Virus Dataset Detail

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Dataset Information
Accession GSE240694
Status 2023/8/16
Title Long-term effects of Omicron BA.2 breakthrough infection on immunity-metabolism balance: a 6-month prospective study
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary There have been reports of long coronavirus disease (long COVID) and breakthrough infections (BTIs); however, the mechanisms and pathological features of long COVID after Omicron BTIs remain unclear. Assessing long COVID and immune recovery after Omicron BTIs is crucial for understanding the disease and developing and managing new-generation vaccines. Here, we followed up mild BA.2 BTI convalescents for six-month with routine blood tests and neutralization assay. Then, we applied proteomic analysis and single-cell RNA sequencing (scRNA-seq) to study the convalescents’ recovery status. Lastly, we retrospectively analyzed the clinical parameters related to immunity and metabolism of the convalescents. We found that major organs exhibited ephemeral dysfunction in double-Convidecia vaccinated persons who experienced BA.2 BTI and recovered to normal in approximately six-month. We observed durable and potent levels of neutralizing antibodies against major circulating severe acute respiratory syndrome coronavirus 2 sub-variants, including BQ.1, BQ.1.1 and BF.7, indicating that hybrid humoral immunity stays active. However, PLTs may take longer to recover. This was supported by proteomic and scRNA-seq analyses, which also showed coagulation disorder and an imbalance between anti-pathogen immunity and metabolism six-month after BA.2 BTI. The immunity-metabolism imbalance was then proved with retrospective analysis of abnormal levels of hormones, low blood glucose level and coagulation profile. The long-term malfunctional coagulation and imbalance in the material metabolism and immunity may contribute to the development of long COVID and act as useful indicators for assessing recovery and the long-term impacts after Omicron sub-variant BTIs.
Samples
GSM ID Sample info Characteristics Description
GSM7707592 S6 tissue:PBMC; cell type:PBMC; disease state:BA.2 breakthrough infected convalescent -
GSM7707593 S11 tissue:PBMC; cell type:PBMC; disease state:BA.2 breakthrough infected convalescent -
GSM7707594 S41 tissue:PBMC; cell type:PBMC; disease state:BA.2 breakthrough infected convalescent -
GSM7707595 S53 tissue:PBMC; cell type:PBMC; disease state:BA.2 breakthrough infected convalescent -
GSM7707596 S63 tissue:PBMC; cell type:PBMC; disease state:BA.2 breakthrough infected convalescent -
GSM7707597 S74 tissue:PBMC; cell type:PBMC; disease state:Healthy control -
GSM7707598 S76 tissue:PBMC; cell type:PBMC; disease state:Healthy control -
GSM7707599 S78 tissue:PBMC; cell type:PBMC; disease state:Healthy control -
GSM7707600 S81 tissue:PBMC; cell type:PBMC; disease state:Healthy control -
Platform GPL24676  : Illumina NovaSeq 6000 (Homo sapiens)
Literature 38503738  
Download Download scRNA Analysis Data  
scRNA-seq UMAP