Early pandemic molecular diversity of SARS-CoV-2 in children.
Early pandemic molecular diversity of SARS-CoV-2 in children.
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儿童中 SARS-CoV-2 的早期大流行分子多样性。
DOI：
10.1101/2021.02.17.21251960
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发表时间：
2021
期刊：
影响因子：
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通讯作者：
Planet,PaulJ
中科院分区：
文献类型：
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作者：
Moustafa,AhmedM;Otto,William;Gai,Xiaowu;Pandey,Utsav;Ryutov,Alex;Bootwalla,Moiz;Maglinte,DennisT;Shen,Lishuang;Ruble,David;Ostrow,Dejerianne;Gerber,JeffreyS;Bard,JenniferDien;Harris,RebeccaM;Planet,PaulJ
在美国，SARS-CoV-2病毒的社区传播可能始于2020年2月，主要是在旅行相关病例之后。费城儿童医院于2020年3月9日开始对儿童和成人患者进行检测，并于2020年4月1日开始对所有入院患者进行检测，以便尽早了解该病毒的当地分子流行病学。方法从3月至5月收集169例SARS-CoV-2样本（83例来自21岁以下患者），并进行全基因组测序。我们使用基因分型工具来跟踪随时间的变异，并测试可能的基因型相关的临床表现和儿童的结果。结果我们的分析揭示了13个主要谱系，随着费城4月中旬病例达到高峰，这些谱系的相对丰度发生了变化。我们检测到至少6种不同的病毒变异体引入人群。作为一个群体，儿童的病毒基因型比成年人更多样化。临床变量与基因型无明显差异。结论：全基因组分析揭示了意想不到的多样性，在费城病例的最初高峰期内有不同的循环病毒变体。大多数介绍似乎是当地从附近的国家。尽管受样本量的限制，我们在这项研究中没有发现不同基因型对儿童有不同临床影响的证据。
Background In the US, community circulation of the SARS-CoV-2 virus likely began in February 2020 after mostly travel-related cases. Children’s Hospital of Philadelphia began testing on 3/9/2020 for pediatric and adult patients, and for all admitted patients on 4/1/2020, allowing an early glimpse into the local molecular epidemiology of the virus. Methods We obtained 169 SARS-CoV-2 samples (83 from patients <21 years old) from March through May and produced whole genome sequences. We used genotyping tools to track variants over time and to test for possible genotype associated clinical presentations and outcomes in children. Results Our analysis uncovered 13 major lineages that changed in relative abundance as cases peaked in mid-April in Philadelphia. We detected at least 6 introductions of distinct viral variants into the population. As a group, children had more diverse virus genotypes than the adults tested. No strong differences in clinical variables were associated with genotypes. Conclusions Whole genome analysis revealed unexpected diversity, and distinct circulating viral variants within the initial peak of cases in Philadelphia. Most introductions appeared to be local from nearby states. Although limited by sample size, we found no evidence that different genotypes had different clinical impacts in children in this study.