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27 pages, 3990 KiB  
Article
A Randomized, Blinded, Vehicle-Controlled Dose-Ranging Study to Evaluate and Characterize Remdesivir Efficacy Against Ebola Virus in Rhesus Macaques
by Elizabeth E. Zumbrun, Carly B. Garvey, Jay B. Wells, Ginger C. Lynn, Sean A. Van Tongeren, Jesse T. Steffens, Kelly S. Wetzel, Darrell L. Wetzel, Heather L. Esham, Nicole L. Garza, Eric D. Lee, Jennifer L. Scruggs, Franco D. Rossi, Elizabeth S. Brown, Jessica M. Weidner, Laura M. Gomba, Kristan A. O’Brien, Alexandra N. Jay, Xiankun Zeng, Kristen S. Akers, Paul A. Kallgren, Ethan Englund, J. Matthew Meinig, Jeffrey R. Kugelman, Joshua L. Moore, Holly A. Bloomfield, Sarah L. Norris, Tameka Bryan, Christie H. Scheuerell, Jesse Walters, Nevena Mollova, Christiana Blair, Darius Babusis, Tomas Cihlar, Danielle P. Porter, Bali Singh, Charlotte Hedskog, Sina Bavari, Travis K. Warren and Roy Bannisteradd Show full author list remove Hide full author list
Viruses 2024, 16(12), 1934; https://doi.org/10.3390/v16121934 - 18 Dec 2024
Viewed by 369
Abstract
Ebola virus (EBOV) causes severe disease in humans, with mortality as high as 90%. The small-molecule antiviral drug remdesivir (RDV) has demonstrated a survival benefit in EBOV-exposed rhesus macaques. Here, we characterize the efficacy of multiple intravenous RDV dosing regimens on survival of [...] Read more.
Ebola virus (EBOV) causes severe disease in humans, with mortality as high as 90%. The small-molecule antiviral drug remdesivir (RDV) has demonstrated a survival benefit in EBOV-exposed rhesus macaques. Here, we characterize the efficacy of multiple intravenous RDV dosing regimens on survival of rhesus macaques 42 days after intramuscular EBOV exposure. Thirty rhesus macaques underwent surgical implantation of telemetry devices for the fine-scale monitoring of body temperature and activity, as well as central venous catheters, to enable treatment administration and blood collection. Treatment, consisting of a loading dose of RDV followed by once-daily maintenance doses for 11 days, was initiated 4 days after virus exposure when all animals were exhibiting disease signs consistent with incipient EBOV disease as well as quantifiable levels of EBOV RNA in plasma. In the RDV treatment groups receiving loading/maintenance doses of 5/2.5 mg/kg, 10/5 mg/kg, and 20/10 mg/kg, a total of 6 of 8 (75%), 7 of 8 (87.5%), and 5 of 7 (71.4%) animals survived, respectively. In the vehicle control group, one of seven animals (14.3%) survived. The improved survival rate compared to the control group was statistically significant only for the 10/5 mg/kg RDV treatment group. This treatment regimen also resulted in a significantly lower systemic viral load compared to the vehicle control after a single RDV treatment. All three RDV regimens produced a significantly lower systemic viral load after two treatments. For most animals, RDV treatment, regardless of dose, resulted in the amelioration of many of the clinical–pathological changes associated with EBOV disease in this model. Full article
(This article belongs to the Section Viral Immunology, Vaccines, and Antivirals)
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Figure 1
<p>Kaplan–Meier plot of animal survival in each treatment group.</p>
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<p>Schematic of daily maximum responsiveness scores by individual animal. All animals were assessed daily and assigned a score of physical signs and responses based on the following criteria: 0 = alert, responsive, normal species-specific behavior; 1 = slightly diminished general activity, subdued, but responds normally to external stimuli; 2 = withdrawn, may have head down, upright fetal posture, hunched, reduced response to external stimuli; 3 = prostrate but able to rise if stimulated or dramatically reduced response to external stimuli; 4 = persistently prostrate, severely or completely unresponsive. The scores shown are the highest for each day. Animals were considered moribund and were euthanized upon assignment of a responsiveness score of 4. One animal in Group 4 was euthanized due to serum chemistry findings, consistent with kidney failure despite a responsiveness score of 3. One animal in Group 1 was found deceased (FD).</p>
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<p>Group mean plasma viral RNA over time. Vertical bars show the standard deviation. Dotted lines show the limit of detection (LOD = 3 log<sub>10</sub> ge/mL) and the lower limit of quantitation (LLOQ = 4.903 log<sub>10</sub> ge/mL). For display and analyses, EBOV RNA values below the LOD were imputed as 3 log<sub>10</sub> ge/mL; values above the LOD but below the LLOQ (“&gt;LOD, &lt;LLOQ”) were imputed as 4.903 log<sub>10</sub> ge/mL. The X-axis has been truncated to highlight responses during the acute phase of disease. Data for days on which only terminal samples were obtained from animals that succumbed are not included.</p>
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<p>Group mean GS-5734, GS-704277, and GS-441524 concentrations in rhesus monkey plasma samples, as measured using liquid chromatography coupled with tandem mass spectrometry. Vertical bars show the standard deviation.</p>
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<p>Body temperature and activity measured by telemetry. Days post-inoculation are calendar days. Vertical bars in all figures represent the standard error of the mean. Max ∆T, or maximum daily temperature elevation, is the largest change in temperature value for the 24 h daily time period. % TE<sub>Sig</sub> duration is the percentage of the 24 h daily time period during which body temperatures were significantly elevated.</p>
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<p>Timing of statistically significant clinicopathologic changes. The <span class="html-italic">p</span>-values shown represent the comparison to baseline within each group. Alb, albumin; Creat, creatinine; Fbg, fibrinogen; Hct, hematocrit; Hgb, hemoglobin; Lymph, lymphocytes; Neut, neutrophils; Plt, platelets; RBC, red blood cells; TP, total protein. White cells denote a lack of significance; pink shading is a heatmap, with deeper pink denoting greater significance. <span class="html-italic">p</span>-values of 0.999 are &gt;0.999.</p>
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<p>Hematological and inflammatory parameters. Figures show group means by day; vertical bars represent standard deviation. RBC, red blood cells; #, absolute numbers.</p>
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<p>Coagulation parameters. Figures show group means by day; vertical bars represent standard deviation. APTT, activated partial thromboplastin time; PT, prothrombin time.</p>
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<p>Hepatocellular parameters. Figures show group means by day; vertical bars represent standard deviation. ALT, alanine aminotransferase; AST, aspartate aminotransferase.</p>
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<p>Renal parameters. Figures show group means by day; vertical bars represent standard deviation.</p>
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14 pages, 2324 KiB  
Article
Newly Proposed Dose of Daclatasvir to Prevent Lethal SARS-CoV-2 Infection in Human Transgenic ACE-2 Mice
by Mayara Mattos, Carolina Q. Sacramento, André C. Ferreira, Natalia Fintelman-Rodrigues, Filipe S. Pereira-Dutra, Caroline Souza de Freitas, João S. M. Gesto, Jairo R. Temerozo, Aline de Paula Dias Da Silva, Mariana T. G. Moreira, Rafael S. C. Silva, Gabriel P. E. Silveira, Douglas P. Pinto, Heliana M. Pereira, Laís B. Fonseca, Marcelo Alves Ferreira, Camilla Blanco, João P. B. Viola, Dumith Chequer Bou-Habib, Patrícia T. Bozza and Thiago Moreno L. Souzaadd Show full author list remove Hide full author list
Viruses 2024, 16(12), 1856; https://doi.org/10.3390/v16121856 - 29 Nov 2024
Viewed by 707
Abstract
Coronavirus disease 2019 (COVID-19) still causes death in elderly and immunocompromised individuals, for whom the sustainability of the vaccine response may be limited. Antiviral treatments, such as remdesivir or molnupiravir, have demonstrated limited clinical efficacy. Nirmatrelvir, an acute respiratory syndrome coronavirus 2 (SARS-CoV-2) [...] Read more.
