bluuebunny/crossref_metadata_2025 huggingface dataset:
Immunogenicity of an AAV-Based COVID-19 Vaccine in Murine Models of Obesity and Aging
Authors: Maciorowski Dawid , Diop Cheikh , Bhatt Urja , Estelien Reynette , Li Dan , Chauhan Ruchi , Vandenberghe Luk H. , Zabaleta Nerea
Published: April 2022

The SARS-CoV-2 pandemic has had a disastrous impact on global health. Although some vaccine candidates have been effective in combating SARS-CoV-2, logistical, economical, and sociological aspects still limit vaccine access globally. Recently, we reported on two room-temperature stable AAV-based COVID-19 vaccines that induced potent and protective immunogenicity following a single injection in murine and primate models. Obesity and old age are associated with increased mortality in COVID-19, as well as reduced immunogenicity and efficacy of vaccines. Here, we investigated the effectiveness of the AAVCOVID vaccine candidates in murine models of obesity and aging. Results demonstrate that obesity did not significantly alter the immunogenicity of either vaccine candidate. In aged mice, vaccine immunogenicity was impaired. These results suggest that AAV-based vaccines may have limitations in older populations and may be equally applicable in obese and non-obese populations.
Reproduction Number of the Omicron Variant Triples That of the Delta Variant
Authors: Du Zhanwei , Hong Huaping , Wang Shuqi , Ma Lijia , Liu Caifen , Bai Yuan , Adam Dillon C. , Tian Linwei , Wang Lin , Lau Eric H. Y. , Cowling Benjamin J.
Published: April 2022

COVID-19 remains a persistent threat, especially with the predominant Omicron variant emerging in early 2022, presenting with high transmissibility, immune escape, and waning. There is a need to rapidly ramp up global vaccine coverage while enhancing public health and social measures. Timely and reliable estimation of the reproduction number throughout a pandemic is critical for assessing the impact of mitigation efforts and the potential need to adjust for control measures. We conducted a systematic review on the reproduction numbers of the Omicron variant and gave the pooled estimates. We identified six studies by searching PubMed, Embase, Web of Science, and Google Scholar for articles published between 1 January 2020 and 6 March 2022. We estimate that the effective reproduction number ranges from 2.43 to 5.11, with a pooled estimate of 4.20 (95% CI: 2.05, 6.35). The Omicron variant has an effective reproduction number which is triple (2.71 (95% CI: 1.86, 3.56)) that of the Delta variant.
Specific Interaction of DARPin with HIV-1 CANTD Disturbs the Distribution of Gag, RNA Packaging, and Tetraspanin Remodelling in the Membrane
Authors: Moonmuang Sutpirat , Maniratanachote Rawiwan , Chetprayoon Paninee , Sornsuwan Kanokporn , Thongkum Weeraya , Chupradit Koollawat , Tayapiwatana Chatchai
Published: April 2022

A designed repeat scaffold protein (AnkGAG1D4) recognizing the human immunodeficiency virus-1 (HIV-1) capsid (CA) was formerly established with antiviral assembly. Here, we investigated the molecular mechanism of AnkGAG1D4 function during the late stages of the HIV-1 replication cycle. By applying stimulated emission-depletion (STED) microscopy, Gag polymerisation was interrupted at the plasma membrane. Disturbance of Gag polymerisation triggered Gag accumulation inside producer cells and trapping of the CD81 tetraspanin on the plasma membrane. Moreover, reverse transcriptase-quantitative polymerase chain reaction (RT-qPCR) experiments were performed to validate the packaging efficiency of RNAs. Our results advocated that AnkGAG1D4 interfered with the Gag precursor protein from selecting HIV-1 and cellular RNAs for encapsidation into viral particles. These findings convey additional information on the antiviral activity of AnkGAG1D4 at late stages of the HIV-1 life cycle, which is potential for an alternative anti-HIV molecule.
Characterization of HIV-1 Infection in Microglia-Containing Human Cerebral Organoids
Authors: Gumbs Stephanie B. H. , Berdenis van Berlekom Amber , Kübler Raphael , Schipper Pauline J. , Gharu Lavina , Boks Marco P. , Ormel Paul R. , Wensing Annemarie M. J. , de Witte Lot D. , Nijhuis Monique
Published: April 2022

The achievement of an HIV cure is dependent on the eradication or permanent silencing of HIV-latent viral reservoirs, including the understudied central nervous system (CNS) reservoir. This requires a deep understanding of the molecular mechanisms of HIV’s entry into the CNS, latency establishment, persistence, and reversal. Therefore, representative CNS culture models that reflect the intercellular dynamics and pathophysiology of the human brain are urgently needed in order to study the CNS viral reservoir and HIV-induced neuropathogenesis. In this study, we characterized a human cerebral organoid model in which microglia grow intrinsically as a CNS culture model to study HIV infection in the CNS. We demonstrated that both cerebral organoids and isolated organoid-derived microglia (oMG), infected with replication-competent HIVbal reporter viruses, support productive HIV infection via the CCR5 co-receptor. Productive HIV infection was only observed in microglial cells. Fluorescence analysis revealed microglia as the only HIV target cell. Susceptibility to HIV infection was dependent on the co-expression of microglia-specific markers and the CD4 and CCR5 HIV receptors. Altogether, this model will be a valuable tool within the HIV research community to study HIV–CNS interactions, the underlying mechanisms of HIV-associated neurological disorders (HAND), and the efficacy of new therapeutic and curative strategies on the CNS viral reservoir.
Two Novel Lytic Bacteriophages Infecting Enterococcus spp. Are Promising Candidates for Targeted Antibacterial Therapy
Authors: Tkachev Pavel V. , Pchelin Ivan M. , Azarov Daniil V. , Gorshkov Andrey N. , Shamova Olga V. , Dmitriev Alexander V. , Goncharov Artemiy E.
Published: April 2022

