Identification of methylation signatures and rules for predicting the severity of SARS-CoV-2 infection with machine learning methods DOI Creative Commons
Zhiyang Liu, Mei Meng, Shi‐Jian Ding

et al.

Frontiers in Microbiology, Journal Year: 2022, Volume and Issue: 13

Published: Sept. 23, 2022

Patients infected with SARS-CoV-2 at various severities have different clinical manifestations and treatments. Mild or moderate patients usually recover conventional medical treatment, but severe require prompt professional treatment. Thus, stratifying for targeted treatment is meaningful. A computational workflow was designed in this study to identify key blood methylation features rules that can distinguish the severity of infection. First, expression profile were deeply analyzed by a Monte Carlo feature selection method. list generated. Next, ranked fed into incremental method determine optimal classification algorithms, thereby further building classifiers. These selected functional enrichment detect their biofunctional information. Furthermore, set up white-box algorithm, decision tree, uncover patterns on Some genes (PARP9, MX1, IRF7), corresponding essential sites, validated published academic literature. Overall, contributes revealing potential provides reference patient stratification. The physicians prioritize allocate health resources COVID-19 based predicted outcomes.

Language: Английский

Involvement of epigenetics in affecting host immunity during SARS-CoV-2 infection DOI Creative Commons

Assirbad Behura,

Lincoln Naik,

Salina Patel

et al.

Biochimica et Biophysica Acta (BBA) - Molecular Basis of Disease, Journal Year: 2022, Volume and Issue: 1869(3), P. 166634 - 166634

Published: Dec. 26, 2022

Language: Английский

Citations

14
Tangled quest of post-COVID-19 infection-caused neuropathology and what 3P nano-bio-medicine can solve? DOI Open Access
Nadia Μ. Hamdy,

Fatma H. Shaker,

Xianquan Zhan

et al.

The EPMA Journal, Journal Year: 2022, Volume and Issue: 13(2), P. 261 - 284

Published: June 1, 2022

Language: Английский

Citations

13
Host genetic diversity and genetic variations of SARS-CoV-2 in COVID-19 pathogenesis and the effectiveness of vaccination DOI

Mahda Delshad,

Mohammad‐Javad Sanaei, Atieh Pourbagheri‐Sigaroodi

et al.

International Immunopharmacology, Journal Year: 2022, Volume and Issue: 111, P. 109128 - 109128

Published: Aug. 8, 2022

Language: Английский

Citations

13
A Review: Highlighting the Links between Epigenetics, COVID-19 Infection, and Vitamin D DOI Open Access
Ashmika Foolchand, Siyanda Mazaleni, Terisha Ghazi

et al.

International Journal of Molecular Sciences, Journal Year: 2022, Volume and Issue: 23(20), P. 12292 - 12292

Published: Oct. 14, 2022

The highly transmittable and infectious COVID-19 remains a major threat worldwide, with the elderly comorbid individuals being most vulnerable. While vaccines are currently available, therapeutic drugs will help ease viral outbreak prevent serious health outcomes. Epigenetic modifications regulate gene expression through changes in chromatin structure have been linked to pathophysiology. Since epigenetic contribute life cycle of virus host immune responses infection, promising treatment targets ameliorate COVID-19. Deficiency multifunctional secosteroid hormone vitamin D is global threat. Vitamin its receptor function genes involved immunity, apoptosis, proliferation, differentiation, inflammation. Amassed evidence also indicates biological relations reduced disease risk, while can be modulated by mechanisms. immunomodulatory effects suggest role for as agent. Therefore, this review highlights on proposing infections.

Language: Английский

Citations

13
Severe COVID‐19 patients show a dysregulation of the NLRP3 inflammasome in circulating neutrophils DOI Open Access
Vinícius Nunes Cordeiro Leal,

Milena M. S. Andrade,

Franciane Mouradian Emidio Teixeira

et al.