Coronavirus disease 2019 (COVID-19) still causes death in elderly and immunocompromised individuals, for whom the sustainability of the vaccine response may be limited. Antiviral treatments, such as remdesivir or molnupiravir, have demonstrated limited clinical efficacy. Nirmatrelvir, an acute respiratory syndrome coronavirus 2 (SARS-CoV-2) major protease inhibitor, is clinically effective but has been associated with viral rebound and antiviral resistance. It is thus necessary to study novel and repurposed antivirals for the treatment of COVID-19. We previously demonstrated that daclatasvir (DCV), an inhibitor of the hepatitis C virus (HCV) NS5A protein, impairs SARS-CoV-2 replication by targeting viral RNA polymerase and exonuclease, but the doses of DCV used to inhibit the new coronavirus are greater than the standard human plasma exposure for hepatitis C. Because any potential use of DCV against SARS-CoV-2 would be shorter than that reported here and short-term toxicological studies on DCV show that higher doses are tolerable, we searched for doses of DCV that could protect transgenic mice expressing the human ACE2 receptor (K18-hACE-2) from lethal challenge with SARS-CoV-2. We found that a dose of 60 mg/kg/day provides this protection by reducing virus replication and virus-induced lung insult. This dose is tolerable in different animal models. Taken together, our data provide preclinical evidence that can support phase I clinical trials to confirm the safety, tolerability, and pharmacokinetics of new doses of daclatasvir for a short duration in humans to further advance this compound’s utility against COVID-19. Full article
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Figure 1
<p>The effect of daclatasvir (DCV) on hACE2 mice infected with SARS-CoV-2. Transgenic hACE2 mice (10–12 weeks old) were intranasally infected with 10<sup>5</sup> PFU of SARS-CoV-2 and treated via gavage with the indicated doses of DCV approximately 12 h after infection. The animals were observed daily for survival (<b>A</b>), changes in body weight (<b>B</b>), and clinical score (<b>C</b>). The clinical score included assessments of weight loss, reduced activity and exploration, eye closure or tearing, piloerection, posture, and respiration. Analyses were performed with at least 10 animals per experimental group; * <span class="html-italic">p</span> &lt; 0.05,compared with SARS-CoV-2-infected/untreated (nil) animals. The dotted line in (<b>B</b>) represents a 25% decrease in body weight, which was considered the experimental endpoint at which to euthanize the mice to avoid suffering.</p>
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<p>Daclatasvir reduced SARS-CoV-2 replication in the lungs of infected hACE2 mice. Transgenic hACE2 mice (10–12 weeks old) were infected with 10<sup>5</sup> PFU of SARS-CoV-2 and treated with 60 mg/kg/day of daclatasvir (DCV) 12 h after infection. On the sixth day after infection, the animals were euthanized, and the lungs were collected. Viral RNA (<b>A</b>) and viral titers (<b>B</b>) were determined by quantitative RT–PCR and plaque assay (PFU/mL), respectively. Viral RNA was also subjected to unbiased sequencing via an MGI-g400 apparatus (<b>C</b>). All analyses were conducted with eight animals per experimental group; * <span class="html-italic">p</span> &lt; 0.05 compared with SARS-CoV-2-infected/untreated (nil) animals.</p>
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<p>Daclatasvir reduces inflammation in hACE2 mice infected with SARS-CoV-2. Transgenic hACE2 mice (10–12 weeks old) were infected with 10<sup>5</sup> PFU of SARS-CoV-2 and treated with 60 mg/kg/d of daclatasvir (DCV) 12 h after infection. On the sixth day postinfection, BAL fluid and lungs from euthanized mice were collected to measure LDH levels (<b>A</b>), polymorphonuclear and mononuclear cells were counted (<b>B</b>), and the levels of TNF-α (<b>C</b>,<b>F</b>), IL-6 (<b>D</b>,<b>G</b>), and KC (<b>E</b>,<b>H</b>) were measured. * Indicates <span class="html-italic">p</span> &lt; 0.05.</p>
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<p>Representative histological assessment via hematoxylin and eosin (H&amp;E) staining (<b>A</b>) (the presence of proteinaceous debris in the alveolar space = cyan arrows), (hyaline membrane formation = yellow arrows) of mouse lungs from the sixth day after infection. The histological scores of the lungs were determined after the mock, nil, and daclatasvir treatments (<b>B</b>). The immunohistochemistry results for dsRNA ((<b>C</b>), amber-colored cells indicated by red arrows/blue boxes for dsRNA) from three independent experiments are presented. Scale bar in (<b>A</b>) = 1000 µm. Scale bar in (<b>C</b>) = 100 µm. All analyses were performed with five animals per experimental group; *** <span class="html-italic">p</span> &lt; 0.001 compared with SARS-CoV-2-infected and untreated animals (nil).</p>
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<p>Pharmacokinetics of a single oral treatment with daclatasvir at 60 mg/kg orally. Five-week-old Swiss Webster mice were orally administered daclatasvir. At specified time points postadministration, the levels of daclatasvir were measured in both plasma and lung tissue. The lung samples were homogenized via an Ultra-Turrax Disperser (T-10 basic, IKA) for 30 s prior to analysis.</p>
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14 pages, 1473 KiB  
Brief Report
Assessment of Favipiravir and Remdesivir in Combination for SARS-CoV-2 Infection in Syrian Golden Hamsters
by Megan Neary, Eduardo Gallardo-Toledo, Joanne Sharp, Joanne Herriott, Edyta Kijak, Chloe Bramwell, Helen Cox, Lee Tatham, Helen Box, Paul Curley, Usman Arshad, Rajith K. R. Rajoli, Henry Pertinez, Anthony Valentijn, Shaun H. Pennington, Claire H. Caygill, Rose C. Lopeman, Giancarlo A. Biagini, Anja Kipar, James P. Stewart and Andrew Owenadd Show full author list remove Hide full author list
Viruses 2024, 16(12), 1838; https://doi.org/10.3390/v16121838 - 27 Nov 2024
Viewed by 545
Abstract
Favipiravir (FVP) and remdesivir (RDV) have demonstrable antiviral activity against SARS-CoV-2. Here, the efficacy of FVP, RDV, and FVP with RDV (FVP + RDV) in combination was assessed in Syrian golden hamsters challenged with SARS-CoV- 2 (B.1.1.7) following intraperitoneal administration. At day 4 [...] Read more.
Favipiravir (FVP) and remdesivir (RDV) have demonstrable antiviral activity against SARS-CoV-2. Here, the efficacy of FVP, RDV, and FVP with RDV (FVP + RDV) in combination was assessed in Syrian golden hamsters challenged with SARS-CoV- 2 (B.1.1.7) following intraperitoneal administration. At day 4 post infection, viral RNA and viral antigen expression were significantly lower in lungs for all three treatment groups compared to the sham treatment. Similarly, viral titres in the lungs were lower in all treatment groups compared to the sham treatment. The FVP + RDV combination was the only treatment group where viral RNA in nasal turbinate and lung, virus titres in lung, and viral antigen expression (lung) were all lower than those for the sham treatment group. Moreover, lower viral titre values were observed in the FVP + RDV group compared to other treatment groups, albeit only significantly lower in comparison to those in the RDV-only-treated group. Further assessment of the potential utility of FVP in combination with RDV may be warranted. Future studies should also consider whether the combination of these two drugs may reduce the speed at which drug resistance mutations are selected. Full article
(This article belongs to the Section Viral Immunology, Vaccines, and Antivirals)
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Figure 1
<p>Percentage weight change of each treatment group throughout the entire study duration. Hamsters in each treatment group (n = 4) were weighed every day from day −1 to day 4. Weights are represented as a percentage of the initial weight measured at the beginning of the study, on day −1. (<b>A</b>) Sham treatment vs FVP, (<b>B</b>) sham treatment vs RDV, (<b>C</b>) sham treatment vs FVP + RDV, and (<b>D</b>) FVP vs. RDV vs. FVP + RDV. Two-way ANOVA multiple comparison with Bonferroni correction was used to determine statistical significance. * = <span class="html-italic">p</span> ≤ 0.05, ** = <span class="html-italic">p</span> ≤ 0.01, *** = <span class="html-italic">p</span> ≤ 0.001, **** = <span class="html-italic">p</span> ≤ 0.0001. Dotted lines represent standard deviations.</p>
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<p>Viral quantification (N-RNA) and lung viral titres (PFU/µg of protein) of SARS-CoV-2 from samples of each treatment group (n = 4) at day 4. (<b>A</b>) Nasal turbinate and (<b>B</b>) lung copies of viral N-RNA/µg of RNA, relative to 18S, from each treatment group. Statistical significance between the sham treatment group and treated groups was determined using a nonparametric Mann–Whitney test (one-tailed, <span class="html-italic">p</span> ≤ 0.05). (<b>C</b>) Sham treatment group samples were processed separately from the treatment groups (hence no statistical comparison could be performed). Statistical significance between the different treatment groups (FVP vs. RDV, FVP vs. FVP + RDV, and RDV vs. FVP + RDV) was determined using a nonparametric Mann–Whitney test (one-tailed, <span class="html-italic">p</span> ≤ 0.05). Lung viral titres from the FVP + RDV combination group were lower in comparison to the FVP and RDV monotherapy groups but only significantly different from the latter. ns = not statistically significant, * = <span class="html-italic">p</span> ≤ 0.05. LOD: limit of detection (indicated by dotted line).</p>
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<p>Morphometric analysis to compare the extent of viral antigen expression in the different treatment groups. (<b>A</b>) The extent of viral antigen expression is determined as percentage area of viral nucleocapsid protein (NP) expression in the area covered by the lung section. Statistical significance between the sham treatment group (n = 4) and the corresponding treated group (n = 4) was determined using an unpaired t-test (two-tailed, <span class="html-italic">p</span> ≤ 0.05). ** = <span class="html-italic">p</span> ≤ 0.01. (<b>B</b>) Correlation of viral N-RNA levels (as copies of N-RNA/µg of RNA, relative to 18S) and the extent of viral NP expression (as percentage area of viral antigen in the lung section).</p>
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19 pages, 8146 KiB  
Article
Computational Insights into Acrylamide Fragment Inhibition of SARS-CoV-2 Main Protease
by Ping Chen, Liyuan Wu, Bo Qin, Haodong Yao, Deting Xu, Sheng Cui and Lina Zhao
Curr. Issues Mol. Biol. 2024, 46(11), 12847-12865; https://doi.org/10.3390/cimb46110765 - 12 Nov 2024
Viewed by 812
Abstract
The pathogen of COVID-19, SARS-CoV-2, has caused a severe global health crisis. So far, while COVID-19 has been suppressed, the continuous evolution of SARS-CoV-2 variants has reduced the effectiveness of vaccines such as mRNA-1273 and drugs such as Remdesivir. To uphold the effectiveness [...] Read more.