The rapid emergence of antibiotic resistance is of major concern globally. Among the most worrying pathogenic bacteria are vancomycin-resistant enterococci. Phage therapy is a highly promising method for controlling enterococcal infections. In this study, we described two virulent tailed bacteriophages possessing lytic activity against Enterococcus faecalis and E. faecium isolates. The SSsP-1 bacteriophage belonged to the Saphexavirus genus of the Siphoviridae family, and the GVEsP-1 bacteriophage belonged to the Schiekvirus genus of Herelleviridae. The genomes of both viruses carried putative components of anti-CRISPR systems and did not contain known genes coding for antibiotic-resistance determinants and virulence factors. The conservative arrangement of protein-coding sequences in Saphexavirus and Schiekvirus genomes taken together with positive results of treating enterococcal peritonitis in an animal infection model imply the potential suitability of GVEsP-1 and SSsP-1 bacteriophages for clinical applications.
Detection of Four Porcine Enteric Coronaviruses Using CRISPR-Cas12a Combined with Multiplex Reverse Transcriptase Loop-Mediated Isothermal Amplification Assay
Authors: Liu Jiajia , Tao Dagang , Chen Xinquan , Shen Linyuan , Zhu Li , Xu Bingrong , Liu Hailong , Zhao Shuhong , Li Xinyun , Liu Xiangdong , Xie Shengsong , Niu Lili
Published: April 2022

Porcine enteric coronaviruses have caused immense economic losses to the global pig industry, and pose a potential risk for cross-species transmission. The clinical symptoms of the porcine enteric coronaviruses (CoVs) are similar, making it difficult to distinguish between the specific pathogens by symptoms alone. Here, a multiplex nucleic acid detection platform based on CRISPR/Cas12a and multiplex reverse transcriptase loop-mediated isothermal amplification (RT-LAMP) was developed for the detection of four diarrhea CoVs: porcine epidemic diarrhea virus (PEDV), transmissible gastroenteritis virus (TGEV), porcine deltacoronavirus (PDCoV), and swine acute diarrhea syndrome coronavirus (SADS-CoV). With this strategy, we realized a visual colorimetric readout visible to the naked eye without specialized instrumentation by using a ROX-labeled single-stranded DNA-fluorescence-quenched (ssDNA-FQ) reporter. Our method achieved single-copy sensitivity with no cross-reactivity in the identification and detection of the target viruses. In addition, we successfully detected these four enteric CoVs from RNA of clinical samples. Thus, we established a rapid, sensitive, and on-site multiplex molecular differential diagnosis technology for porcine enteric CoVs.
Advancing the Rose Rosette Virus Minireplicon and Encapsidation System by Incorporating GFP, Mutations, and the CMV 2b Silencing Suppressor
Authors: Urrutia Cesar D. , Romay Gustavo , Shaw Brian D. , Verchot Jeanmarie
Published: April 2022

Plant infecting emaraviruses have segmented negative strand RNA genomes and little is known about their infection cycles due to the lack of molecular tools for reverse genetic studies. Therefore, we innovated a rose rosette virus (RRV) minireplicon containing the green fluorescent protein (GFP) gene to study the molecular requirements for virus replication and encapsidation. Sequence comparisons among RRV isolates and structural modeling of the RNA dependent RNA polymerase (RdRp) and nucleocapsid (N) revealed three natural mutations of the type species isolate that we reverted to the common species sequences: (a) twenty-one amino acid truncations near the endonuclease domain (named delA), (b) five amino acid substitutions near the putative viral RNA binding loop (subT), and (c) four amino acid substitutions in N (NISE). The delA and subT in the RdRp influenced the levels of GFP, gRNA, and agRNA at 3 but not 5 days post inoculation (dpi), suggesting these sequences are essential for initiating RNA synthesis and replication. The NISE mutation led to sustained GFP, gRNA, and agRNA at 3 and 5 dpi indicating that the N supports continuous replication and GFP expression. Next, we showed that the cucumber mosaic virus (CMV strain FNY) 2b singularly enhanced GFP expression and RRV replication. Including agRNA2 with the RRV replicon produced observable virions. In this study we developed a robust reverse genetic system for investigations into RRV replication and virion assembly that could be a model for other emaravirus species.
Foot-and-Mouth Disease Virus 3A Hijacks Sar1 and Sec12 for ER Remodeling in a COPII-Independent Manner
Authors: Lee Heng-Wei , Jiang Yi-Fan , Chang Hui-Wen , Cheng Ivan-Chen
Published: April 2022

