Single-cell RNA sequencing and multiple bioinformatics methods to identify the immunity and ferroptosis-related biomarkers of SARS-CoV-2 infections to ischemic stroke

Zhao, Xiang; Liang, Qingyu; Li, Hao; Jing, Zhitao; Pei, Dongmei

doi:10.18632/aging.204966

Cited by 2 publications

(2 citation statements)

References 45 publications

(44 reference statements)

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“…We also compared expression of individual DEGs unique to MHV‐1 infected obese versus lean mice with expression patterns in severe vs mild COVID‐19 patients and found 20 upregulated and 23 downregulated genes shared between MHV‐1 and COVID‐19 (Supplementary Table ). In particular, MHV‐1 infected obese mice exhibited upregulation of B4galt5, 76 Flt1, 77 Stx3, 78 and Ass1 79 and downregulation of Crip2 76 and Rora 80 changes (Supplementary Fig.) which have also been associated with severe disease outcomes in COVID‐19 patients.…”

Section: Resultsmentioning

confidence: 92%

Obesity fosters severe disease outcomes in a mouse model of coronavirus infection associated with transcriptomic abnormalities

Rai,

Marano,

Kang

et al. 2024

Journal of Medical Virology

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Obesity has been identified as an independent risk factor for severe outcomes in humans with coronavirus disease 2019 (COVID‐19) and other infectious diseases. Here, we established a mouse model of COVID‐19 using the murine betacoronavirus, mouse hepatitis virus 1 (MHV‐1). C57BL/6 and C3H/HeJ mice exposed to MHV‐1 developed mild and severe disease, respectively. Obese C57BL/6 mice developed clinical manifestations similar to those of lean controls. In contrast, all obese C3H/HeJ mice succumbed by 8 days postinfection, compared to a 50% mortality rate in lean controls. Notably, both lean and obese C3H/HeJ mice exposed to MHV‐1 developed lung lesions consistent with severe human COVID‐19, with marked evidence of diffuse alveolar damage (DAD). To identify early predictive biomarkers of worsened disease outcomes in obese C3H/HeJ mice, we sequenced RNA from whole blood 2 days postinfection and assessed changes in gene and pathway expression. Many pathways uniquely altered in obese C3H/HeJ mice postinfection aligned with those found in humans with severe COVID‐19. Furthermore, we observed altered gene expression related to the unfolded protein response and lipid metabolism in infected obese mice compared to their lean counterparts, suggesting a role in the severity of disease outcomes. This study presents a novel model for studying COVID‐19 and elucidating the mechanisms underlying severe disease outcomes in obese and other hosts.

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Section: Resultsmentioning

confidence: 92%

Obesity fosters severe disease outcomes in a mouse model of coronavirus infection associated with transcriptomic abnormalities

Rai,

Marano,

Kang

et al. 2024

Journal of Medical Virology

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show abstract

“…It has widespread applications in identifying candidate biomarkers, therapeutic targets, and genes critical in biological processes [64]. WGCNA is also extensively employed in infectious disease research [65,66]. After obtaining single-cell global transcriptomic profiles post-IBV infection from multiple tissues, we integrated these data to identify homogeneity and heterogeneity in immune responses induced in different tissues and cell types.…”

Section: Plos Pathogensmentioning

confidence: 99%

Deciphering infected cell types, hub gene networks and cell-cell communication in infectious bronchitis virus via single-cell RNA sequencing

Liukang,

Zhao,

Tian

et al. 2024

PLoS Pathog

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Infectious bronchitis virus (IBV) is a coronavirus that infects chickens, which exhibits a broad tropism for epithelial cells, infecting the tracheal mucosal epithelium, intestinal mucosal epithelium, and renal tubular epithelial cells. Utilizing single-cell RNA sequencing (scRNA-seq), we systematically examined cells in renal, bursal, and tracheal tissues following IBV infection and identified tissue-specific molecular markers expressed in distinct cell types. We evaluated the expression of viral RNA in diverse cellular populations and subsequently ascertained that distal tubules and collecting ducts within the kidney, bursal mucosal epithelial cells, and follicle-associated epithelial cells exhibit susceptibility to IBV infection through immunofluorescence. Furthermore, our findings revealed an upregulation in the transcription of proinflammatory cytokines IL18 and IL1B in renal macrophages as well as increased expression of apoptosis-related gene STAT in distal tubules and collecting duct cells upon IBV infection leading to renal damage. Cell-to-cell communication unveiled potential interactions between diverse cell types, as well as upregulated signaling pathways and key sender-receiver cell populations after IBV infection. Integrating single-cell data from all tissues, we applied weighted gene co-expression network analysis (WGCNA) to identify gene modules that are specifically expressed in different cell populations. Based on the WGCNA results, we identified seven immune-related gene modules and determined the differential expression pattern of module genes, as well as the hub genes within these modules. Our comprehensive data provides valuable insights into the pathogenesis of IBV as well as avian antiviral immunology.

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Single-cell RNA sequencing and multiple bioinformatics methods to identify the immunity and ferroptosis-related biomarkers of SARS-CoV-2 infections to ischemic stroke

Cited by 2 publications

References 45 publications

Obesity fosters severe disease outcomes in a mouse model of coronavirus infection associated with transcriptomic abnormalities

Obesity fosters severe disease outcomes in a mouse model of coronavirus infection associated with transcriptomic abnormalities

Deciphering infected cell types, hub gene networks and cell-cell communication in infectious bronchitis virus via single-cell RNA sequencing

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