The pathogen of COVID-19, SARS-CoV-2, has caused a severe global health crisis. So far, while COVID-19 has been suppressed, the continuous evolution of SARS-CoV-2 variants has reduced the effectiveness of vaccines such as mRNA-1273 and drugs such as Remdesivir. To uphold the effectiveness of vaccines and drugs prior to potential coronavirus outbreaks, it is necessary to explore the underlying mechanisms between biomolecules and nanodrugs. The experimental study reported that acrylamide fragments covalently attached to Cys145, the main protease enzyme (Mpro) of SARS-CoV-2, and occupied the substrate binding pocket, thereby disrupting protease dimerization. However, the potential mechanism linking them is unclear. The purpose of this work is to complement and validate experimental results, as well as to facilitate the study of novel antiviral drugs. Based on our experimental studies, we identified two acrylamide fragments and constructed corresponding protein-ligand complex models. Subsequently, we performed molecular dynamics (MD) simulations to unveil the crucial interaction mechanisms between these nanodrugs and SARS-CoV-2 Mpro. This approach allowed the capture of various binding conformations of the fragments on both monomeric and dimeric Mpro, revealing significant conformational dissociation between the catalytic and helix domains, which indicates the presence of allosteric targets. Notably, Compound 5 destabilizes Mpro dimerization and acts as an effective inhibitor by specifically targeting the active site, resulting in enhanced inhibitory effects. Consequently, these fragments can modulate Mpro’s conformational equilibrium among extended monomeric, compact, and dimeric forms, shedding light on the potential of these small molecules as novel inhibitors against coronaviruses. Overall, this research contributes to a broader understanding of drug development and fragment-based approaches in antiviral covalent therapeutics. Full article
(This article belongs to the Collection Feature Papers in Current Issues in Molecular Biology)
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Figure 1
<p>(<b>a</b>) Transient structural conformation of SARS-CoV-2 monomeric Mpro bound to Compounds 2 and 5. Transient conformation of SARS-CoV-2 dimeric Mpro modified by (<b>b</b>) Compound <b>5</b> and (<b>c</b>) Compound <b>2</b>. Superposition of the compact state, active protomer of the dimer, and the extended Mpro, colored navy blue and red. Light blue and pink represent the active dimeric Mpro without Compounds. Red arrow indicates the position of the small molecule at the active site.</p>
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<p>This RMSD of (<b>a</b>) dimeric Mpro and (<b>b</b>) monomeric Mpro in the apo form, both without Compounds and covalently attached to Compounds 2 and 5.</p>
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<p>RMSD of each residue on dimeric Mpro covalently attached to (<b>a</b>) Compound <b>2</b> and (<b>b</b>) Compound <b>5</b>, and RMSD of each residue on monomeric Mpro covalently bound with (<b>c</b>) Compound <b>2</b> and (<b>d</b>) Compound <b>5</b>. The blue amino acid residues represent those with the smallest motion amplitude, while the red residues correspond to those with the largest motion amplitude.</p>
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<p>Amino acids within 0.50 nm of the active site cysteine Cys145 on dimeric Mpro with (<b>a</b>) Compound <b>2</b> and (<b>b</b>) Compound <b>5</b>, and on monomeric Mpro with (<b>c</b>) Compound <b>2</b> and (<b>d</b>) Compound <b>5</b>.</p>
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<p>Interactions between chain A (red) and chain B (navy blue) of the helical domain connected with (<b>a</b>) Compound <b>2</b> and (<b>b</b>) Compound <b>5</b>. The interactions between chain A and chain B of the catalytic domain connected with (<b>c</b>) Compound <b>2</b> and (<b>d</b>) Compound <b>5</b>, respectively.</p>
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<p>Time-series analysis of allosteric effect for SARS-CoV-2 dimeric or monomeric Mpro. (<b>a</b>) The interaction energy of chain A-B in Mpro dimers after bound to Compound <b>2</b> and Compound <b>5</b>. (<b>b</b>) Solvent accessible surface area (SASA) values of Mpro dimers. (<b>c</b>) Radius of gyration (Rg) analysis of Mpro dimers. (<b>d</b>) Rg values of Mpro monomers.</p>
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<p>(<b>a</b>,<b>b</b>) Electrostatic surface potential (ESP) analysis for different Compounds. (<b>c</b>,<b>d</b>) Average local ionization energy (ALIE) mapped onto the van der Waals surface of the Compounds. The blue regions, indicating weaker electron density, suggest higher reactivity of the electrons in the acrylamide fragments, making these areas more susceptible to electrophilic reactions.</p>
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<p>Comparative analysis of Mpro from PCA and covariance matrix. The conformational space sampled of MD trajectories projected onto subspaces spanned by PC1-2 of the Mpro complex with (<b>a</b>) Compound <b>2</b> and (<b>b</b>) Compound <b>5</b>, respectively. Covariance matrix calculations in atomic coordinates corresponding to Mpro complexed with (<b>c</b>) Compound <b>2</b> and (<b>d</b>) Compound <b>5</b>, respectively.</p>
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14 pages, 2375 KiB  
Article
Integrated Analysis of Remdesivir and Paxlovid in COVID-19 Patients: A Personalized Approach to High-Risk Individuals for Severe Evolution
by Andreea Fitero, Nicoleta Negrut, Anca Popa, Harrie Toms John, Anca Cristina Ferician, Felicia Manole and Paula Marian
J. Clin. Med. 2024, 13(22), 6670; https://doi.org/10.3390/jcm13226670 - 6 Nov 2024
Viewed by 931
Abstract
Background/Objectives: COVID-19 led to a pandemic that has brought misery to millions of people but more so to those with pre-existing conditions. For this infection, several antiviral drugs were employed, including remdesivir (R) and Paxlovid (nirmatrelvir/ritonavir (NR)). Methods: The current study [...] Read more.
