Unraveling metabolic signatures in SARS-CoV-2 variant infections using multiomics analysis DOI Creative Commons
Sun‐Ho Lee, Ju‐Eun Lee, Kwang‐Soo Lyoo

et al.

Frontiers in Immunology, Journal Year: 2024, Volume and Issue: 15

Published: Dec. 11, 2024

Introduction The emergence of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) variants, notably delta and omicron, has significantly accelerated the global pandemic, worsening conditions worldwide. However, there is a lack research concerning molecular mechanisms related to immune responses metabolism induced by these variants. Methods Here, metabolomics combined with transcriptomics was performed elucidate immunometabolic changes in lung hamsters infected omicron Results Both variants caused inflammation pathology intranasally hamsters. Principal component analysis uncovered variant altered metabolite levels between pre- post-infection states. Additionally, metabolic pathways determined assessment metabolites genes revealed significant alterations arginine biosynthesis, glutathione metabolism, tryptophan upon infection both closely linked inflammatory cytokines, indicating activation oxidative stress response These were also evident serum, validating presence systemic corresponding those identified lung. Notably, more robust regulation than variant. Discussion study suggests that multi-omics valuable approach for understanding infectious diseases, providing insights effective treatment strategies.

Language: Английский

Metabolomics Approaches for the Diagnosis, Treatment, and Better Disease Management of Viral Infections DOI Creative Commons
Haya Al‐Sulaiti, Jehad Almaliti, C. Benjamin Naman

et al.

Metabolites, Journal Year: 2023, Volume and Issue: 13(8), P. 948 - 948

Published: Aug. 15, 2023

Metabolomics is an analytical approach that involves profiling and comparing the metabolites present in biological samples. This scoping review article offers overview of current metabolomics approaches their utilization evaluating metabolic changes fluids occur response to viral infections. Here, we provide methods including high-throughput chemistry multivariate data analysis identify specific associated with also focuses on interpretation applications designed improve our understanding pathogenesis these diseases.

Language: Английский

Citations

11
4D-DIA Proteomics Uncovers New Insights into Host Salivary Response Following SARS-CoV-2 Omicron Infection DOI Creative Commons
Iasmim Lopes de Lima, Thaís Regiani Cataldi, Carlos Brites

et al.

Journal of Proteome Research, Journal Year: 2025, Volume and Issue: 24(2), P. 499 - 514

Published: Jan. 13, 2025

Since late 2021, Omicron variants have dominated the epidemiological scenario as most successful severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) sublineages, driving new and breakthrough infections globally over past two years. In this study, we investigated for first time host salivary response of COVID-19 patients infected with (BA.1, BA.2, BA.4/5) by using an untargeted four-dimensional data-independent acquisition (4D-DIA)-based proteomics approach. We identified 137 proteins whose abundance levels differed between positive negative groups. Salivary signatures were mainly enriched in ribosomal proteins, linked to mRNAviral translation, protein synthesis processing, immune innate, antiapoptotic signaling. The higher 14-3-3 (YWHAG, YWHAQ, YWHAE, SFN) saliva, reported here, may be associated increased infectivity improved viral replicative fitness. also seven (ACTN1, H2AC2, GSN, NDKA, CD109, GGH, PCYOX) that yielded comprehension into infection performed outstandingly screening a hospital setting. This panel presented enhanced anti-COVID-19 anti-inflammatory signature, providing insights disease severity, supported comparisons other proteome data sets. signature provided valuable host's SARS-CoV-2 infection, shedding light on pathophysiology COVID-19, particularly cases mild disease. It underscores potential clinical applications saliva settings. Data are available via ProteomeXchange identifier PXD054133.

Language: Английский

Citations

0
Fast screening of COVID-19 inpatient samples by integrating machine learning and label-free SERS methods DOI

Jaya Sitjar,

Huey‐Pin Tsai, Han Lee

et al.

Analytica Chimica Acta, Journal Year: 2025, Volume and Issue: 1350, P. 343872 - 343872

Published: Feb. 25, 2025

Language: Английский

Citations

0
Immunogenic shift of arginine metabolism triggers systemic metabolic and immunological reprogramming to suppress HER2 + breast cancer DOI Creative Commons
Vandana Sharma, Veani Fernando,

Xunzhen Zheng

et al.