Positive-stranded RNA viruses modify host organelles to form replication organelles (ROs) for their own replication. The enteroviral 3A protein has been demonstrated to be highly associated with the COPI pathway, in which factors operate on the ER-to-Golgi intermediate and the Golgi. However, Sar1, a COPII factor exerting coordinated action at endoplasmic reticulum (ER) exit sites rather than COPI factors, is required for the replication of foot-and-mouth disease virus (FMDV). Therefore, further understanding regarding FMDV 3A could be key to explaining the differences and to understanding FMDV’s RO formation. In this study, FMDV 3A was confirmed as a peripheral membrane protein capable of modifying the ER into vesicle-like structures, which were neither COPII vesicles nor autophagosomes. When the C-terminus of 3A was truncated, it was located at the ER without vesicular modification. This change was revealed using mGFP and APEX2 fusion constructs, and observed by fluorescence microscopy and electron tomography, respectively. For the other 3A truncation, the minimal region for modification was aa 42–92. Furthermore, we found that the remodeling was related to two COPII factors, Sar1 and Sec12; both interacted with 3A, but their binding domains on 3A were different. Finally, we hypothesized that the N-terminus of 3A would interact with Sar1, as its C-terminus simultaneously interacted with Sec12, which could possibly enhance Sar1 activation. On the ER membrane, active Sar1 interacted with regions of aa 42–59 and aa 76–92 from 3A for vesicle formation. This mechanism was distinct from the traditional COPII pathway and could be critical for FMDV RO formation.
Transcriptomics of Acute DENV-Specific CD8+ T Cells Does Not Support Qualitative Differences as Drivers of Disease Severity
Authors: Grifoni Alba , Voic Hannah , Yu Esther , Mateus Jose , Yan Fung Kai , Wang Alice , Seumois Grégory , De Silva Aruna , Tennekon Rashika , Premawansa Sunil , Premawansa Gayani , Tippalagama Rashmi , Wijewickrama Ananda , Chawla Ashu , Greenbaum Jason , Peters Bjoern , Pandurangan Vijayanand , Weiskopf Daniela , Sette Alessandro
Published: April 2022

While several lines of evidence suggest a protective role of T cells against disease associated with Dengue virus (DENV) infection, their potential contribution to immunopathology in the acute phase of DENV infection remains controversial, and it has been hypothesized that the more severe form of the disease (dengue hemorrhagic fever, DHF) is associated with altered T cell responses. To address this question, we determined the transcriptomic profiles of DENV-specific CD8+ T cells in a cohort of 40 hospitalized dengue patients with either a milder form of the disease (dengue fever, DF) or a more severe disease form (dengue hemorrhagic fever, DHF). We found multiple transcriptomic signatures, one associated with DENV-specific interferon-gamma responding cells and two other gene signatures, one specifically associated with the acute phase and the other with the early convalescent phase. Additionally, we found no differences in quantity and quality of DENV-specific CD8+ T cells based on disease severity. Taken together with previous findings that did not detect altered DENV-specific CD4 T cell responses, the current analysis argues against alteration in DENV-specific T cell responses as being a correlate of immunopathology.
Surviving the Storm: Cytokine Biosignature in SARS-CoV-2 Severity Prediction
Authors: Ahmad Rahnuma , Haque Mainul
Published: April 2022

A significant part of the world population has been affected by the devastating SARS-CoV-2 infection. It has deleterious effects on mental and physical health and global economic conditions. Evidence suggests that the pathogenesis of SARS-CoV-2 infection may result in immunopathology such as neutrophilia, lymphopenia, decreased response of type I interferon, monocyte, and macrophage dysregulation. Even though most individuals infected with the SARS-CoV-2 virus suffer mild symptoms similar to flu, severe illness develops in some cases, including dysfunction of multiple organs. Excessive production of different inflammatory cytokines leads to a cytokine storm in COVID-19 infection. The large quantities of inflammatory cytokines trigger several inflammation pathways through tissue cell and immune cell receptors. Such mechanisms eventually lead to complications such as acute respiratory distress syndrome, intravascular coagulation, capillary leak syndrome, failure of multiple organs, and, in severe cases, death. Thus, to devise an effective management plan for SARS-CoV-2 infection, it is necessary to comprehend the start and pathways of signaling for the SARS-CoV-2 infection-induced cytokine storm. This article discusses the current findings of SARS-CoV-2 related to immunopathology, the different paths of signaling and other cytokines that result in a cytokine storm, and biomarkers that can act as early signs of warning for severe illness. A detailed understanding of the cytokine storm may aid in the development of effective means for controlling the disease’s immunopathology. In addition, noting the biomarkers and pathophysiology of severe SARS-CoV-2 infection as early warning signs can help prevent severe complications.
Mycobacterium bovis Wild-Type BCG or Recombinant BCG Secreting Murine IL-18 (rBCG/IL-18) Strains in Driving Immune Responses in Immunocompetent or Immunosuppressed Mice
Authors: Fol Marek , Włodarczyk Marcin , Kowalewicz-Kulbat Magdalena , Druszczyńska Magdalena , Krawczyk Krzysztof T. , Wawrocki Sebastian , Rudnicka Wiesława , Chmiela Magdalena
Published: April 2022

