Integrated NMR and MS analysis of plasma metabolome reveals major changes in inflammatory markers, one-carbon, lipid, and amino acid metabolism in severe and fatal COVID-19 subjects DOI Creative Commons
Marcos C. Gama-Almeida, Lívia Teixeira, Eugênio D. Hottz

et al.

medRxiv (Cold Spring Harbor Laboratory), Journal Year: 2023, Volume and Issue: unknown

Published: May 4, 2023

Abstract Brazil has the second highest COVID-19 death rate while Rio de Janeiro is among states with in country. Although effective vaccines have been developed, it anticipated that ongoing pandemic will transition into an endemic state. Under this scenario, worrisome underlying molecular mechanisms associated disease clinical evolution from mild to severe, as well leading long COVID are not yet fully understood. In study, 1 H Nuclear Magnetic Resonance spectroscopy and Liquid Chromatography-Mass spectrometry-based metabolomics were used identify potential pathways metabolites involved pathophysiology outcome. We prospectively enrolled 35 severe RT-PCR confirmed cases within 72 hours intensive care unit admission, between April July 2020 two reference centers Janeiro, 12 samples non-infected control subjects. Of patients, 18 survivors 17 non-survivors. observed patients had their plasma metabolome significantly changed if compared lower levels of glycerophosphocholine other choline-related metabolites, serine, glycine, betaine, indicating a dysregulation methyl donors one-carbon metabolism. Importantly, non-survivors higher creatine/creatinine, 4-hydroxyproline, gluconic acid N -acetylserine controls, reflecting uncontrolled inflammation, liver kidney dysfunction, insulin resistance these patients. Lipoprotein dynamics amino metabolism also altered Several changes greater women, thus patient’s sex should be considered surveillance achieve better stratification improve outcomes. The incidence outcome after hospital discharge very high Brazil, metabolic alterations may monitor patients’ organs tissues understand long-post COVID-19.

Language: Английский

Critical Needs for Integrated Surveillance: Wastewater-Based and Clinical Epidemiology in Evolving Scenarios with Lessons Learned from SARS-CoV-2 DOI Creative Commons
Annalaura Carducci, Ileana Federigi,

Giulia Lauretani

et al.

Food and Environmental Virology, Journal Year: 2024, Volume and Issue: 16(1), P. 38 - 49

Published: Jan. 2, 2024

Abstract During the COVID-19 pandemic, wastewater-based epidemiology (WBE) and clinical surveillance have been used as tools for analyzing circulation of SARS-CoV-2 in community, but both approaches can be strongly influenced by some sources variability. From challenging perspective integrating environmental data, we performed a correlation analysis between concentrations raw sewage incident cases areas served medium-size wastewater treatment plants (WWTPs) from 2021 to 2023. To this aim, datasets were adjusted several variability: WBE data factors including analytical protocol, flow, population size, while adjustments considered demographic composition population. Then, addressed impact on differences among sewerage networks variations frequency type swab tests due changes political regulatory scenarios. Wastewater significantly correlated when restrictive containment measures limited movements effect ( ρ = 0.50) confirmed exclusively through molecular testing 0.49). Moreover, positive (although weak) arose WWTPs located densely populated 0.37) with shorter lengths 0.28). This study provides methodological interpreting which could also useful other infections. Data evaluation possible bias need carefully integrated

Language: Английский

Citations

12
Competition of SARS-CoV-2 variants on the pandemic transmission dynamics DOI Open Access
Jiaqi Chen,

Changgui Gu,

Zhongyuan Ruan

et al.

Chaos Solitons & Fractals, Journal Year: 2023, Volume and Issue: 169, P. 113193 - 113193

Published: Feb. 10, 2023

Language: Английский

Citations

18
Age-specific transmission dynamics of SARS-CoV-2 during the first 2 years of the pandemic DOI Creative Commons
Otilia Boldea, Amir Alipoor, Sen Pei

et al.