Background/Objectives: COVID-19 led to a pandemic that has brought misery to millions of people but more so to those with pre-existing conditions. For this infection, several antiviral drugs were employed, including remdesivir (R) and Paxlovid (nirmatrelvir/ritonavir (NR)). Methods: The current study compared the effectiveness of remdesivir and Paxlovid treatment for COVID-19 patients with comorbid conditions. Data from a cohort of 151 adult patients with COVID-19 who also had associated comorbidities were used in this study. These patients were treated with antivirals according to local guidelines. The subjects included 78 case-patients assigned to group R and 73 to group NR. Results: In group NR, a considerable improvement in oxygen saturation was seen in the first 24 h of treatment (p = 0.010), but the levels were significantly higher from the second day of treatment (p < 0.001) in group R of patients. At the end of the 5 days of treatment, the oxygen saturation improved statistically significantly compared to the admission day, but only in the R group (95.11 ± 1.80; 91.76 ± 1.80; p < 0.001). Conclusions: Both drugs can be considered a breakthrough in the current treatment approach to the COVID-19 disease since they provide readily available options that can alleviate the severity of the disease and, hence, the prognosis of patients. That is why their effectiveness relies on the correct administration time and choosing the patient with suitable characteristics regarding the presence of comorbidities and the likelihood of the critical further development of the process. Full article
(This article belongs to the Section Infectious Diseases)
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<p>Flowchart of patient inclusion and data analysis in the study. R—remdesivir; NR—nirmatrelvir/ritonavir; <span class="html-italic">n</span>—number.</p>
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<p>Charlson Comorbidity Index Organizational Chart. * Severe = cirrhosis and portal hypertension with variceal bleeding history; moderate = cirrhosis and portal hypertension but no variceal bleeding history.</p>
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<p>Oxygen saturation values in groups R and NR. SpO2—oxygen saturation levels; R—remdesivir; NR—nirmatrelvir/ritonavir; <span style="color:red">−</span>—median; <span style="color:red">▲</span>—mean.</p>
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<p>LDH level in groups R and NR, at times t<sub>0</sub> and t<sub>1</sub>. LDH—lactate dehydrogenase; t<sub>0</sub>—starting time of the antiviral; t<sub>1</sub>—end time of the antiviral; R—remdesivir; NR—nirmatrelvir/ritonavir.</p>
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<p>Ferritin level in groups R and NR, at times t<sub>0</sub> and t<sub>1</sub>. t<sub>0</sub>—starting time of the antiviral; t<sub>1</sub>—end time of the antiviral; R—remdesivir; NR—nirmatrelvir/ritonavir.</p>
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<p>Lymphocyte values in groups R and NR, at times t<sub>0</sub> and t<sub>1</sub>. t<sub>0</sub>—starting time of the antiviral; t<sub>1</sub>—end time of the antiviral; R—remdesivir; NR—nirma trelvir/ritonavir.</p>
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<p>Kaplan–Meier curves for time to discharge by therapy. HP—the hospitalization period; R—remdesivir; NR—nirmatrelvir/ritonavir.</p>
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19 pages, 2481 KiB  
Review
Inclusion Complexation of Remdesivir with Cyclodextrins: A Comprehensive Review on Combating Coronavirus Resistance—Current State and Future Perspectives
by Arumugam Anitha, Rajaram Rajamohan, Moorthiraman Murugan and Jeong Hyun Seo
Molecules 2024, 29(19), 4782; https://doi.org/10.3390/molecules29194782 - 9 Oct 2024
Viewed by 1340
Abstract
Cyclodextrin (CD) derivatives have gained significant attention in biomedical applications due to their remarkable biocompatibility, unique inclusion capabilities, and potential for functionalization. This review focuses on recent advancements in CD-based assemblies, specifically their role in improving drug delivery, emphasizing remdesivir (RMD). The review [...] Read more.
Cyclodextrin (CD) derivatives have gained significant attention in biomedical applications due to their remarkable biocompatibility, unique inclusion capabilities, and potential for functionalization. This review focuses on recent advancements in CD-based assemblies, specifically their role in improving drug delivery, emphasizing remdesivir (RMD). The review introduces CD materials and their versatile applications in self-assembly and supramolecular assembly. CD materials offer immense potential for designing drug delivery systems with enhanced activity. Their inherent inclusion capabilities enable the encapsulation of diverse therapeutic agents, including RMD, resulting in improved solubility, stability, and bioavailability. The recent advances in CD-based assemblies, focusing on their integration with RMD have been concentrated here. Various strategies for constructing these assemblies are discussed, including physical encapsulation, covalent conjugation, and surface functionalization techniques. Furthermore, exploring future directions in these fields has also been provided. Ongoing research efforts are directed toward developing novel CD derivatives with enhanced properties, such as increased encapsulation efficiency and improved release kinetics. Moreover, the integration of CD-based assemblies with advanced technologies such as nanomedicine and gene therapy holds tremendous promise for personalized medicine and precision therapeutics Full article
(This article belongs to the Special Issue Cyclodextrin Chemistry and Toxicology III)
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<p>A description of the structure of RMD.</p>
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<p>Various types of hosts.</p>
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<p>Possible Guest–Host stoichiometric ratio between guest and host (α, β, and γ-CDs) of the ICs [<a href="#B58-molecules-29-04782" class="html-bibr">58</a>].</p>
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<p>Adverse and toxicological effects of CDs. Reprinted with permission from Ref. [<a href="#B78-molecules-29-04782" class="html-bibr">78</a>]. Copyright 2024 Elsevier.</p>
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<p>CD inhibited the cytopathic effect (CPE) in lung epithelial cells (MRC−5) and reduction of virus titer (<b>A</b>), and cytopathic effect (CPE) in lung epithelial cell (MRC−5) with OTV and ICs (<b>B</b>). Reprinted with permission from Ref. from [<a href="#B96-molecules-29-04782" class="html-bibr">96</a>], Copyright (2024) Elsevier.</p>
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<p>Interaction of RMD with CDs (proposed structure).</p>
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<p>The uncharged (neutral) and charged (protonated) form of RMD. Reprinted from Ref. [<a href="#B101-molecules-29-04782" class="html-bibr">101</a>].</p>
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<p>Structures of (<b>A</b>) SBE-β-CD, (<b>B</b>) 5SBE, and (<b>C</b>) 7SBE after 500 ns of MD simulations show the water molecules at less than 3 Å from any atom of the CDs. Carbon is represented by violet, oxygen by red, hydrogen by white, and sulfur by yellow. Sulfur atoms and glucopyranoside rings are represented by spheres, while oxygen and carbon atoms are represented by sticks. Reprinted from Ref. [<a href="#B101-molecules-29-04782" class="html-bibr">101</a>].</p>
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22 pages, 11540 KiB  
Article
Exploration of Specific Fluoroquinolone Interaction with SARS-CoV-2 Main Protease (Mpro) to Battle COVID-19: DFT, Molecular Docking, ADME and Cardiotoxicity Studies
by Muhammad Asim Khan, Sadaf Mutahir, Muhammad Atif Tariq and Abdulrahman A. Almehizia
Molecules 2024, 29(19), 4721; https://doi.org/10.3390/molecules29194721 - 5 Oct 2024
Cited by 1 | Viewed by 1724
Abstract
Herein, the pharmacokinetic profiles, binding interactions, and molecular properties of fluoroquinolone derivatives as prospective antiviral drugs are examined using a combination of docking, ADME, and DFT simulations. The effectiveness of the ligands is compared with the clinically tested and FDA-authorized medicine remdesivir. The [...] Read more.
Herein, the pharmacokinetic profiles, binding interactions, and molecular properties of fluoroquinolone derivatives as prospective antiviral drugs are examined using a combination of docking, ADME, and DFT simulations. The effectiveness of the ligands is compared with the clinically tested and FDA-authorized medicine remdesivir. The findings demonstrated encouraging binding energies, indicating possible inhibitory effectiveness against SARS-CoV-2 Mpro. The fluoroquinolone derivatives also exhibit promising ADME characteristics, although compounds 5, 6, 9, 12–20 possess poor values, suggesting that oral administration may be possible. The potential of the selected compounds as SARS-CoV-2 Mpro inhibitors is thoroughly understood because of the integrated analysis of DFT, with compound 11 demonstrating the highest energy gap of 0.2604 eV of, docking with viral targets with docking scores of −7.9 to −5.9 kcal/mol, with compound 18 demonstrating the highest docking score, which is at the 13th position in energy difference in the DFT data. Their favorable electrical properties, robust binding interactions with viral targets, and attractive pharmacokinetic profiles boost their potential as prospective study subjects. These substances have the potential to be transformed into cutting-edge antiviral therapies that specifically target SARS-CoV-2 Mpro and related coronaviruses. Full article
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<p>Structures <b>1</b> to <b>4</b> are the derivatives of fluoroquinolone with cyclopropyl substitutions, <b>5</b> to <b>8</b> are piperidine-substituted, <b>9</b> to <b>12</b> are morpholine-substituted, and <b>13</b> to <b>20</b> are piperazine-substituted fluoroquinolones.</p>
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<p>Optimized structures of fluoroquinolone derivatives with cyclopropyl (<b>1</b> to <b>4</b>), piperidine (<b>5</b> to <b>8</b>), morpholine (<b>9</b> to <b>12</b>), and piperazine substitutions (<b>13</b> to <b>20</b>).</p>