Mycobacterium tuberculosis infections remain a global health problem in immunosuppressed patients. The effectiveness of BCG (Bacillus Calmette–Guérin), an anti-tuberculosis vaccine, is unsatisfactory. Finding a new vaccine candidate is a priority. We compared numerous immune markers in BCG-susceptible C57BL/6 and BCG-resistant C3H mice who had been injected with 0.9% NaCl (control) or with wild-type BCG or recombinant BCG secreting interleukin (IL)-18 (rBCG/IL-18) and in immunized mice who were immunocompromised with cyclophosphamide (CTX). The inoculation of rBCG/IL-18 in immunocompetent mice increased the percentage of bone marrow myeloblasts and promyelocytes, which were further elevated in the rBCG/IL-18/CTX-treated mice: C57BL/6 mice—3.0% and 11.4% (control) vs. 18.6% and 42.4%, respectively; C3H mice—1.1% and 7.7% (control) vs. 18.4% and 44.9%, respectively, p < 0.05. The bone marrow cells showed an increased mean fluorescence index (MFI) in the CD34 adhesion molecules: C57BL/6 mice—4.0 × 103 (control) vs. 6.2 × 103; C3H mice—4.0 × 103 (control) vs. 8.0 × 103, p < 0.05. Even in the CTX-treated mice, the rBCG/IL-18 mobilized macrophages for phagocytosis, C57BL/6 mice—4% (control) vs. 8%; C3H mice—2% (control) vs. 6%, and in immunocompetent mice, C57BL/6 induced the spleen homing of effector memory CD4+ and CD8+ T cells (TEM), 15% (control) vs. 28% and 8% (control) vs. 22%, respectively, p < 0.05. In conclusion, rBCG/IL-18 effectively induced selected immune determinants that were maintained even in immunocompromised mice.
Assessment of Seroconversion after SARS-CoV-2 Vaccination in Patients with Lung Cancer
Authors: Trontzas Ioannis P. , Vathiotis Ioannis , Economidou Christina , Petridou Ioulia , Gomatou Georgia , Grammoustianou Maria , Tsamis Ioannis , Syrigos Nikolaos , Anagnostakis Maximilian , Fyta Eleni , Sakka Vissaria , Poulakou Garyphalia , Kotteas Elias A. , Syrigou Ekaterini
Published: April 2022

Background: SARS-CoV-2 mortality rates are significantly higher in patients with lung cancer compared with the general population. However, little is known on their immunization status after vaccination. Methods: To evaluate the humoral response (seroconversion) of patients with lung cancer following vaccination against SARS-COV-2 (Group A), we obtained antibodies against SARS-CoV-2 spike (S) protein both at baseline and at different time points after the first dose of SARS-CoV-2 vaccine (two to three weeks [T1], six weeks ± one week [T2], 12 weeks ± three weeks [T3], and 24 weeks ± three weeks [T4]). Antibodies were also acquired from a control cohort of non-lung cancer patients (Group B) as well as a third cohort containing healthy controls (Group C) at all time points and at T4, respectively, to make comparisons with Group A. Analysis of antibody response at different time points, association with clinicopathologic parameters, and comparisons with control groups were performed. Results: A total of 125 patients with lung cancer were included in the analysis (96 males [74.3%], median age of 68 years [46–91]. All study participants received two vaccine doses (BNT162b2, mRNA-1273, AZD1222). Analysis of anti-SARS-CoV-2 S antibody titers showed minimal response at T1 (0.4 [0.4–48.6] IU/mL). Antibody response peaked at T2 (527.0 [0.4–2500] IU/mL) and declined over T3 (323.0 [0.4–2500] IU/mL) and T4 (141.0 [0.4–2500] IU/mL). Active smokers had lower antibody titers at T2 (p = 0.04), T3 (p = 0.04), and T4 (p < 0.0001) compared with former or never smokers. Peak antibody titers were not associated with any other clinicopathologic characteristic. No significant differences were observed compared with Group B. However, lung cancer patients exhibited significantly decreased antibody titers compared with Group C at T4 (p < 0.0001). Conclusions: Lung cancer patients demonstrate sufficient antibody response six weeks after the first dose of vaccine against SARS-CoV-2 when vaccinated with two-dose regimens. Rapidly declining antibody titers six weeks after the first dose underline the need for a third dose three months later, in patients with lung cancer, and especially active smokers.
Social Capital, Urbanization Level, and COVID-19 Vaccination Uptake in the United States: A National Level Analysis
Authors: Qiao Shan , Li Zhenlong , Zhang Jiajia , Sun Xiaowen , Garrett Camryn , Li Xiaoming
Published: April 2022

Vaccination remains the most promising mitigation strategy for the COVID-19 pandemic. However, existing literature shows significant disparities in vaccination uptake in the United States. Using publicly available national-level data, we aimed to explore if county-level social capital can further explain disparities in vaccination uptake rates when adjusting for demographic and social determinants of health (SDOH) variables, and if association between social capital and vaccination uptake may vary by urbanization level. Bivariate analyses and a hierarchical multivariable quasi-binomial regression analysis were conducted, where the regression analysis was stratified by urban–rural status. The current study suggests that social capital contributes significantly to the disparities of vaccination uptake in the US. The results of the stratification analysis show common predictors of vaccine uptake but also suggest various patterns based on urbanization level regarding the associations of COVID-19 vaccination uptake with SDOH and social capital factors. The study provides a new perspective to address disparities in vaccination uptake through fostering social capital within communities; which may inform tailored public health intervention efforts to enhance social capital and promote vaccination uptake.
COVID-19 Vaccine Hesitancy and Determinants of Acceptance among Healthcare Workers, Academics and Tertiary Students in Nigeria
Authors: Njoga Emmanuel O. , Mshelbwala Philip P. , Abah Kenneth O. , Awoyomi Olajoju J. , Wangdi Kinley , Pewan Shedrach B. , Oyeleye Felix A. , Galadima Haruna B. , Alhassan Salisu A. , Okoli Chinwe E. , Kwaja Elisha Z. , Onwumere-Idolor Onyinye S. , Atadiose Everest O. , Awoyomi Priscilla O. , Ibrahim Musawa A. , Lawan Kabiru M. , Zailani Shehu A. , Salihu Mohammed D. , Rupprecht Charles E.
Published: April 2022

