Analyzing master regulators and scRNA-seq of COVID-19 patients reveals an underlying anti-SARS-CoV-2 mechanism of ZNF proteins

Qin, Si; Xu, Weijun; Wang, Canbiao; Jiang, Sizhu; Dai, Wei; Yang, Yang; Shen, Jiawei; Park, Jin; Ma, Fei; Xia, Xinyi

doi:10.1093/bib/bbab118

Cited by 12 publications

(11 citation statements)

References 32 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The ZNF protein activity might promote the abundance and the antiviral activity of multiple immune cells to effectively suppress SARS-CoV-2 infection. 30 These studies suggest that different immune response mechanisms exist between men and women. However, gender differences in these mechanisms may cause the more severe damage and difficult recovery of alveolar capillary and microvascular in women, which in turn affects their diffusion capacity.…”

Section: Discussionmentioning

confidence: 99%

Dynamic changes of pulmonary diffusion capacity in survivors of non-critical COVID-19 during the first six months

et al. 2022

View full text Add to dashboard Cite

Background The dynamic trends of pulmonary function in coronavirus disease 2019 (COVID-19) survivors since discharge have been rarely described. We aimed to describe the changes of lung function and identify risk factors for impaired diffusion capacity.Methods Non-critical COVID-19 patients admitted to the Guangzhou Eighth People's Hospital, China, were enrolled from March to June 2020. Subjects were prospectively followed up with pulmonary function tests at discharge, three and six months after discharge.Findings Eighty-six patients completed diffusion capacity tests at three timepoints. The mean diffusion capacity for carbon monoxide (D LCO )% pred was 79.8% at discharge and significantly improved to 84.9% at Month-3. The transfer coefficient of the lung for carbon monoxide (K CO )% pred significantly increased from 91.7% at discharge to 95.7% at Month-3. Both of them showed no further improvement at Month-6. The change rates of D LCO % pred and K CO % pred were significantly higher in 0−3 months than in 3−6 months. The alveolar ventilation (V A ) improved continuously during the follow-ups. At Month-6, impaired D LCO % pred was associated with being female ; p = 0.004) and peak total lesion score (TLS) of chest CT > 8.5 ]; p = 0.007). D LCO % pred and K CO % pred were worse in females at discharge. And in patients with impaired diffusion capacity, females' D LCO % pred recovered slower than males.Interpretation The first three months is the critical recovery period for diffusion capacity. The impaired diffusion capacity was more severe and recovered slower in females than in males. Early pulmonary rehabilitation and individualized interventions for recovery are worthy of further investigations.

show abstract

Section: Discussionmentioning

confidence: 99%

Dynamic changes of pulmonary diffusion capacity in survivors of non-critical COVID-19 during the first six months

et al. 2022

View full text Add to dashboard Cite

show abstract

“…The molecular mechanisms that induce different prognostic outcomes between male and female patients has been recently studied by analysing mRNA expression levels, proteins activities, and clinical indicators [ 29 ].…”

Section: Roles Of Host Znf Proteins In Covid-19mentioning

confidence: 99%

“…Differentially expressed ZNF proteins and distinct activities could be important in determining the severity of the disease and the survival outcome of patients [ 27 , 28 , 29 ]. ZNF protein expression and activity of patients is noticeably different following SARS-CoV-2 infection [ 29 ]. Lung epithelial cells show a significantly decreased ZNF protein activity in mild and severe patients when compared with healthy people.…”

Section: Introductionmentioning

confidence: 99%

“…Lung epithelial cells show a significantly decreased ZNF protein activity in mild and severe patients when compared with healthy people. Furthermore, ZNF proteins activity of some immune cells, such as macrophages, CD8 T cells, CD4 T cells, and NK cells increases in mild patients, but significantly reduces in severe patients [ 27 , 28 , 29 ].…”

