Deciphering the introduction and transmission of SARS-CoV-2 in the Colombian Amazon Basin.
Deciphering the introduction and transmission of SARS-CoV-2 in the Colombian Amazon Basin.
复制标题
DOI：
10.1371/journal.pntd.0009327
复制
发表时间：
2021-04
影响因子：
3.8
通讯作者：
Ramírez JD
中科院分区：
文献类型：
--
作者：
Ballesteros N;Muñoz M;Patiño LH;Hernández C;González-Casabianca F;Carroll I;Santos-Vega M;Cascante J;Angel A;Feged-Rivadeneira A;Palma-Cuero M;Flórez C;Gomez S;van de Guchte A;Khan Z;Dutta J;Obla A;Alshammary HA;Gonzalez-Reiche AS;Hernandez MM;Sordillo EM;Simon V;van Bakel H;Paniz-Mondolfi AE;Ramírez JD
SARS-CoV-2大流行迫使世界各地的卫生当局做出重要决定，以遏制其传播。基因组流行病学已成为了解病毒在特定地理位置的引入和传播的宝贵工具。在这里，我们报告了来自哥伦比亚亚马逊省居民的59个SARS-CoV-2样本的序列。病毒基因组分布在不同的GISAID分支GH和g中的两个强大集群中。时空分析显示，该地区两次独立引入SARS-CoV-2，一次是在2020年4月1日左右，与当地传播有关，另一次是在2020年4月2日左右，与其他南美基因组（乌拉圭和巴西）有关。我们还确定了在亚马逊地区流通的十个谱系，包括P.1变体的关注（VOC）。这项研究是在该国土著社区报告率最高的地区之一对SARS-CoV-2进行的首次基因组流行病学调查。这些发现对于破译病毒传播、提供有关全球传播的信息以及为这些脆弱人群直接实施感染预防和控制措施至关重要，特别是考虑到最近与主要传播性和可能的再感染相关的一种令人关注的变体（P.1）的传播。SARS-CoV-2极大地影响了南美洲各地的美洲印第安人土著社区，特别是在亚马逊盆地。为了揭示这种大流行病毒在该地区的引入和最初传播，我们进行了一项基因组流行病学研究，我们对哥伦比亚亚马逊省病例的59个基因组进行了测序。我们的结果显示，该病毒有两次独立传入科室，其中一次与无症状病例有关。这是首个针对哥伦比亚亚马逊地区的基因组流行病学研究，那里居住着大量的美洲印第安土著社区。我们的研究结果提供了该地区传播动态的见解，并报告了相关信息，以寻求减轻病毒在亚马逊人群中的传播的策略，这些人群目前正面临着新的风险，因为关注P.1的新变种正在传播。
The SARS-CoV-2 pandemic has forced health authorities across the world to take important decisions to curtail its spread. Genomic epidemiology has emerged as a valuable tool to understand introductions and spread of the virus in a specific geographic location. Here, we report the sequences of 59 SARS-CoV-2 samples from inhabitants of the Colombian Amazonas department. The viral genomes were distributed in two robust clusters within the distinct GISAID clades GH and G. Spatial-temporal analyses revealed two independent introductions of SARS-CoV-2 in the region, one around April 1, 2020 associated with a local transmission, and one around April 2, 2020 associated with other South American genomes (Uruguay and Brazil). We also identified ten lineages circulating in the Amazonas department including the P.1 variant of concern (VOC). This study represents the first genomic epidemiology investigation of SARS-CoV-2 in one of the territories with the highest report of indigenous communities of the country. Such findings are essential to decipher viral transmission, inform on global spread and to direct implementation of infection prevention and control measures for these vulnerable populations, especially, due to the recent circulation of one of the variants of concern (P.1) associated with major transmissibility and possible reinfections. SARS-CoV-2 has dramatically impacted Amerindian native communities across South America, particularly in the Amazonian basin. In order to unveil the introduction and initial spread of this pandemic virus into this region, we conducted a genomic epidemiology study where we sequenced 59 genomes from cases in the Amazonas department of Colombia. Our results showed two independent introductions of the virus into the department, one of these associated with asymptomatic cases. This represents the first genomic epidemiology study focused on the Colombian Amazonas department where a great amount of native Amerindian indigenous communities inhabits. Our results provide insights of the transmission dynamic in this region and reported relevant information to pursue strategies to mitigate the spread of the virus in the Amazon population which currently are facing new risks due to the circulating new variant of concern P.1.
登录
查看更多内容
影响因子：
82.9
作者：
Adam, Dillon C.;Wu, Peng;Cowling, Benjamin J.
通讯作者：
Cowling, Benjamin J.
影响因子：
56.9
作者：
Deng, Xianding;Gu, Wei;Chiu, Charles Y.
通讯作者：
Chiu, Charles Y.
影响因子：
3.9
作者：
Argimón S;Abudahab K;Goater RJE;Fedosejev A;Bhai J;Glasner C;Feil EJ;Holden MTG;Yeats CA;Grundmann H;Spratt BG;Aanensen DM
通讯作者：
Aanensen DM
DOI：
10.15585/mmwr.mm6915e1
发表时间：
2020-04-17
期刊：
MMWR. Morbidity and mortality weekly report
影响因子：
--
作者：
Ghinai I;Woods S;Ritger KA;McPherson TD;Black SR;Sparrow L;Fricchione MJ;Kerins JL;Pacilli M;Ruestow PS;Arwady MA;Beavers SF;Payne DC;Kirking HL;Layden JE
通讯作者：
Layden JE
影响因子：
12.7
作者：
David Ramirez, Juan;Florez, Carolina;Paniz-Mondolfi, Alberto
通讯作者：
Paniz-Mondolfi, Alberto