The COVID-19 pandemic has resulted in millions of human deaths, prompting the rapid development and regulatory approval of several vaccines. Although Nigeria implemented a COVID-19 vaccination program on 15 March 2021, low vaccine acceptance remains a major challenge. To provide insight on factors associated with COVID-19 vaccine hesitancy (VH), we conducted a national survey among healthcare workers, academics, and tertiary students, between 1 September 2021 and 31 December 2021. We fitted a logistic regression model to the data and examined factors associated with VH to support targeted health awareness campaigns to address public concerns and improve vaccination rates on par with global efforts. A total of 1525 respondents took part in the survey, composed of healthcare-workers (24.5%, 373/1525), academics (26.9%, 410/1525), and students (48.7%, 742/1525). Only 29% (446/1525) of the respondents were vaccinated at the time of this study. Of the 446 vaccinated respondents, 35.7% (159/446), 61.4% (274/446) and 2.9% (13/446) had one, two and three or more doses, respectively. Reasons for VH included: difficulty in the vaccination request/registration protocols (21.3%, 633/1079); bad feelings towards the vaccines due to negative social media reports/rumours (21.3%, 633/1079); personal ideology/religious beliefs against vaccination (16.7%, 495/1079); and poor confidence that preventive measures were enough to protect against COVID-19 (11%, 323/1079). Some health concerns that deterred unvaccinated respondents were: innate immunity issues (27.7%, 345/1079); allergic reaction concerns (24.6%, 307/1079); and blood clot problems in women (21.4%, 266/1079). In the multivariable model, location of respondents/geopolitical zones, level of education, testing for COVID-19, occupation/job description and religion were significantly associated with VH. Findings from this study underscore the need for targeted awareness creation to increase COVID-19 vaccination coverage in Nigeria and elsewhere. Besides professionals, similar studies are recommended in the general population to develop appropriate public health interventions to improve COVID-19 vaccine uptake.
Factors Associated with Attitudes towards Preventing Head and Neck Cancer through HPV Vaccination in Poland: A Nationwide Cross-Sectional Survey in 2021
Authors: Pinkas Wojciech , Jankowski Mateusz , Wierzba Waldemar
Published: April 2022

Human papillomavirus (HPV) infection is a risk factor for head and neck cancers (HNC). HPV-related head and neck cancers are preventable through vaccination. This study aimed to assess the attitudes towards HPV vaccination among adults in Poland, with particular emphasis on preventing HPV-related HNC, as well as identifying factors associated with a willingness to vaccinate children against HPV. This cross-sectional survey was carried out in November 2021 on a nationwide, representative sample of 1082 adults in Poland. The computer-assisted web interview (CAWI) technique was used. Only 42.5% of respondents were aware that HPV infection is a sexually transmitted disease. Less than one fourth of respondents (23.8%) indicated vaccination as an HPV infection prevention method and 51.9% of respondents correctly indicated HPV vaccine-eligible populations. Only 48.1% of respondents declared positive attitudes towards HPV vaccinations and declared that they would vaccinate their child against HPV. Males (OR: 1.43, 95% CI: 1.11–1.85; p < 0.01), respondents who did not have children (OR: 1.50, 95% CI: 1.04–2.14; p < 0.05), as well as those who had received a higher education (OR: 1.43, 95% CI: 1.11–1.85; p < 0.01), had greater odds of indicating positive attitudes towards HPV vaccinations. This study revealed a low level of public awareness of HPV vaccination as a cancer prevention method in Poland.
COVID-19 Infection among Elite Football Players: A Nationwide Prospective Cohort Study
Authors: Papagiannis Dimitrios , Laios Theodoros , Tryposkiadis Konstantinos , Kouriotis Konstantinos , Roussis Xenophon , Basdekis Georgios , Boudouris Panagiotis , Cholevas Christos , Karakitsios Stergios , Kakavas Pindaros , Kiriakidis Theoharis , Kouloumentas Panagiotis , Kouvidis Georgios , Manoudis Grigoris , Nikolaou Pantelis , Theos Christos , Piskopakis Andreas-Nikolaos , Rallis Ioannis , Ristanis Stavros , Toliopoulos Alexandros , Zisis Grigoris , Theodorakis Yiannis , Gourgoulianis Konstantinos I. , Rachiotis Georgios
Published: April 2022

