SARS-CoV-2 infection and viral load are associated with the upper respiratory tract microbiome.
SARS-CoV-2 infection and viral load are associated with the upper respiratory tract microbiome.
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DOI：
10.1016/j.jaci.2021.02.001
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发表时间：
2021-04
期刊：
影响因子：
--
通讯作者：
Das SR
中科院分区：
文献类型：
--
作者：
Rosas-Salazar C;Kimura KS;Shilts MH;Strickland BA;Freeman MH;Wessinger BC;Gupta V;Brown HM;Rajagopala SV;Turner JH;Das SR
严重急性呼吸道综合征冠状病毒2（SARS-CoV-2）是导致2019年冠状病毒病（COVID-19）大流行的呼吸道病毒，与上呼吸道（URT）微生物组之间的关系知之甚少。我们试图比较SARS-CoV-2感染和未感染成人之间的URT微生物组，并检查COVID-19期间SARS-CoV-2病毒载量与URT微生物组的相关性。我们使用16 S核糖体RNA测序对59名成年人（38名确诊的、有症状的、轻度至中度的COVID-19患者和21名无症状的、未感染的对照组）的URT微生物组进行了表征。在COVID-19患者中，我们使用定量逆转录PCR测量了SARS-CoV-2病毒载量。然后，我们研究了SARS-CoV-2感染状态及其病毒载量与URT微生物组的β多样性，β多样性和细菌分类群丰度的关系。我们的主要模型都根据年龄和性别进行了调整。在SARS-CoV-2感染的成人中观察到的物种指数显著高于未感染的成人（β线性回归系数= 7.53; 95%CI，0.17-14.89; P = 0.045）。在差异丰度测试中，9种扩增子序列变体在我们的两种比较中显著不同，其中嗜泪消化杆菌、人弯曲杆菌、普雷沃氏菌9 copri和一种未分类的厌氧球菌扩增子序列变体在SARS-CoV-2感染者和COVID-19期间具有高病毒载量的患者中更丰富，而未分类的棒状杆菌、溶血葡萄球菌、不一致普雷沃氏菌、和2种棒状杆菌_1未分类扩增子序列变异体在未感染SARS-CoV-2和COVID-19期间病毒载量较低的人群中更丰富。我们的研究结果表明，SARS-CoV-2与成人URT微生物组之间存在复杂的关联。未来的研究需要研究这些病毒-细菌相互作用如何影响COVID-19的临床进展、严重程度和恢复。
Little is known about the relationships between severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), the respiratory virus responsible for the ongoing coronavirus disease 2019 (COVID-19) pandemic, and the upper respiratory tract (URT) microbiome. We sought to compare the URT microbiome between SARS-CoV-2–infected and –uninfected adults and to examine the association of SARS-CoV-2 viral load with the URT microbiome during COVID-19. We characterized the URT microbiome using 16S ribosomal RNA sequencing in 59 adults (38 with confirmed, symptomatic, mild to moderate COVID-19 and 21 asymptomatic, uninfected controls). In those with COVID-19, we measured SARS-CoV-2 viral load using quantitative reverse transcription PCR. We then examined the association of SARS-CoV-2 infection status and its viral load with the ⍺-diversity, β-diversity, and abundance of bacterial taxa of the URT microbiome. Our main models were all adjusted for age and sex. The observed species index was significantly higher in SARS-CoV-2–infected than in –uninfected adults (β linear regression coefficient = 7.53; 95% CI, 0.17-14.89; P = .045). In differential abundance testing, 9 amplicon sequence variants were significantly different in both of our comparisons, with Peptoniphilus lacrimalis, Campylobacter hominis, Prevotella 9 copri, and an Anaerococcus unclassified amplicon sequence variant being more abundant in those with SARS-CoV-2 infection and in those with high viral load during COVID-19, whereas Corynebacterium unclassified, Staphylococcus haemolyticus, Prevotella disiens, and 2 Corynebacterium_1 unclassified amplicon sequence variants were more abundant in those without SARS-CoV-2 infection and in those with low viral load during COVID-19. Our findings suggest complex associations between SARS-CoV-2 and the URT microbiome in adults. Future studies are needed to examine how these viral-bacterial interactions can impact the clinical progression, severity, and recovery of COVID-19.
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DOI：
10.1016/j.jaci.2017.10.049
发表时间：
2018-11
期刊：
The Journal of allergy and clinical immunology
影响因子：
--
作者：
Rosas-Salazar C;Shilts MH;Tovchigrechko A;Schobel S;Chappell JD;Larkin EK;Gebretsadik T;Halpin RA;Nelson KE;Moore ML;Anderson LJ;Peebles RS Jr;Das SR;Hartert TV
通讯作者：
Hartert TV
影响因子：
14.9
作者：
Pruesse E;Quast C;Knittel K;Fuchs BM;Ludwig W;Peplies J;Glöckner FO
通讯作者：
Glöckner FO
影响因子：
48
作者：
Callahan BJ;McMurdie PJ;Rosen MJ;Han AW;Johnson AJ;Holmes SP
通讯作者：
Holmes SP
影响因子：
15.5
作者：
Davis, Nicole M;Proctor, Diana M;Callahan, Benjamin J
通讯作者：
Callahan, Benjamin J
DOI：
10.1111/j.2517-6161.1995.tb02031.x
发表时间：
1995-01-01
影响因子：
5.8
作者：
BENJAMINI, Y;HOCHBERG, Y
通讯作者：
HOCHBERG, Y