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<p>Molecular orbital surfaces and energy levels for the HOMO and LUMO of the compounds computed at RCAM-B3LYP/6-311++G (2d, p) basis set.</p>
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<p>Molecular electrostatic potential (MEP) surfaces of selected compounds.</p>
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<p>The representation of a single protomer from the SARS-inhibitor complex is depicted in a cartoon format (<b>a</b>). The homodimeric structure of SARS is shown in a surface representation. The protomer is shown by the pink colors, while the N3 inhibitor is depicted as green sticks (<b>b</b>). The substrate-binding pocket is highlighted in an enlarged view. Important binding pocket residues are represented as sticks. The density map (2Fo-Fc) contoured at 1.2σ is presented around the N3 molecule (blue mesh) (<b>c</b>).</p>
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<p>Docking with the 2 and 3 cyclopropyl ligands in the SARS-CoV-2 Mpro (6LU7). (<b>a</b>,<b>e</b>) The best binding mode of a protein (ligands 2 and 3, depicted as brown and red sticks), (<b>b</b>,<b>d</b>,<b>f</b>,<b>h</b>) The amino acid residues involved in bonding interactions (blue and green dashed line represents the ligand 2 and 3 interaction (<b>c</b>,<b>g</b>) (2D)).</p>
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<p>The piperidine ligands 7 and 8’s docking visualization in SARS-CoV-2 Mpro (6LU7); (<b>a</b>,<b>e</b>) show the optimal binding mode of the protein (ligands 7 and 8, depicted as brown and red sticks) while (<b>b</b>,<b>d</b>,<b>f</b>,<b>h</b>) highlight the amino acid residues engaged in bonding interaction (the blue and green dashed line represents the binding interaction (2D) of ligands 7 and 8 (<b>c</b>,<b>g</b>).</p>
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<p>Docking representation of morpholine ligands 9 and 12 into SARS-CoV-2 Mpro (6LU7) (<b>a</b>,<b>e</b>): the most preferred binding configuration of the protein (ligands 9 and 12, shown as brown and red sticks, respectively) (<b>b</b>,<b>d</b>,<b>f</b>,<b>h</b>); interactions between amino acid residues participating in the bonding process (2D) ((<b>c</b>,<b>g</b>) show blue and green dashed lines, representing the binding interaction of ligands 9 and 12).</p>
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<p>The docking of piperazine ligands 13 and 17 into SARS-CoV-2 Mpro (6LU7) was visualized as follows: (<b>a</b>,<b>e</b>) best binding mode of the protein (ligands 13 and 17, depicted as brown and red stick), (<b>b</b>,<b>d</b>,<b>f</b>,<b>h</b>). The amino acid residues involved in the bonding interaction (blue and green dashed lines represent the binding interaction (2D) of ligands 13 and 17 (<b>c</b>,<b>g</b>).</p>
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<p>The radar plots of bioavailability data (lipophilicity, size, polarity, insolubility, instauration, and flexibility) of compounds <b>1</b>–<b>20</b>.</p>
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<p>Fragment contribution maps for the regression model with IC<sub>50</sub> and PIC<sub>50</sub> values of compounds <b>1</b>–<b>20</b>.</p>
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12 pages, 1949 KiB  
Article
Accounting for Red Cell Distribution Width Improves Risk Stratification by Commonly Used Mortality/Deterioration Risk Scores in Adult Patients Hospitalized Due to COVID-19
by Ana Jordan, Vladimir Trkulja, Ivana Jurin, Sanja Marević, Lovorka Đerek, Ivica Lukšić, Šime Manola and Marko Lucijanić
Life 2024, 14(10), 1267; https://doi.org/10.3390/life14101267 - 5 Oct 2024
Viewed by 993
Abstract
Higher red blood cell distribution width (RDW) levels have gained attention in the prognostication of many chronic metabolic and malignant diseases, as well as coronavirus disease 2019 (COVID-19). We aimed to evaluate whether accounting for RDW might contribute to risk stratification when added [...] Read more.
Higher red blood cell distribution width (RDW) levels have gained attention in the prognostication of many chronic metabolic and malignant diseases, as well as coronavirus disease 2019 (COVID-19). We aimed to evaluate whether accounting for RDW might contribute to risk stratification when added to commonly used risk scoring systems in adult COVID-19 patients. We retrospectively analyzed a cohort of 3212 non-critical COVID-19 patients hospitalized in a tertiary-level institution from March 2020 to June 2021. Admission RDW values were considered normal if they were ≤14.5% in males or ≤16.1% in females. The Modified Early Warning Score (MEWS), International Severe Acute Respiratory and Emerging Infections Consortium Coronavirus Clinical Characterisation Consortium score (ISARIC 4C), and Veterans Health Administration COVID-19 (VACO) index were evaluated as prognostic scores. RDW exceeded the upper limit in 628 (19.6%) of the patients. When RDW was accounted for, risks of the predicted outcomes were considerably different within the same MEWS, 4C score, and VACO index levels. The same patterns applied equally to patients who started, and those who did not start, remdesivir before deterioration. RDW may be a useful tool for stratifying risk when considered on top of commonly used prognostic scores in non-critical COVID-19 patients. Full article
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<p>(<b>A</b>) Study outline. (<b>B</b>) Probability of dying by week of hospitalization (entire cohort). A complementary log–log model for continuous time process was fitted to probability of dying with time measured in weeks. 4C—Coronavirus Clinical Characterisation Consortium; ICU—intensive care unit; MEWS—Modified Early Warning Score; PCR—polymerase chain reaction; VACO—Veterans Health Administration COVID-19 index; WHO—World Health Organization.</p>
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<p>Probability of “death or intensive care unit (ICU) transfer within 60 days” predicted by the Modified Early Warning Score (MEWS) and probability of other outcomes by MEWS level (0–2 or 3–4) in respect to red cell distribution width (RDW). Probabilities (proportions) are given with Wilson 95% confidence intervals. MEWS risk levels are depicted by the MEWS and expected (E(risk)) probability associated with the respective score. MV—mechanical ventilation.</p>
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<p>(<b>A</b>) Probability of in-hospital death predicted by the 4C score and probability of other outcomes across the 4C risk levels in respect to red cell distribution width (RDW). 4C risk levels are depicted by the score and expected (E(risk)) probability associated with the respective score. (<b>B</b>) Probability of 30-day mortality predicted by the VACO index (Veterans Health Administration COVID-19 index) and probability of other outcomes across the VACO risk levels in respect to RDW. VACO risk levels are depicted by the risk level and expected (E(risk)) probability associated with the respective level. Probabilities (proportions) are with Wilson 95% confidence intervals. ICU—intensive care unit; MV—mechanical ventilation.</p>
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10 pages, 578 KiB  
Article
The Effectiveness and Safety of Remdesivir Use in COVID-19 Patients with Neutropenia: A Retrospective Cohort Study
by Peng-Huei Liu, Ming-Wei Pan, Yan-Bo Huang, Chip-Jin Ng and Shou-Yen Chen
Life 2024, 14(10), 1252; https://doi.org/10.3390/life14101252 - 1 Oct 2024
Viewed by 858
Abstract
Background: The COVID-19 pandemic poses severe risks for immunocompromised patients, especially those with neutropenia due to chemotherapy. This study evaluates the safety and effectiveness of remdesivir use in COVID-19 patients with neutropenia. Methods: This retrospective study used the Chang Gung Research Database (CGRD) [...] Read more.
Background: The COVID-19 pandemic poses severe risks for immunocompromised patients, especially those with neutropenia due to chemotherapy. This study evaluates the safety and effectiveness of remdesivir use in COVID-19 patients with neutropenia. Methods: This retrospective study used the Chang Gung Research Database (CGRD) and extracted data from 98,763 patients with COVID-19 diagnosed between April 2021 and September 2022. The patients were divided into groups based on their remdesivir use and the presence of neutropenia. The adverse effects of remdesivir and their outcomes were analyzed after propensity score matching. Results: We compared common adverse effects of remdesivir in neutropenic patients before and after a 5-day regimen. A slight decrease in heart rate was observed but lacked clinical significance. There were no significant differences observed in hemoglobin, liver function tests, and blood glucose levels. After propensity score matching of COVID-19 patients with neutropenia according to gender, age, dexamethasone use, oxygen use, MASCC score, and WHO ordinal scale, no significant differences were found in length of stay, intubation rate, or ICU admission rate between the matched patients. Conclusions: Our study found remdesivir to be safe for COVID-19 patients with neutropenia, with no common adverse reactions observed. However, its effectiveness for these patients remains uncertain. Full article
(This article belongs to the Special Issue Current Advances in Diagnosis and Treatment of Sepsis)
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<p>Flow diagram of patient selection.</p>
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14 pages, 877 KiB  
Article
Limited Short-Term Evolution of SARS-CoV-2 RNA-Dependent RNA Polymerase under Remdesivir Exposure in Upper Respiratory Compartments
by Vladimir Novitsky, Curt G. Beckwith, Kristin Carpenter-Azevedo, Jimin Shin, Joel Hague, Soya Sam, Jon Steingrimsson, Richard C. Huard, Kevin Lethbridge, Sujata Sahu, Kim Rapoza, Karen Chandran, Lauri Bazerman, Evelyn Hipolito, Isabella Diaz, Daniella Carnevale, August Guang, Fizza Gillani, Angela M. Caliendo and Rami Kantor
Viruses 2024, 16(10), 1511; https://doi.org/10.3390/v16101511 - 24 Sep 2024
Viewed by 909
Abstract
Background: The extent of the SARS-CoV-2 short-term evolution under Remdesivir (RDV) exposure and whether it varies across different upper respiratory compartments are not fully understood. Methods: Patients hospitalized for COVID-19, with or without RDV therapy, were enrolled and completed up to three visits, [...] Read more.