Little is known about the risk of COVID-19 infection among footballers. We aimed to investigate the incidence and characteristics of COVID-19 infection among footballers. In total, 480 football players of Super League Greece and 420 staff members participated in a prospective cohort study, which took place from May 2020 to May 2021. Nasopharyngeal swabs were collected from footballers and staff members weekly. All samples (n = 43,975) collected were tested using the reverse transcriptase polymerase chain reaction (RT-PCR) test for the detection of “SARS-CoV-2”. In total, 190 positive cases (130 among professional football players and 60 among staff) were recorded. Out of the 190 cases that turned positive, 64 (34%) cases were considered as symptomatic, and 126 (66%) cases were asymptomatic. The incidence rate of a positive test result for footballers was 0.57% (confidence interval (CI) 0.48–0.68%) and for staff members it was 0.27% (CI 0.20%, 0.34%), respectively. Footballers recorded a twofold increased risk of COVID-19 infection in comparison to staff members (relative risk = 2.16; 95% CI = 1.59–2.93; p-value < 0.001). No significant transmission events were observed during the follow-up period. We found a low incidence of COVID-19 infection among professional footballers over a long follow-up period. Furthermore, the implementation of a weekly diagnostic testing (RT-PCR) was critical to break the transmission chain of COVID-19, especially among asymptomatic football players and staff members.
No-Fault Compensation and Anti-COVID-19 Compulsory Vaccination: The Italian Context in a Broad View
Authors: Frati Paola , Di Fazio Nicola , La Russa Raffaele , Santoro Paola , Delogu Giuseppe , Fineschi Vittorio
Published: April 2022

Italy, like other European countries, has produced a series of regulations during the COVID-19 pandemic. Compulsory vaccination has been introduced for the Italian population. Meanwhile, the Decree-Law 27 January 2022 n. 4 provided for the compensation mechanism for those who have received damage of the psycho-physical integrity due to the anti-SARS-CoV-2 vaccination recommended by the Italian Health Authority. Law 1992 no. 210 already provided for the indemnity system for persons damaged by irreversible complications due to compulsory vaccinations, transfusions, and the administration of blood products. The legislator intended to attribute the right to an indemnity that is not compensatory in order to repair a wrong connected to some hypothesis of liability, but it rather has a welfare character in the broad sense, being attributable to Constitutional fundamentals. In the Italian panorama, although the vaccination damages have been fully included in the already existing law no. 210/1992, to date, no precise indications have been provided regarding the ascertainment of the causal link and the extent of the compensable damage. In the near future, the interest of the scientific community will focus on the evaluation of applications for access to the benefit.
Dynamics of Neutralizing Antibody and T-Cell Responses to SARS-CoV-2 and Variants of Concern after Primary Immunization with CoronaVac and Booster with BNT162b2 or ChAdOx1 in Health Care Workers
Authors: Jantarabenjakul Watsamon , Sodsai Pimpayao , Chantasrisawad Napaporn , Jitsatja Anusara , Ninwattana Sasiprapa , Thippamom Nattakarn , Ruenjaiman Vichaya , Tan Chee Wah , Pradit Rakchanok , Sophonphan Jiratchaya , Wacharapluesadee Supaporn , Wang Lin-Fa , Puthanakit Thanyawee , Hirankarn Nattiya , Putcharoen Opass
Published: April 2022

Inactivated SARS-CoV-2 vaccine (CoronaVac) is commonly used in national immunization programs. However, the immune response significantly declines within a few months. Our study assessed the immune response against SARS-CoV-2 after receiving booster shots of BNT162b2 or ChAdOx1 among health care workers who previously received CoronaVac as their primary immunization. Fifty-six participants who received ChAdOx1 and forty-two participants who received BNT162b2 were enrolled into this study, which evaluated immune responses, including anti-SARS-CoV-2 spike total antibodies (Elecsys®), surrogated viral neutralization test (sVNT) to ancestral strain (cPass™; GenScript), five variants of concern (Alpha, Beta, Gamma, Delta, and Omicron) (Luminex; multiplex sVNT) and the ELISpot with spike (S1 and S2) peptide pool against the ancestral SARS-CoV-2 strain. The samples were analyzed at baseline, 4, and 12 weeks after primary immunization, as well as 4 and 12 weeks after receiving the booster. This study showed a significant increase in anti-SARS-CoV-2 spike total antibodies, sVNT, and T-cell immune response after the booster, including against the Omicron variant. Immune responses rapidly decreased in the booster group at 12 weeks after booster but were still higher than post-primary vaccination. A fourth dose or a second booster should be recommended, particularly in health care workers.
SARS-CoV-2 Antinucleocapsid Antibody Response of mRNA and Inactivated Virus Vaccines Compared to Unvaccinated Individuals
Authors: Qaqish Arwa , Abbas Manal Mohammad , Al-Tamimi Mohammad , Abbas Manal Ahmad , Al-Omari Mariam , Alqassieh Rami
Published: April 2022