Cancer & Metabolism, Journal Year: 2025, Volume and Issue: 13(1)

Published: March 20, 2025

Arginine metabolism in tumors is often shunted into the pathway producing pro-tumor and immune suppressive polyamines (PAs), while downmodulating alternative nitric oxide (NO) synthesis pathway. Aiming to correct arginine tumors, deprivation therapy inhibitors of PA have been developed. Despite some therapeutic advantages, these approaches yielded severe side effects, making it necessary explore an strategy. We previously reported that supplementing sepiapterin (SEP), endogenous precursor tetrahydrobiopterin (BH4, essential NO synthase cofactor), could tumor cells tumor-associated macrophages (TAMs) induce their metabolic phenotypic reprogramming. saw oral SEP treatment effectively suppressed growth HER2-positive mammary animals. also has no dose-dependent toxicity clinical trials for disorders. In present study, we tested our hypothesis a long-term administration individuals susceptible would protect them against occurrence. administered SEP, comparison control DMSO, MMTV-neu mice 8 months starting at pre-pubertal stage. monitored onsets determine rate tumor-free survival. After treatment, grouped animals DMSO with or without tumors. analyzed blood metabolites, PBMC, bone marrow vs. treated found use These SEP-treated had undergone reprogramming systemic immunity, elevating total T cell counts circulation marrow. Given marrow-resident are mostly memory cells, plausible chronic promoted formation, leading potent prevention. findings suggest possible roles SEP/BH4/NO axis promoting formation its potential utility preventing breast cancer.

Language: Английский

Citations

0
Metabolomic Insights into COVID-19 Severity: A Scoping Review DOI Creative Commons
E. Pimentel,

Mohammad Mehdi Banoei,

Jasnoor Kaur

et al.

Metabolites, Journal Year: 2024, Volume and Issue: 14(11), P. 617 - 617

Published: Nov. 12, 2024

Background: In 2019, SARS-CoV-2, the novel coronavirus, entered world scene, presenting a global health crisis with broad spectrum of clinical manifestations. Recognizing significance metabolomics as omics closest to symptomatology, it has become useful tool for predicting outcomes. Several metabolomic studies have indicated variations in metabolome corresponding different disease severities, highlighting potential unravel crucial insights into pathophysiology SARS-CoV-2 infection. Methods: The PRISMA guidelines were followed this scoping review. Three major scientific databases searched: PubMed, Directory Open Access Journals (DOAJ), and BioMed Central, from 2020 2024. Initially, 2938 articles identified vetted specific inclusion exclusion criteria. Of these, 42 retrieved analysis summary. Results: Metabolites that repeatedly noted change COVID-19 its severity. Phenylalanine, glucose, glutamic acid increased severity, while tryptophan, proline, glutamine decreased, their association Additionally, pathway revealed phenylalanine, tyrosine tryptophan biosynthesis, arginine biosynthesis most significantly impacted pathways Conclusions: severity is intricately linked significant metabolic alterations span amino metabolism, energy production, immune response modulation, redox balance.

Language: Английский

Citations

3
Starve a cold or feed a fever? Identifying cellular metabolic changes following infection and exposure to SARS-CoV-2 DOI Creative Commons
Emma K. Loveday, Hope D. Welhaven, Ayten Ebru Erdogan

et al.

PLoS ONE, Journal Year: 2025, Volume and Issue: 20(2), P. e0305065 - e0305065

Published: Feb. 12, 2025

Viral infections induce major shifts in cellular metabolism elicited by active viral replication and antiviral responses. For the virus, harnessing evading changes that limit are essential for productive replication. In contrast, response to infection disrupts metabolic pathways prevent promote an state host cell neighboring bystander cells. This competition between virus results measurable differ depending on type, extracellular environment. The resulting can be observed analyzed using global profiling techniques identify critical either or defense. SARS-CoV-2 is a respiratory exhibit broad tissue tropism diverse, yet inconsistent, symptomatology. While factors determine presentation severity of remain unclear, syndromes associated with more severe manifestations disease. Despite these observations knowledge gap remains responses infection. Using well-established untargeted metabolomics analysis workflow, we compared human lung carcinoma We identified significant correlate non-productive information characterizing contribute could targeted therapeutic interventions

Language: Английский

Citations

0
Growth hormone treatment for neurologic symptoms of post‐acute sequelae of COVID‐19 DOI Creative Commons
Traver J. Wright, Melinda Sheffield‐Moore, Richard B. Pyles

et al.

Clinical and Translational Science, Journal Year: 2024, Volume and Issue: 17(6)

Published: June 1, 2024

Abstract Following SARS‐CoV‐2 infection, some patients develop lingering neurologic symptoms of post‐acute sequelae COVID‐19 (PASC) that commonly include fatigue and “brain fog.” PASC are also linked with reduced growth hormone (GH) secretion, but GH treatment has not been tested to relieve symptoms. We enrolled 13 adults peak stimulated secretion less than 10 ng/mL (glucagon stimulation) in a pilot study receive 9 months daily injections an additional 3 off‐treatment assessment. compared at baseline 12 assessed measures cognition, metabolism, body composition, physical performance over the first 6 treatment. Patient‐reported outcomes fatigue, quality life, sleep, mood were recorded timepoints 6, 9, months. was associated significantly improved scores for Brief Fatigue Inventory, Multidimensional Symptom Quality Life Assessment Growth Hormone Deficiency Adults, Profile Mood States, Beck Depression Inventory‐II, no significant change Pittsburgh Sleep Index. Six adjunct changes resting energy expenditure, or performance. Peak altered following altered.