Background: The extent of the SARS-CoV-2 short-term evolution under Remdesivir (RDV) exposure and whether it varies across different upper respiratory compartments are not fully understood. Methods: Patients hospitalized for COVID-19, with or without RDV therapy, were enrolled and completed up to three visits, in which they provided specimens from four respiratory compartments. Near full-length genome SARS-CoV-2 sequences were obtained from viral RNA, standard lineage and variant assignments were performed, and viral mutations in the RNA-dependent RNA polymerase (RdRp) region—the RDV target gene—were detected and compared between participants with and without RDV, across the four compartments, within participants across visits, and versus a larger sequence dataset. The statistical analysis used a generalized linear mixed-effects model. Results: A total of 139 sequences were obtained from 37 out of the 44 (84%) enrolled participants. The genotyping success varied across respiratory compartments, which ranged from 42% with oropharyngeal specimens to 67% with nasopharyngeal specimens and showed improvement with higher viral loads. No RdRp mutations known to be associated with RDV resistance were identified, and for 34 detected mutations at 32 amino acid positions that are not known as RDV-associated, there was no evidence of any associations with the RDV exposure, respiratory compartment, or time. At least 1 of these 34 mutations were detected in all participants, and some differed from the larger sequence dataset. Conclusions: This study highlighted the SARS-CoV-2 short-term genomic stability within hosts and across upper respiratory compartments, which suggests a lack of evolution of RDV resistance over time. This contributes to our understanding of SARS-CoV-2 genomic dynamics. Full article
(This article belongs to the Section Coronaviruses)
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<p>The distribution of RdRp mutations across the four upper respiratory compartments. Each respiratory compartment and the RI data from GISAID is represented by a different color, as indicated in the figure legend in the upper-right corner. The <span class="html-italic">x</span>-axis displays the RdRp mutations identified in multiple study participants, while the <span class="html-italic">y</span>-axis shows the proportion of study participants with identified RdRp mutations. The RdRp mutations are presented cumulatively across all study visits. Asterisks indicate statistically significant differences in the prevalence of mutations in specified compartments from the reference GISAID dataset. Open circles highlight the identified RdRp mutations in the specified compartments that were not present in the reference GISAID dataset. (<b>A</b>) Participants exposed to RDV. (<b>B</b>) Participants not exposed to RDV.</p>
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<p>The distribution of RdRp mutations across the four upper respiratory compartments. Each respiratory compartment and the RI data from GISAID is represented by a different color, as indicated in the figure legend in the upper-right corner. The <span class="html-italic">x</span>-axis displays the RdRp mutations identified in multiple study participants, while the <span class="html-italic">y</span>-axis shows the proportion of study participants with identified RdRp mutations. The RdRp mutations are presented cumulatively across all study visits. Asterisks indicate statistically significant differences in the prevalence of mutations in specified compartments from the reference GISAID dataset. Open circles highlight the identified RdRp mutations in the specified compartments that were not present in the reference GISAID dataset. (<b>A</b>) Participants exposed to RDV. (<b>B</b>) Participants not exposed to RDV.</p>
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<p>The distribution of RdRp mutations across study visits. Each visit and the RI data from GISAID is represented by a different color, as indicated in the figure legend at the upper-right corner. The <span class="html-italic">x</span>-axis indicates the RdRp mutations identified in multiple study participants, while the <span class="html-italic">y</span>-axis shows the proportion of study participants with identified RdRp mutations. The RdRp mutations are presented cumulatively across all four respiratory compartments. Asterisks indicate statistically significant differences in the prevalence of mutations at specified study visits from the reference GISAID dataset. Open circles highlight the identified RdRp mutations by study visit that were not present in the reference GISAID dataset. (<b>A</b>) Participants exposed to RDV. (<b>B</b>) Participants not exposed to RDV.</p>
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<p>The distribution of RdRp mutations across study visits. Each visit and the RI data from GISAID is represented by a different color, as indicated in the figure legend at the upper-right corner. The <span class="html-italic">x</span>-axis indicates the RdRp mutations identified in multiple study participants, while the <span class="html-italic">y</span>-axis shows the proportion of study participants with identified RdRp mutations. The RdRp mutations are presented cumulatively across all four respiratory compartments. Asterisks indicate statistically significant differences in the prevalence of mutations at specified study visits from the reference GISAID dataset. Open circles highlight the identified RdRp mutations by study visit that were not present in the reference GISAID dataset. (<b>A</b>) Participants exposed to RDV. (<b>B</b>) Participants not exposed to RDV.</p>
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12 pages, 14135 KiB  
Article
Retinal and Corneal OCT Results of Patients Hospitalized and Treated in the Acute Phase of COVID-19
by Edward Wylęgała, Aleksandra Prus-Ludwig, Patrycja Mocek, Tomasz Tomczyk, Bogdan Dugiełło, Andrzej Madej, Bogusława Orzechowska-Wylęgała and Adam Wylęgała
J. Clin. Med. 2024, 13(18), 5564; https://doi.org/10.3390/jcm13185564 - 19 Sep 2024
Viewed by 1045
Abstract
Objective: This study aimed to assess changes in the morphology of the retina and cornea in patients treated and hospitalized during the acute active phase of SARS-CoV-2 infection. Methods: A total of 24 patients with symptomatic early COVID-19 disease and 38 healthy participants [...] Read more.
Objective: This study aimed to assess changes in the morphology of the retina and cornea in patients treated and hospitalized during the acute active phase of SARS-CoV-2 infection. Methods: A total of 24 patients with symptomatic early COVID-19 disease and 38 healthy participants from a control group were enrolled in our study. Among them, 20 received oxygen therapy at flow rates ranging from 1–10 L, while four received high-flow intranasal oxygen therapy (HFNOT). Some patients were treated with other types of therapy, such as Remdesivir, COVID-19 convalescent plasma therapy, or Tocilizumab. In the study, we focused on the analysis of optical coherence tomography (OCT) images of the cornea and retina including corneal thickness, central retinal thickness, retinal nerve fiber layer (RNFL), and optic disc parameters. The measurements were acquired using Spectral-domain OCT REVO FC 130. Results: The analysis did not show significant changes between the examined ophthalmological parameters before and after therapy. Furthermore, there were no detected significant differences between the tested parameters of the retina and cornea in COVID-19-positive patients compared to the control group. Conclusions: No ophthalmological manifestations of COVID-19 disease were observed during the study. Taking into account the results of other publications, the lack of an unambiguous position on this topic requires further research. Full article
(This article belongs to the Section Ophthalmology)
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<p>OCT 3D macula scan 7 × 7 mm of COVID-19-positive patient. RPE, retinal pigment epithelium; GCL + IPL, ganglion cells layer + inner plexiform layer; ILM–BM, inner limiting membrane–Bruch’s membrane.</p>
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<p>OCT 3D macula scan 7 × 7 mm of COVID-19-negative patient. RPE, retinal pigment epithelium; GCL + IPL, ganglion cells layer + inner plexiform layer; ILM–BM, inner limiting membrane–Bruch’s membrane.</p>
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<p>OCT 3D disc scan 6 × 6 mm of COVID-19-positive patient. NFL, nerve fiber layer; ONH, optic nerve head.</p>
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<p>OCT 3D disc scan 6 × 6 mm of COVID-19 negative patient. NFL, nerve fiber layer; ONH, optic nerve head.</p>
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<p>OCT anterior radial scan 8 × 8 mm of COVID-19 positive patient.</p>
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<p>OCT anterior radial scan 8 × 8 mm of COVID-19-negative patient.</p>
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19 pages, 4491 KiB  
Article
Myrtus communis L. Essential Oil Exhibits Antiviral Activity against Coronaviruses
by Dar-Yin Li, Matthew G. Donadu, Taylor Shue, Georgios Dangas, Antonis Athanasiadis, Shuiyun Lan, Xin Wen, Basem Battah, Stefania Zanetti, Vittorio Mazzarello, Stefan G. Sarafianos, Marco Ferrari and Eleftherios Michailidis
Pharmaceuticals 2024, 17(9), 1189; https://doi.org/10.3390/ph17091189 - 10 Sep 2024
Viewed by 1188
Abstract
Human coronaviruses are a continuous threat to the human population and have limited antiviral treatments, and the recent COVID-19 pandemic sparked interest in finding new antiviral strategies, such as natural products, to combat emerging coronaviruses. Rapid efforts in the scientific community to identify [...] Read more.