Comparative studies of SARS-CoV-2 antinucleocapsid (anti-N) antibody response in the context of inactivated virus vaccines versus natural infection are limited. This study aims to determine and compare the anti-N antibody levels in people vaccinated with Sinopharm’s (Wuhan, China) inactivated virus vaccine in comparison with naturally infected unvaccinated and Pfizer’s spike (S) mRNA-based vaccinated subjects. Two hundred ninety-nine Jordanian adults participated in the study including unvaccinated COVID-19-infected patients (n = 99), Pfizer-vaccinated (n = 100), and Sinopharm-vaccinated recipients (n = 100). Serum samples were assayed for anti-N IgG, anti-N IgM, and anti-S IgG. Sera of 64.6% of naturally infected unvaccinated participants had positive anti-S IgG (median = 36.35 U/mL; range: 0.04–532.5 U/mL) compared to 88% of Pfizer-vaccinated (Manhattan, NY, USA) (median = 26.52 U/mL; range: 0.39–1265 U/mL) and 58% of Sinopharm-vaccinated subjects (median = 14.35 U/mL; range: 0.39–870.17 U/mL). Samples of 60.6% of naturally infected unvaccinated people had positive anti-N IgG (median = 15.03 U/mL; range: 0–265.1 U/mL) compared to 25% of Pfizer-vaccinated (median = 0.02 U/mL; range: 0–68 U/mL) and 48% of Sinopharm-vaccinated subjects (median = 0.8 U/mL; range: 0–146.3 U/mL). Anti-N titers among the three groups were significantly different (p < 0.05). Anti-N IgM antibodies appeared in 23.2% of the naturally infected unvaccinated group (median = 0.29 U/mL; range: 0–15 U/mL) compared to only 9.0% of Pfizer-vaccinated (median = 018 U/mL; range: 0–33 U/mL) and 7.0% of Sinopharm-vaccinated subjects (median = 0.2 U/mL; range: 0–12.02 U/mL). A significant negative correlation was found between anti-S and age for both vaccines and between anti-S and the presence of chronic disease in Sinopharm-vaccinated subjects. A significant positive correlation between anti-N and anti-S titers was found among the three groups. This study shows that the inactivated virus vaccine, Sinopharm, induces an anti-N response that can boost that of natural infection or vice versa. On the other hand, the Pfizer mRNA-based vaccine induces a significantly stronger anti-S Ab response.
Research on Line Planning and Timetabling Optimization Model Based on Passenger Flow of Subway Network
Authors: Mei Wenqing , Zhang Yu , Zhang Miao , Qing Guangming , Zhang Zhaoyang
Published: April 2022

In this paper, we propose a line planning and timetabling optimization model considering operation cost and passenger satisfaction based on passenger flow. By comprehensively considering the operation cost and passenger waiting cost, the comprehensive social benefits of the line network operation organization are evaluated from a unified perspective. The passenger flow model based on queuing theory is adopted, which can better describe the relationship between passenger flow change and passenger waiting time. The integrated optimization model of the line network is constructed, and mixed integer quadratic programming is adopted, which has the advantages of accurate results and fast convergence. Through the simulation case analysis, the correctness of the method proposed in this paper is verified.
Impacts, Diversity, and Resilience of a Coastal Water Small-Scale Fisheries Nexus during COVID-19: A Case Study in Bangladesh
Authors: Uddin Mohammad Muslem , Schneider Petra , Deb Dibash , Hasan Mehedi , Ahmed Tansu , Mim Sharmin Sultana , Mozumder Mohammad Mojibul Hoque
Published: April 2022

The COVID-19 pandemic has profoundly affected many world regions’ coastal social-ecological systems (SESs). Its extensive consequences have exposed flaws in numerous facets of society, including small-scale coastal fisheries in developing countries. To this extent, by focusing on two coastal districts in Bangladesh, namely Chittagong and Cox’s Bazar, we investigated how the lockdown during COVID-19 impacted small-scale coastal fishers in Bangladesh and which immediate measures are required to develop and implement insights, on the role of the scale of governance attributes, in facilitating or impeding the resilience of small-scale fisheries (SSFs). We analyzed both qualitative and quantitative data obtained through semi-structured, in-depth individual interviews (n = 120). Data were further validated using two focus group discussions in the study areas. The impact of the pandemic on the fishers’ livelihood included halting all kinds of fishing activities; limited time or area for fishing; livelihood relocation or alternative work; low fish price; fewer fish buyers, causing difficulty in selling; and travel or free-movement restrictions. Additionally, the study discovered several coping skills and found that the most prevalent coping strategy against the effect of the COVID-19 pandemic was to take out loans (48%) from different organizations and NGOs and borrow money from relatives, neighbors, friends, or boat owners. Finally, the current research analysis identified possible recommendations to enhance the resilience of coastal fishers during COVID-19, emphasizing arrangements that should be made to provide alternative livelihood opportunities for coastal fishermen via need-based training, technical and vocational education and training, and microcredit to keep them afloat and earning during the pandemic, not relying only on fishing.
The Importance of Groundwater Quality and Other Habitat Parameters for Effective Active Protection of an Endangered Plant Species in Eastern Poland
Authors: Serafin Artur , Pogorzelec Magdalena , Banach-Albińska Barbara , Zalewska Ewa , Bronowicka-Mielniczuk Urszula , Arciszewski Michał
Published: April 2022

Anthropogenic habitat transformations involving changes in hydrologic conditions in the peatlands of eastern Poland contribute to the disappearance of sites of numerous relict plant species. The study aimed to verify whether sites chosen for the reintroduction of the endangered species Salix lapponum had been well selected by analyzing selected habitat parameters and determining whether changes in their values may in the long term have a significant impact on the functioning of new populations of the species. The results obtained at sites where the S. lapponum population was replenished with new individuals were analyzed in relation to data from one of the natural sites of the species. Hydrochemical characterization of the groundwater at the study sites confirmed that there was no significant influx of nutrients into the habitat or other hydrological disturbances due to human activity. The values obtained for the factors tested were within the limits of the specific preferences of the species. Changes in the values of some physical-chemical parameters of the water were due to the ecosystem’s internal metabolism, and the site with the highest hydrochemical stability was the one where S. lapponum occurred naturally. The species composition and structure of the phytocoenoses at all study sites were characteristic of natural sites of the species and showed no disturbances caused by human impact. The microbiological analyses indicated normal soil processes. The hydrochemical and biocoenotic stability of the habitat, including the microbiological balance of the soil, which was free of pathogenic fungi, should have a positive effect on the condition of the reintroduced plants.
Research and Application of Reservoir Flood Control Optimal Operation Based on Improved Genetic Algorithm
Authors: Ren Minglei , Zhang Qi , Yang Yuxia , Wang Gang , Xu Wei , Zhao Liping
Published: April 2022

