Departamento de Genética del Desarrollo y Fisiología Molecular, Instituto de Biotecnología, Universidad Nacional Autónoma de México, Cuernavaca, Morelos, Mexico.
Centro de Investigación en Enfermedades Infecciosas, Instituto Nacional de Enfermedades Respiratorias Ismael Cosío Villegas, Mexico City, Mexico.
BMC Infect Dis. 2022 Oct 19;22(1):792. doi: 10.1186/s12879-022-07783-8.
SARS-CoV-2 infections have a wide spectrum of clinical manifestations whose causes are not completely understood. Some human conditions predispose to severe outcome, like old age or the presence of comorbidities, but many other facets, including coinfections with other viruses, remain poorly characterized.
In this study, the eukaryotic fraction of the respiratory virome of 120 COVID-19 patients was characterized through whole metagenomic sequencing.
Genetic material from respiratory viruses was detected in 25% of all samples, whereas human viruses other than SARS-CoV-2 were found in 80% of them. Samples from hospitalized and deceased patients presented a higher prevalence of different viruses when compared to ambulatory individuals. Small circular DNA viruses from the Anneloviridae (Torque teno midi virus 8, TTV-like mini virus 19 and 26) and Cycloviridae families (Human associated cyclovirus 10), Human betaherpesvirus 6, were found to be significantly more abundant in samples from deceased and hospitalized patients compared to samples from ambulatory individuals. Similarly, Rotavirus A, Measles morbillivirus and Alphapapilomavirus 10 were significantly more prevalent in deceased patients compared to hospitalized and ambulatory individuals.
Results show the suitability of using metagenomics to characterize a broader peripheric virological landscape of the eukaryotic virome in SARS-CoV-2 infected patients with distinct disease outcomes. Identified prevalent viruses in hospitalized and deceased patients may prove important for the targeted exploration of coinfections that may impact prognosis.
SARS-CoV-2 感染的临床表现范围广泛，其病因尚不完全清楚。一些人类状况易导致严重后果，如老年或合并症，但许多其他方面，包括与其他病毒的合并感染，仍未得到充分描述。
在这项研究中，通过全宏基因组测序对 120 例 COVID-19 患者的呼吸病毒组的真核部分进行了特征描述。
在所有样本中，25%的样本检测到呼吸道病毒的遗传物质，而在其中 80%的样本中发现了除 SARS-CoV-2 以外的人类病毒。与门诊患者相比，住院和死亡患者的样本中存在不同病毒的流行率更高。安尔诺病毒科（扭形病毒 8、TTV 样微小病毒 19 和 26）和环病毒科（人相关环病毒 10）的小环形 DNA 病毒、人类疱疹病毒 6 被发现明显更丰富在死亡和住院患者的样本中比门诊患者的样本。同样，轮状病毒 A、麻疹腮腺炎病毒和α乳头瘤病毒 10 在死亡患者中的流行率明显高于住院和门诊患者。
结果表明，使用宏基因组学来描述具有不同疾病结局的 SARS-CoV-2 感染患者外周真核病毒组更广泛的病毒学特征是合适的。在住院和死亡患者中发现的流行病毒可能对探索可能影响预后的合并感染具有重要意义。