Human coronaviruses are a continuous threat to the human population and have limited antiviral treatments, and the recent COVID-19 pandemic sparked interest in finding new antiviral strategies, such as natural products, to combat emerging coronaviruses. Rapid efforts in the scientific community to identify effective antiviral agents for coronaviruses remain a focus to minimize mortalities and global setbacks. In this study, an essential oil derived from Myrtus communis L. (MEO) is effective against HCoV-229E and HCoV-OC43 virus infections in comparison to two FDA-approved drugs, Remdesivir and Nirmatrelvir. Gas-chromatography and mass spectrometry were used to identify the chemical composition of MEO. Slight antioxidant activity was observed in MEO, indicating a role in oxidative stress. A dose–response curve measuring the EC50 indicates a high potency against HCoV-229E and HCoV-OC43 virus infections on Huh7.5 cells with low cytotoxicity using a PrestoBlue cell viability assay. Our findings demonstrate that MEO exhibits potent antiviral activity against HCoV-229E and HCoV-OC43 on Huh7.5 cells within a low-cytotoxicity range, but not on SARS-CoV-2. Artificial bacterial chromosome plasmids that expressed SARS-CoV-2 used for replicon—to determine viral replication and viral assembly/egress on HEK293T/17 cells—and virus-like particles on Huh7.5-AT cells—to determine viral entry and assembly/egress—showed no antiviral activity with MEO in comparison to Remdesivir. This study reveals the potential effectiveness of MEO as an alternative natural remedy to treat human coronaviruses and a potential antiviral agent for future coronavirus infections. Full article
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<p>MEO inhibits HCoV-229E infection. (<b>A</b>) Experimental design of MEO experiment for dose–response curve. Huh7.5 cells were seeded in two 96-well plates with Remdesivir and Nirmatrelvir as antiviral controls. The experiment was performed in triplicate, and the starting concentration for MEO was 1:1000 (0.8469 mg/mL) and received a 1:2 serial dilution. The starting concentrations for Remdesivir and Nirmatrelvir were 250 nM and 25 µM, respectively, and were diluted with a 1:2 serial dilution. After HCoV-229E was added to the plates an hour after drug treatment, cells were fixed with 4% PFA one day post-infection. Immunofluorescent staining (IF) was performed to visualize infected cells using Cytation 7. (<b>B</b>) Dose–response curve showing that MEO has antiviral activity against HCoV-229E with EC<sub>50</sub> = 0.1204 mg/mL MEO concentration starting at 1:1000 (0.8469 mg/mL) with a 1:2 serial dilution and infected with 1:10 HCoV-229E virus. (<b>C</b>) Cytotoxicity assay measuring cell viability in MEO-treated Huh7.5 cells. A 1:10 (84.69 mg/mL) starting concentration for MEO was used with a 1:2 serial dilution. Huh7.5 cells treated with MEO were normalized to the untreated Huh7.5 cells.</p>
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<p>Immunofluorescent staining for HCoV-229E Spike protein. Huh7.5 cells without MEO treatment showed a mean fluorescence intensity of 22 with HCoV-229E. At a 1:2000 (0.42345 mg/mL) Myrtus concentration, the HCoV-229E viral infection has a mean fluorescence intensity of 7. Nuclei were stained with Hoechst, and HCoV-229E was stained with HCoV-229E spike protein and Alexa Fluor 488, labeled goat anti-mouse secondary antibody, and was imaged at a 1000 µm scale.</p>
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<p>MEO inhibits HCoV-OC43 infection. (<b>A</b>) Experimental layout of MEO with HCoV-OC43 infection to determine EC<sub>50</sub>. Two collagen-coated 96-wells plates were seeded with Huh7.5 cells to evaluate the dose–response curve of Remdesivir, Nirmatrelvir, and MEO. Each drug was conducted in triplicates with the starting concentration for MEO to be 1:1000 (0.8469 mg/mL) and serially diluted 1:2. The starting concentrations for Remdesivir and Nirmatrelvir were 7 µM and 25 µM, respectively, and were diluted with a 1:2 serial dilution. An hour after drug treatment, HCoV-OC43 was added, and cells were fixed with 4% PFA at 3 days post-infection. Immunofluorescent staining (IF) was performed to visualize infected cells using the Cytation 7. (<b>B</b>) A dose–response curve showed that MEO has antiviral activity against HCoV-OC43 with EC<sub>50</sub> = 1.405 mg/mL MEO concentration starting at a concentration of 1:1000 (0.8469 mg/mL) with a 1:2 serial dilution and infected with 1:20 HCoV-OC43E virus.</p>
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<p>Immunofluorescent staining for HCoV-OC43 spike protein. Huh7.5 cells without MEO treatment showed a mean fluorescence intensity of 12 with HCoV-OC43. At a 1:1000 (0.8469 mg/mL) MEO concentration, HCoV-OC43 viral infection has a mean fluorescence intensity of 4. Nuclei were stained with Hoechst and HCoV-OC43 was stained with anti-coronavirus antibody, OC-43 strain, clone 541-8F, and Alexa Fluor 488, labeled goat anti-mouse secondary antibody, and was imaged at a 1000 µm scale.</p>
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<p>MEO does not inhibit SARS-CoV-2 viral replication based on SARS-CoV-2 replicon. (<b>A</b>) Normalized SARS-CoV-2 replicon transfection to determine if MEO inhibits viral replication. Using GFP reporter in the SARS-CoV-2 replicon to calculate the percent of transfected cells, there was no difference in the number of transfected cells compared to normalized and untreated wells. NLuc activity from the SARS-CoV-2 replicon plasmid was used to quantify the amount of viral replication under MEO-treated conditions. Titration of MEO with SARS-CoV-2 replicon transfected cells showed no difference in viral replication via NLuc activity. Cell viability is not affected by SARS-CoV-2 replicon, nor by MEO cytotoxicity at the tested MEO concentrations. The relative luminescence graph validates that viral replicon is not inhibited by MEO. (<b>B</b>) Remdesivir substantially inhibited SARS-CoV-2 viral replication and normalized transfection level similar to the relative luminescence units, as untreated wells received about an eight-fold increase compared to 7.5 µM. At 15 µM of Remdesivir, cell viability dropped below 50%, exhibiting Remdesivir cytotoxicity.</p>
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<p>No inhibition against SARS-CoV-2 VLPs for MEO. (<b>A</b>) Immunofluorescence images showed no difference in VLP inhibition for untreated and MEO-treated wells at 1:200 (4.2345 mg/mL) concentration. Remdesivir inhibited SARS-CoV-2 VLP in a dose-dependent manner, which acted as positive control. To determine the percentage of cells infected with SARS-CoV-2 VLPs, the cells were counterstained with Hoechst and imaged for GFP reporter signal from the replicon plasmids and Hoechst dye using Cytation 7. All images are in 1000 µm scale. (<b>B</b>) The VLP transduction assay with MEO treatment showed similar infection levels as untreated wells. At 1:100 (8.469 mg/mL) concentration of MEO, cells were not viable, and viral replication remained consistent. (<b>C</b>) Remdesivir showed potent inhibition against SARS-CoV-2 VLP as an inhibitor of SARS-CoV-2 viral replication.</p>
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<p>MEO treatment has little impact SARS-CoV-2 Omicron BA.1 VLP formation/release. SARS-CoV-2 BA.1 VLPs were produced in HEK293T/17 cells that were pre-treated with either a 1:1000 (0.8469 mg/mL) or 1:500 (1.6938 mg/mL) concentration of MEO in DMEM (10% FBS + 1% NEAA) to assess the effect of MEO on the formation of infectious VLPs. VLPs were harvested via centrifugation and concentrated 20× using 100,000 MW Amicon filter units. VLPs were titrated on Huh7.5-AT cells at a starting dilution of 1:5 and continued with a 1:2 dilution. At one day post-transduction, the cells were counterstained with 1:5000 Hoechst dye and imaged using Cytation 7 for the number of GFP+ and total cells. Then, the cell culture supernatant was measured for NLuc activity. (<b>A</b>) Hoechst staining shows that there was a slight decrease in cell viability for VLPs formed in the presence of MEO treatment in a dose-dependent manner (<span class="html-italic">p</span> &lt; 0.0001). (<b>B</b>) Analysis of the GFP+ cells representing cells successfully transduced with VLP and undergoing replication of the replicon plasmid showed minor differences between MEO-treated and untreated VLPs, but only at the highest dilutions of VLP delivery (<span class="html-italic">p</span> = 0.01). (<b>C</b>) NLuc activity shows no difference between MEO VLPs and untreated VLPs. Overall, MEO treatment during VLP production has no effect on nascent VLP particles.</p>
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11 pages, 897 KiB  
Article
Comparable Efficacy of Lopinavir/Ritonavir and Remdesivir in Reducing Viral Load and Shedding Duration in Patients with COVID-19
by Choon-Mee Kim, Jae Keun Chung, Sadia Tamanna, Mi-Seon Bang, Misbah Tariq, You Mi Lee, Jun-Won Seo, Da Young Kim, Na Ra Yun, Jinjong Seo, Yuri Kim, Min Ji Kim, Dong-Min Kim and Nam-Hyuk Cho
Microorganisms 2024, 12(8), 1696; https://doi.org/10.3390/microorganisms12081696 - 16 Aug 2024
Viewed by 1049
Abstract
The spread of COVID-19 has significantly increased research on antiviral drugs and measures such as case isolation and contact tracing. This study compared the effects of lopinavir/ritonavir and remdesivir on COVID-19 patients with a control group receiving no antiviral drugs. Patients confirmed to [...] Read more.
