一步加深了对拉丁美洲大流行的疾病模式和区域方面的了解。
COVID-19 is a respiratory illness caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) and declared by the World Health Organization a global public health emergency. Among the severe outbreaks across South America, Uruguay has become known for curtailing SARS-CoV-2 exceptionally well. To understand the SARS-CoV-2 introductions, local transmissions, and associations with genomic and clinical parameters in Uruguay, we sequenced the viral genomes of 44 outpatients and inpatients in a private healthcare system in its capital, Montevideo, from March to May 2020. We performed a phylogeographic analysis using sequences from our cohort and other studies that indicate a minimum of 23 independent introductions into Uruguay, resulting in five major transmission clusters. Our data suggest that most introductions resulting in chains of transmission originate from other South American countries, with the earliest seeding of the virus in late February 2020, weeks before the borders were closed to all non-citizens and a partial lockdown implemented. Genetic analyses suggest a dominance of S and G clades (G, GH, GR) that make up >90% of the viral strains in our study. In our cohort, lethal outcome of SARS-CoV-2 infection significantly correlated with arterial hypertension, kidney failure, and ICU admission (FDR < 0.01), but not with any mutation in a structural or non-structural protein, such as the spike D614G mutation. Our study contributes genetic, phylodynamic, and clinical correlation data about the exceptionally well-curbed SARS-CoV-2 outbreak in Uruguay, which furthers the understanding of disease patterns and regional aspects of the pandemic in Latin America.
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影响因子：
11
作者：
Chaw, Shu-Miaw;Tai, Jui-Hung;Wang, Hurng-Yi
通讯作者：
Wang, Hurng-Yi
影响因子：
9.5
作者：
Katoh K;Rozewicki J;Yamada KD
通讯作者：
Yamada KD
影响因子：
10.7
作者：
Dellicour S;Durkin K;Hong SL;Vanmechelen B;Martí-Carreras J;Gill MS;Meex C;Bontems S;André E;Gilbert M;Walker C;Maio N;Faria NR;Hadfield J;Hayette MP;Bours V;Wawina-Bokalanga T;Artesi M;Baele G;Maes P
通讯作者：
Maes P
影响因子：
56.9
作者：
Gonzalez-Reiche, Ana S.;Hernandez, Matthew M.;van Bakel, Harm
通讯作者：
van Bakel, Harm
影响因子：
5.2
作者：
Castillo AE;Parra B;Tapia P;Lagos J;Arata L;Acevedo A;Andrade W;Leal G;Tambley C;Bustos P;Fasce R;Fernández J
通讯作者：
Fernández J