Scandinavian Journal of Immunology, Journal Year: 2022, Volume and Issue: 97(3)

Published: Dec. 21, 2022

SARS-CoV-2 triggers inflammasome-dependent release of pro-inflammatory cytokine IL-1β and pyroptosis, therefore, contributes to the huge inflammatory response observed in severe COVID-19 patients. Less is known about engagement inflammasome neutrophils, main players tissue injury infection. We studied activation neutrophils from patients assessed its consequence term cells contribution disease pathogenesis. demonstrated that NLRP3 dramatically activated specific inhibition reverts neutrophils' activation. Next, stimulation patients' with common stimuli was not able further activate inflammasome, possibly due exhaustion or increased percentage circulating immature neutrophils. Collectively, our results demonstrate hyperactivated may be responsible for susceptibility subsequent (and lethal) infections. Our findings thus include a novel piece complex puzzle

Language: Английский

Citations

13
Epigenetic rewiring of pathways related to odour perception in immune cells exposed to SARS-CoV-2in vivoandin vitro DOI Creative Commons
Johanna Huoman,

Shumaila Sayyab,

Eirini Apostolou

et al.

Epigenetics, Journal Year: 2022, Volume and Issue: 17(13), P. 1875 - 1891

Published: June 26, 2022

A majority of SARS-CoV-2 recoverees develop only mild-to-moderate symptoms, while some remain completely asymptomatic. Although viruses, including SARS-CoV-2, may evade host immune responses by epigenetic mechanisms DNA methylation, little is known about whether these modifications are important in defence against and healthy recovery from COVID-19 the host. To this end, epigenome-wide methylation patterns convalescents were compared to uninfected controls before after pandemic. Peripheral blood mononuclear cell (PBMC) was extracted controls, convalescents, symptom-free individuals with SARS-CoV-2-specific T cell-responses, as well PBMCs stimulated vitro SARS-CoV-2. Subsequently, Illumina MethylationEPIC 850K array performed, statistical/bioinformatic analyses comprised differential pathway over-representation, module identification analyses. Differential distinguished similar results an experimental infection model. SARS-CoV-2-induced identified vivo, comprising 66 genes which six (TP53, INS, HSPA4, SP1, ESR1, FAS) present corresponding Over-representation revealed involvement Wnt, muscarinic acetylcholine receptor signalling, gonadotropin-releasing hormone pathways. Furthermore, numerous differentially methylated network both settings interacted interactome. Altered suggest leaves longstanding traces. Both vivo exposure caused modulation pathways thataffect odour perception. Future studies should determine reflects host-induced protective antiviral defense or targeted viral hijacking defence.

Language: Английский

Citations

12
Covid-19 And Cancer: Insights Into Their Association And Influence On Genetic And Epigenetic Landscape DOI
Mrinal K. Ghosh,

Sunny Kumar,

Kirat Kumar Ganguly

et al.

Epigenomics, Journal Year: 2023, Volume and Issue: 15(4), P. 227 - 248

Published: Feb. 1, 2023

The COVID-19 outbreak has created disaster globally, and mankind is yet to come in terms with combating this global menace. Amid turmoil, immunocompromised individuals like cancer patients exhibit dismal immune responses toward such infection. In order treat during adverse situations, it necessary understand the phenomena that interlink these two diseased states. Modulation of host epigenetic landscape a key hallmark both viral infections, including COVID-19. Our review aims shed light upon interplay between cancer, primarily through genetic modulations gene expression profile, so as design better therapeutic strategies near future.

Language: Английский

Citations

7
HDAC1-3 inhibition increases SARS-CoV-2 replication and productive infection in lung mesothelial and epithelial cells DOI Creative Commons
Flavia Trionfetti, Tonino Alonzi, Giulio Bontempi

et al.