The spread of COVID-19 has significantly increased research on antiviral drugs and measures such as case isolation and contact tracing. This study compared the effects of lopinavir/ritonavir and remdesivir on COVID-19 patients with a control group receiving no antiviral drugs. Patients confirmed to have a SARS-CoV-2 infection via real-time RT-PCR were divided into three groups: lopinavir/ritonavir, remdesivir, and control. We assessed the efficacy of these drugs in reducing viral load and viral shedding duration using real-time RT-PCR and Vero E6 cell cultures. Lopinavir/ritonavir led to no detectable infectious SARS-CoV-2, with a median viral clearance time of one day, whereas one remdesivir-treated case remained culture-positive until day 12. Lopinavir/ritonavir significantly reduced viral load compared to remdesivir and control groups (p = 0.0117 and p = 0.0478). No infectious virus was detected in the lopinavir/ritonavir group, and the non-infectious SARS-CoV-2 proportion remained constant at 90%, higher than in the remdesivir and control groups (p = 0.0097). There was a significant difference in culture positivity among the groups (p = 0.0234), particularly between the lopinavir/ritonavir and remdesivir groups (p = 0.0267). These findings suggest that lopinavir/ritonavir reduces viral load and shortens the viral shedding duration compared to remdesivir, despite not being an effective treatment option. Full article
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Figure 1
<p>SARS-CoV-2 viral loads determined using <span class="html-italic">RdRp</span> gene-targeted real-time reverse transcription-polymerase chain reaction in upper respiratory (nasopharyngeal swab) (<b>A</b>) and lower respiratory (sputum) (<b>B</b>) tract samples. Viral load and cell culture positivity showing infectious viral shedding in upper and lower respiratory tract samples (<b>C</b>) were obtained from patients treated with remdesivir, lopinavir/ritonavir, or no antiviral drugs. N, number of samples; NA, not assayed.</p>
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<p>Log<sub>10</sub> RNA copies/reaction (<span class="html-italic">RdRp</span>-gene) and Ct value of culture-positive (red circles) and culture-negative (black squares) samples, including nasopharyngeal swab samples and sputum samples, from patients with COVID-19 on hospitalization day (day 0).</p>
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12 pages, 1177 KiB  
Article
Baricitinib and Pulse Steroids Combination Treatment in Hyperinflammatory COVID-19: A Rheumatological Approach in the Intensive Care Unit
by Francesco Ferro, Gaetano La Rocca, Elena Elefante, Nazzareno Italiano, Michele Moretti, Rosaria Talarico, Erika Pelati, Katia Valentini, Chiara Baldini, Roberto Mozzo, Luigi De Simone and Marta Mosca
Int. J. Mol. Sci. 2024, 25(13), 7273; https://doi.org/10.3390/ijms25137273 - 2 Jul 2024
Cited by 1 | Viewed by 1394
Abstract
Hyperinflammatory Coronavirus disease 2019 (COVID-19) and rapidly-progressive interstitial lung diseases (RP-ILD) secondary to inflammatory myopathies (IIM) present important similarities. These data support the use of anti-rheumatic drugs for the treatment of COVID-19. The aim of this study was to compare the efficacy of [...] Read more.
Hyperinflammatory Coronavirus disease 2019 (COVID-19) and rapidly-progressive interstitial lung diseases (RP-ILD) secondary to inflammatory myopathies (IIM) present important similarities. These data support the use of anti-rheumatic drugs for the treatment of COVID-19. The aim of this study was to compare the efficacy of combining baricitinib and pulse steroids with the Standard of Care (SoC) for the treatment of critically ill COVID-19 patients. We retrospectively enrolled consecutive patients admitted to the Intensive Care Unit (ICU) with COVID-19-pneumonia. Patients treated with SoC (dexamethasone plus remdesivir) were compared to patients treated with baricitinib plus 6-methylprednisolone pulses (Rheuma-group). We enrolled 246 patients: 104/246 in the SoC and 142/246 in the Rheuma-group. All patients presented laboratory findings suggestive of hyperinflammatory response. Sixty-four patients (26.1%) died during ICU hospitalization. The mortality rate in the Rheuma-group was significantly lower than in the SoC-group (15.5 vs. 40.4%, p < 0.001). Compared to the SoC-group, patients in the Rheuma-group presented significantly lower inflammatory biomarker levels after one week of treatment. Higher ferritin levels after one week of treatment were strongly associated with mortality (p < 0.001). In this large real-life COVID-19 cohort, baricitinib and pulse steroids led to a significant reduction in mortality, paralleled by a prompt reduction in inflammatory biomarkers. Our experience supports the similarities between hyperinflammatory COVID-19 and the IIM-associated RP-ILD. Full article
(This article belongs to the Special Issue Advances in the Molecular Biology of Lung Disease 2.0)
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Figure 1
<p>(<b>a</b>–<b>c</b>). Lung CT-scan sections showing diffuse bilateral and confluent ground-glass opacities with a tendency to lung consolidation, inter- and intra-lobular septal thickening in an enrolled COVID-19 pneumonia patient with severe respiratory failure.</p>
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<p>Graphic representation of the C-reactive protein and Ferritin serum levels, clinical course, and corresponding CT findings of the first patient treated with a “Rheumatological approach” after SoC failure. CRP = C Reactive Protein; NIMV = Non-Invasive Mechanical Ventilation; ETI = Endotracheal Intubation.</p>
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10 pages, 251 KiB  
Article
Is Antiviral Treatment with Remdesivir at the Acute Phase of SARS-CoV-2 Infection Effective for Decreasing the Risk of Long-Lasting Post-COVID Symptoms?
by César Fernández-de-las-Peñas, Anabel Franco-Moreno, María Ruiz-Ruigómez, Estibaliz Arrieta-Ortubay, Pablo Ryan-Murua, Carlos Lumbreras-Bermejo, Pablo del-Valle-Loarte, Oscar J. Pellicer-Valero, Rocco Giordano, Lars Arendt-Nielsen, Isabel Martín-Garrido and Juan Torres-Macho
Viruses 2024, 16(6), 947; https://doi.org/10.3390/v16060947 - 12 Jun 2024
Viewed by 1348
Abstract
The aim of this study was to investigate the effects of administrating Remdesivir at the acute COVID-19 phase on developing post-COVID symptoms in previously hospitalized COVID-19 survivors by controlling factors such as age, sex, body mass index, and vaccination status. A case-control study [...] Read more.
The aim of this study was to investigate the effects of administrating Remdesivir at the acute COVID-19 phase on developing post-COVID symptoms in previously hospitalized COVID-19 survivors by controlling factors such as age, sex, body mass index, and vaccination status. A case-control study was performed. Hospitalized COVID-19 survivors who had received intravenous Remdesivir during the acute phase (n = 216) were matched by age, sex, body mass index, and vaccination status with survivors who did not receive antiviral treatment (n = 216). Participants were asked to self-report the presence of any post-COVID symptom (defined as a symptom that started no later than three months after infection) and whether the symptom persisted at the time of study (mean: 18.4, SD: 0.8 months). Anxiety levels (HADS-A), depressive symptoms (HADS-D), sleep quality (PSQI), and severity/disability (FIC) were also compared. The multivariate analysis revealed that administration of Remdesivir at the acute COVID-19 phase was a protective factor for long-term COVID development (OR0.401, 95%CI 0.256–0.628) and specifically for the following post-COVID symptoms: fatigue (OR0.399, 95%CI 0.270–0.590), pain (OR0.368, 95% CI 0.248–0.548), dyspnea at rest (OR0.580, 95%CI 0.361–0.933), concentration loss (OR0.368, 95%CI 0.151–0.901), memory loss (OR0.399, 95%CI 0.270–0.590), hair loss (OR0.103, 95%CI 0.052–0.207), and skin rashes (OR0.037, 95%CI 0.005–0.278). This study supports the potential protective role of intravenous administration of Remdesivir during the COVID-19 acute phase for long-lasting post-COVID symptoms in previously hospitalized COVID-19 survivors. Full article
(This article belongs to the Section Viral Immunology, Vaccines, and Antivirals)
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