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

Host and Viral Zinc-Finger Proteins in COVID-19

Esposito

D’Abrosca

Antolak

et al. 2022

IJMS

View full text Add to dashboard Cite

An unprecedented effort to tackle the ongoing COVID-19 pandemic has characterized the activity of the global scientific community over the last two years. Hundreds of published studies have focused on the comprehension of the immune response to the virus and on the definition of the functional role of SARS-CoV-2 proteins. Proteins containing zinc fingers, both belonging to SARS-CoV-2 or to the host, play critical roles in COVID-19 participating in antiviral defenses and regulation of viral life cycle. Differentially expressed zinc finger proteins and their distinct activities could thus be important in determining the severity of the disease and represent important targets for drug development. Therefore, we here review the mechanisms of action of host and viral zinc finger proteins in COVID-19 as a contribution to the comprehension of the disease and also highlight strategies for therapeutic developments.

show abstract

“…Notably, the zinc-finger helicase ZNFX1, which was recently reported as an early dsRNA sensor able to boost the antiviral response by stimulating ISGs ( Wang et al, 2019 ), resulted highly expressed and induced in PD-SARS-neg samples. ZNFX1 was reported as negatively correlated with SARS-CoV-2 loads, and to be possibly involved in the early detection of this virus promoting an immediate antiviral response ( Qin et al, 2021 ). Arguably, ZNFX1 and other helicases have been shown to share short peptides with coronavirus genomes, with possible outcomes in virus-induced autoinflammatory conditions ( Venkatakrishnan et al, 2020 ).…”

Section: Discussionmentioning

confidence: 99%

Tracing the SARS-CoV-2 infection on the ocular surface: Overview and preliminary corneoscleral transcriptome sequencing

Rosani¹,

Vecchio²,

Franchin³

et al. 2022

Experimental Eye Research

View full text Add to dashboard Cite

COVID-19's impact on the ocular surface has already been recognized, however the molecular mechanisms induced by the infection on the ocular surface are still unclear. The aim of this paper is to provide a first overview of the transcriptional perturbations caused by SARS-CoV-2 on the ocular surface by analyzing gene expression profile of corneoscleral ring samples from post-mortem SARS-CoV-2 positive donors (PD). The presence of SARS-CoV-2 on the ocular surface, in tears and corneal tissues has rarely been detected in infected individuals in both the presence and the absence of ocular manifestations. In this preliminary study, 6 human corneoscleral tissues of 3 PD and two tissues from a negative donor (CTRL) were obtained at the local eye bank. The presence of genomic and sub-genomic SARS-CoV-2 RNAs was assessed by qRT-PCR, while transcriptome analysis (RNA-sequencing) was performed by Illumina. Principal Component Analysis (PCA), search for differentially expressed genes (DEGs) and Gene Ontology (GO)-enrichment analysis were performed. Three samples from PD were found positive for SARS-CoV-2 genomic RNA, although the absence of sub-genomic RNAs indicated an inactive virus. PCA analysis grouped 3 different clusters, one including CTRL, and the other two including, respectively, PD with undetected SARS-CoV-2 (PD-SARS-neg) and PD with detected SARS-CoV-2 (PD-SARS-pos). The DEGs in common with the 2 PD clusters included several genes associable to the interferon pathway, such as ADAMTS4, RSAD2, MMP1, IL6, ISG15 and proinflammatory cytokines. Among the down-regulated genes we found AQP5. GO analysis revealed 77 GO terms over-represented in PD-SARS-neg vs. CTRL, and 17 GO terms in PD-SARS-pos vs. CTRL. The presence of SARS-CoV-2 RNA and RNA-sequencing reads in ocular surface tissues supports the possibility that the eye acts as an entry route. The modulation of early responsive genes, together with several ISGs suggests a potential protective responsiveness of the ocular tissues to SARS-CoV-2.

show abstract

Analyzing master regulators and scRNA-seq of COVID-19 patients reveals an underlying anti-SARS-CoV-2 mechanism of ZNF proteins

Cited by 12 publications

References 32 publications

Dynamic changes of pulmonary diffusion capacity in survivors of non-critical COVID-19 during the first six months

Dynamic changes of pulmonary diffusion capacity in survivors of non-critical COVID-19 during the first six months

Host and Viral Zinc-Finger Proteins in COVID-19

Tracing the SARS-CoV-2 infection on the ocular surface: Overview and preliminary corneoscleral transcriptome sequencing

Contact Info

Product

Resources

About