Frontiers in Cellular and Infection Microbiology, Journal Year: 2023, Volume and Issue: 13

Published: Dec. 13, 2023

Background Despite the significant progress achieved in understanding pathology and clinical management of SARS-CoV-2 infection, still pathogenic issues need to be clarified. Treatment with modulators epigenetic targets, i.e., epidrugs, is a current therapeutic option several cancers could represent an approach therapy viral diseases. Results Aim this study was analysis role histone deacetylase (HDAC) inhibition modulation infection mesothelial cells (MCs). MeT5A cells, pleura MC line, were pre-treated different specific class I IIb HDAC inhibitors. Unexpectedly, treatment HDAC1-3 inhibitors significantly increased ACE2/TMPRSS2 expression, suggesting favoring infection. We focused our on most potent inducer among analysed, MS-275, inhibitor. expression validated by Western Blot (WB) immunofluorescence. The involvement receptor induction confirmed HDAC1/HDAC2 silencing. In accordance data, MS-275 replication virus propagation Vero E6 cells. Notably, able increase production, although lesser extent, also lung adenocarcinoma cell line Calu-3 Mechanistically, H3 H4 acetylation at promoters, increasing their transcription. Conclusion This highlights previously unrecognized effect entry, productive correlating ACE2 TMPRSS2. These while adding basic insight into COVID-19 pathogenesis, warn for use patients.

Language: Английский

Citations

7
Developmental Impacts of Epigenetics and Metabolism in COVID-19 DOI Creative Commons

Noopur C. Naik,

Mansi Patel, Rwik Sen

et al.

Journal of Developmental Biology, Journal Year: 2024, Volume and Issue: 12(1), P. 9 - 9

Published: Feb. 9, 2024

Developmental biology is intricately regulated by epigenetics and metabolism but the mechanisms are not completely understood. The situation becomes even more complicated during diseases where all three phenomena dysregulated. A salient example COVID-19, death toll exceeded 6.96 million in 4 years, while virus continues to mutate into different variants infect people. Early evidence pandemic showed that host’s immune inflammatory responses COVID-19 (like cytokine storm) impacted metabolism, causing damage organs overall physiology. involvement of angiotensin-converting enzyme 2 (ACE2), pivotal host receptor for SARS-CoV-2 virus, was identified linked epigenetic abnormalities along with other contributing factors. Recently, studies have revealed stronger connections between impact development accelerate aging. Patients manifest systemic toxicity, dysfunction multi-organ failure. Single-cell multiomics state-of-the-art high-throughput only just beginning demonstrate extent dysregulation damage. As directly development, there a crucial need research implementing cutting-edge technology, next-generation sequencing, bioinformatics analysis, identification biomarkers clinical trials help prevention therapeutic interventions against similar threats future.

Language: Английский

Citations

2
Adipose tissue and blood leukocytes ACE2 DNA methylation in obesity and after weight loss DOI
Andrea G. Izquierdo, Marcos C. Carreira, Hatim Boughanem

et al.

European Journal of Clinical Investigation, Journal Year: 2021, Volume and Issue: 52(2)

Published: Sept. 28, 2021

Obesity was consistently associated with a poor prognosis in patients COVID-19. Epigenetic mechanisms were proposed as the link between obesity and comorbidities risk.To evaluate methylation levels of angiotensin-converting enzyme 2 (ACE2) gene, main entry receptor SARS-CoV-2, different depots adipose tissue (AT) leukocytes (PBMCs) after weight loss therapy based on very-low-calorie ketogenic diet (VLCKD), balanced hypocaloric (HCD) or bariatric surgery (BS).DNA ACE2 extracted from our data sets generated by hybridization subcutaneous (SAT) (n = 32) visceral (VAT; n tissue, PBMCs 34) samples Infinium HumanMethylation450 BeadChips. Data compared degree 4-6 months either following nutritional surgical treatment correlated transcript levels.As normal weight, VAT showed higher levels. These differences mirrored but not SAT. The observed obesity-associated reversed VLCKD HCD BS. Among studied CpG sites, cg16734967 cg21598868, located at promoter, most affected BMI. DNA pattern inversely expression.Obesity-related shows hypermethylation downregulation gene that is restored reduction therapy. results warrant necessity to further its implication for COVID-19 pathogenesis.

Language: Английский

Citations

15