Language: Английский

Citations

3
Exploring metabolic anomalies in COVID-19 and post-COVID-19: a machine learning approach with explainable artificial intelligence DOI Creative Commons
Juan José Oropeza-Valdez, Cristian Padrón-Manrique, Aarón Vázquez-Jiménez

et al.

Frontiers in Molecular Biosciences, Journal Year: 2024, Volume and Issue: 11

Published: Sept. 9, 2024

The COVID-19 pandemic, caused by SARS-CoV-2, has led to significant challenges worldwide, including diverse clinical outcomes and prolonged post-recovery symptoms known as Long COVID or Post-COVID-19 syndrome. Emerging evidence suggests a crucial role of metabolic reprogramming in the infection's long-term consequences. This study employs novel approach utilizing machine learning (ML) explainable artificial intelligence (XAI) analyze alterations patients. Samples were taken from cohort 142 COVID-19, 48 Post-COVID-19, 38 control patients, comprising 111 identified metabolites. Traditional analysis methods, like PCA PLS-DA, compared with ML techniques, particularly eXtreme Gradient Boosting (XGBoost) enhanced SHAP (SHapley Additive exPlanations) values for explainability. XGBoost, combined SHAP, outperformed traditional demonstrating superior predictive performance providing new insights into basis disease's progression aftermath. revealed metabolomic subgroups within conditions, suggesting heterogeneous responses infection its impacts. Key signatures include taurine, glutamine, alpha-Ketoglutaric acid, LysoPC C16:0. highlights potential integrating XAI fine-grained description metabolomics research, offering more detailed understanding anomalies conditions.

Language: Английский

Citations

2
Integrative proteomics and metabolomics study reveal enhanced immune responses by COVID‐19 vaccine booster shot against Omicron SARS‐CoV‐2 infection DOI Open Access
Beili Wang, Wenjing Yang,

Yexin Tong

et al.

Journal of Medical Virology, Journal Year: 2023, Volume and Issue: 95(11)

Published: Nov. 1, 2023

Since its outbreak in late 2021, the Omicron variant of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has been widely reported to be able evade neutralizing antibodies, becoming more transmissible while causing milder symptoms than previous SARS-CoV-2 strains. Understanding underlying molecular changes infection and corresponding host responses are important control COVID-19 pandemic. In this study, we report an integrative proteomics metabolomics investigation serum samples from 80 patients infected with SARS-CoV-2, as well 160 healthy individuals who had flu-like but were negative for infection. The multiomics results indicated that caused significant proteome metabolome comparing controls without COVID-19. Protein metabolite also pointed liver dysfunctions potential damage other organs by could roughly divided into two subgroups based on their differences. Interestingly, subgroup mostly received full vaccination booster shot fewer coughing symptom, changed sphingomyelin lipid metabolism, stronger immune including higher numbers lymphocytes, monocytes, neutrophils, upregulated proteins related CD4+ T cells, CD8+ effector memory cells (Tem), conventional dendritic revealing beneficial effects against through changes.

Language: Английский

Citations

6
Amino Acid Metabolism in Leukocytes Showing In Vitro IgG Memory from SARS-CoV2-Infected Patients DOI Creative Commons
Giuseppina Fanelli,

Veronica Lelli,

Sara Rinalducci

et al.

Diseases, Journal Year: 2024, Volume and Issue: 12(3), P. 43 - 43

Published: Feb. 23, 2024

The immune response to infectious diseases is directly influenced by metabolic activities. COVID-19 a disease that affects the entire body and can significantly impact cellular metabolism. Recent studies have focused their analysis on potential connections between post-infection stages of SARS-CoV2 different pathways. spike S1 antigen was found in vitro IgG antibody memory for PBMCs when obtaining PBMC cultures 60–90 days post infection, significant increase S-adenosyl homocysteine, sarcosine, arginine detected mass spectrometric analysis. involvement these metabolites physiological recovery from viral infections activity well documented, they may provide new simple method better comprehend leukocytes. Moreover, there change metabolism tryptophan urea cycle pathways leukocytes with memory. With data, together results literature, it seems leukocyte reprogrammed after pathogenesis activating certain amino acid pathways, which be related protective immunity against SARS-CoV2.

Language: Английский

Citations

1