PNAS Nexus, Journal Year: 2024, Volume and Issue: 3(2)

Published: Jan. 31, 2024

During its first 2 years, the SARS-CoV-2 pandemic manifested as multiple waves shaped by complex interactions between variants of concern, non-pharmaceutical interventions, and immunological landscape population. Understanding how age-specific epidemiology has evolved throughout is crucial for informing policy decisions. In this article, we aimed to develop an inference-based modeling approach reconstruct burden true infections hospital admissions in children, adolescents, adults over seven four (wild-type, Alpha, Delta, Omicron BA.1) during years pandemic, using Netherlands motivating example. We find that reported cases are a considerable underestimate generally poor predictor infection burden, especially because case reporting differs age. The contribution children adolescents total hospitalization increased with successive was largest BA.1 period. However, ratio hospitalizations decreased each subsequent variant all age categories. Before Delta period, almost were primary occurring naive individuals. periods, common but relatively rare who experienced either reinfections or breakthrough infections. Our can be used understand through other countries where random community surveys uncovering dynamics absent basic surveillance statistics data available.

Language: Английский

Citations

9
Collateral impacts of pandemic COVID-19 drive the nosocomial spread of antibiotic resistance: A modelling study DOI Creative Commons
David R. Smith, George Shirreff, Laura Temime

et al.

PLoS Medicine, Journal Year: 2023, Volume and Issue: 20(6), P. e1004240 - e1004240

Published: June 5, 2023

Circulation of multidrug-resistant bacteria (MRB) in healthcare facilities is a major public health problem. These settings have been greatly impacted by the Coronavirus Disease 2019 (COVID-19) pandemic, notably due to surges COVID-19 caseloads and implementation infection control measures. We sought evaluate how such collateral impacts nosocomial spread MRB an early pandemic context.We developed mathematical model which Severe Acute Respiratory Syndrome 2 (SARS-CoV-2) cocirculate among patients staff theoretical hospital population. Responses were captured mechanistically via range parameters that reflect SARS-CoV-2 outbreaks on factors relevant for pathogen transmission. responses include both "policy responses" willingly enacted limit transmission (e.g., universal masking, patient lockdown, reinforced hand hygiene) "caseload unwillingly resulting from abandonment antibiotic stewardship, disorganization programmes, extended length stay patients). conducted main sets simulations, we quantified colonization incidence resistance rates (the share antibiotic-resistant versus antibiotic-sensitive strains). The first set simulations represents diverse environments, accounting high levels heterogeneity across bacterial transmission, sensitivity, prevalence newly admitted patients) interindividual contact, exposure, admission/discharge). On average, policies coincided with prevention, including 28.2% [95% uncertainty interval: 2.5%, 60.2%] fewer incident cases colonization. Conversely, favoured 13.8% [-3.5%, 77.0%] increase 10.4% [0.2%, 46.9%] absence concomitant policies. When policy caseload combined, decreased 24.2% [-7.8%, 59.3%], while increased 2.9% [-5.4%, 23.2%]. Impacts varied their respective routes acquisition. second was tailored specific wards (methicillin-resistant Staphylococcus aureus, extended-spectrum beta-lactamase producing Escherichia coli). Consequences found be highly context specific, depending ward evaluated. In particular, significantly only underlying risk Yet species, burden reduced timelier effective policies.Our suggests generate selection bacteria. Timely efficient measures thus has 2-fold benefits, preventing MRB, highlighting as benefit preparedness.

Language: Английский

Citations

16
Systemic Lupus Erythematosus and COVID-19 DOI Creative Commons
Μαρία Παππά, Alexandros Panagiotopoulos, Κonstantinos Thomas

et al.

Current Rheumatology Reports, Journal Year: 2023, Volume and Issue: 25(10), P. 192 - 203

Published: July 21, 2023

To describe the current state of knowledge regarding COVID-19 in patients with systemic lupus erythematosus (SLE). We focus on (i) SARS-CoV-2 vaccination uptake, immunogenicity and safety, (ii) outcomes SLE pertinent risk factors for adverse sequelae. Notwithstanding potential concern about possible post-vaccination side-effects, safety anti-SARS-CoV-2 vaccines has been undisputedly confirmed numerous studies. Humoral is generally attained SLE, although affected by use background immunosuppressive drugs, especially rituximab. The latter also clearly implicated including need hospitalization, mechanical ventilation death. Although wide adoption significantly improved outcomes, continue to pose challenges during pandemic, mainly owing administered medications.

Language: Английский

Citations

12
Single-Center Experience in Detecting Influenza Virus, RSV and SARS-CoV-2 at the Emergency Department DOI Creative Commons
Manfred Nairz,

Theodora Todorovic,

Clemens M. Gehrer

et al.

Viruses, Journal Year: 2023, Volume and Issue: 15(2), P. 470 - 470

Published: Feb. 8, 2023

Reverse transcription polymerase chain reaction (RT-PCR) on respiratory tract swabs has become the gold standard for sensitive and specific detection of influenza virus, syncytial virus (RSV) severe acute syndrome coronavirus 2 (SARS-CoV-2). In this retrospective analysis, we report successive implementation routine use multiplex RT-PCR testing patients admitted to Internal Medicine Emergency Department (ED) at a tertiary care center in Western Austria, one hotspots early disease 2019 (COVID-19) pandemic Europe. Our description focuses Cepheid® Xpert® Xpress closed system point-of-care (POCT). indications changed during observation period: From cold season 2016/2017 until 2019/2020, used diagnose or RSV infection with fever and/or symptoms. Starting March 2020, SARS-CoV-2 version combined all these three viruses also screen subjects who did not present symptoms but needed in-hospital medical treatment other reasons. Expectedly, switch more liberal test strategy resulted substantial increase number tests. Nevertheless, observed an immediate decline detections 2020 that coincided public containment measures. contrast, extensive enabled us monitor re-emergence detections, including asymptomatic cases, end 2022 when COVID-19 measures were no longer place. analysis PCR results from real-life setting ED provides valuable information epidemiology those infections over several years, their contribution morbidity need hospital admission, risk nosocomial introduction such into hospitals carriers, guidance as how general precautions prophylactic strategies affect dynamics infections.

Language: Английский

Citations

10
Forecasting the Endemic/Epidemic Transition in COVID-19 in Some Countries: Influence of the Vaccination DOI Creative Commons

Jules Waku,

Kayode Oshinubi, Umar Muhammad Adam

et al.

Diseases, Journal Year: 2023, Volume and Issue: 11(4), P. 135 - 135

Published: Oct. 3, 2023

The objective of this article is to develop a robust method for forecasting the transition from endemic epidemic phases in contagious diseases using COVID-19 as case study.Seven indicators are proposed detecting endemic/epidemic transition: variation coefficient, entropy, dominant/subdominant spectral ratio, skewness, kurtosis, dispersion index and normality index. Then, principal component analysis (PCA) offers score built seven first PCA component, its performance estimated ability predict entrance exponential growth phase.This applied retro-prediction transitions outbreak various countries which has good predicting power.This research valuable tool early detection, aiding effective public health responses.

Language: Английский

Citations

9
Integrated analyses of the transmission history of SARS-CoV-2 and its association with molecular evolution of the virus underlining the pandemic outbreaks in Italy, 2019-2023 DOI Creative Commons
Eleonora Cella, Vagner Fonseca, Francesco Branda

et al.

International Journal of Infectious Diseases, Journal Year: 2024, Volume and Issue: 149, P. 107262 - 107262

Published: Oct. 9, 2024

Language: Английский

Citations

3
Societal self-regulation induces complex infection dynamics and chaos DOI Creative Commons
Joël Wagner, S. H. Bauer, Sebastián Contreras

et al.

Physical Review Research, Journal Year: 2025, Volume and Issue: 7(1)

Published: March 24, 2025

Classically, endemic infectious diseases are expected to display relatively stable, predictable infection dynamics. Accordingly, basic disease models such as the susceptible-infected-recovered-susceptible model stable states or recurrent seasonal waves. However, if human population reacts high numbers by mitigating spread of disease, then this delayed behavioral feedback loop can generate waves itself, driven periodic mitigation and subsequent relaxation. We show that reactions, together with a effect comparable impact, cause complex unpredictable dynamics, including Arnold tongues, coexisting attractors, chaos. Importantly, these arise in epidemiologically relevant parameter regions where costs associated infections jointly minimized. By comparing our data, we find signs COVID-19 was mitigated way favored Our results challenge intuition dynamics necessarily implies predictability emergence when humans optimize their reaction increasing numbers. Published American Physical Society 2025

Language: Английский

Citations

0
Non-human primate seasonal transcriptome atlas reveals seasonal changes in physiology and diseases DOI Creative Commons
Junfeng Chen, Kousuke Okimura,

Liang Ren

et al.

Nature Communications, Journal Year: 2025, Volume and Issue: 16(1)

Published: April 28, 2025

Language: Английский

Citations

0