This paper took the Foziling Reservoir in the Pi River Basin as an example, used an improved genetic algorithm to optimize the flood control dispatching during the flood process, and compared the results with the traditional genetic algorithm and the dispatching plan in the 2020 large-scale reservoir flood control operation plan. The results showed that, compared with the traditional genetic algorithm, the improved genetic algorithm saved the time for the model to determine the penalty coefficients and made the model application more convenient. At the same time, the design of the original scheduling scheme also has certain limitations. The scheduling results obtained by improving the genetic algorithm could occupy a small flood control capacity as much as possible under the premise of ensuring the safety of the reservoir itself and the downstream area.
Deep Learning-Based Algal Detection Model Development Considering Field Application
Authors: Park Jungsu , Baek Jiwon , Kim Jongrack , You Kwangtae , Kim Keugtae
Published: April 2022

Algal blooms have various effects on drinking water supply systems; thus, proper monitoring is essential. Traditional visual identification using a microscope is a time-consuming method and requires extensive labor. Recently, advanced machine learning algorithms have been increasingly applied for the development of object detection models. The You-Only-Look-Once (YOLO) model is a novel machine learning algorithm used for object detection; it has been continuously improved in newer versions, and a tiny version of each standard model presented. The tiny versions applied a less complicated architecture using a smaller number of convolutional layers to enable faster object detection than the standard version. This study compared the applicability of the YOLO models for algal image detection from a practical aspect in terms of classification accuracy and inference time. Therefore, automated algal cell detection models were developed using YOLO v3 and YOLO v4, in which a tiny version of each model was also applied. The cell images of 30 algal genera were used for training and testing the models. The model performances were compared using the mean average precision (mAP). The mAP values of the four models were 40.9, 88.8, 84.4, and 89.8 for YOLO v3, YOLO v3-tiny, YOLO v4, and YOLO v4-tiny, respectively, demonstrating that YOLO v4 is more precise than YOLO v3. The tiny version models presented noticeably higher model accuracy than the standard models, allowing up to ten times faster object detection time. These results demonstrate the practical advantage of tiny version models for the application of object detection with a limited number of object classes.
Impact of Livestock Farming on Nitrogen Pollution and the Corresponding Energy Demand for Zero Liquid Discharge
Authors: Samanta Prantik , Horn Harald , Saravia Florencia
Published: April 2022

Intensive livestock farming has negatively impacted the environment by contributing to the release of ammonia and nitrous oxide, groundwater nitrate pollution and eutrophication of rivers and estuaries. The nitrogen footprint calculator has predicted the large impact of meat production on global nitrogen loss, but it could not form the relationship between meat production and the corresponding manure generation. Here we report on the formation of direct relationships between beef, pork and poultry meat production and the corresponding amount of nitrogen loss through manure. Consequently, the energy demand for ammonium nitrogen recovery from manure is also reported. Nitrogen loss to the environment per unit of meat production was found directly proportional to the virtual nitrogen factors. The relationship between total nitrogen intake and the corresponding nitrogen loss per kg of meat production was also found linear. Average nitrogen loss due to manure application was calculated at 110 g kg−1 for poultry. The average nitrogen loss increased to 190 and 370 g-N kg−1 for pork and beef productions, respectively. Additionally, 147 kg ammonium nitrogen was calculated to be recovered from 123 m3 of manure. This corresponded to 1 Mg of beef production. The recovery of ammonium nitrogen was reduced to 126 and 52 kg from 45 and 13 m3 of pork and poultry manure, respectively. The ammonium nitrogen recovery values were calculated with respect to 1 Mg of both pork and poultry meat productions. Consequently, the specific energy demand of ammonium nitrogen recovery from beef manure was noticed at 49 kWh kg−1, which was significantly 57% and 69% higher than that of pork and poultry manure, respectively.
The Dynamic Behaviors of Photosynthesis during Non-Motile Cell Germination in Haematococcus pluvialis
Authors: Li Qianqian , Li Bo , Li Junmin
Published: April 2022

Haematococcus pluvialis undergoes a three-phase process during the process of germination: first, repeated mitotic events; next, cytokinesis to form the zoospore; and finally, a fast release of motile cells. Physiological properties were measured using chlorophyll a fluorescence (OJIP) transient. The most obvious increase in K-value and L-value appeared at 17 h, suggesting that oxygen-evolving complex damage and lower energetic connectivity of the photosystem II units of the mother non-motile cell occurred. Compared to phase I, the values of the maximum quantum yield of PSII photochemistry (FV/FM) and PIABS increased significantly in phases II and III, suggesting that photosynthetic photochemical activity was greatly up-regulated during cytokinesis to form zoospores and the fast release of motile cells. Moreover, the significant increase in the K-band at 17 h and 22 h indicates that the PSII donor side was the limiting factor during the initial period of germination. All these results suggest that the cellular photosynthetic activity continues to strengthen during cytokinesis to form the zoospore and the fast release of motile cells, and it was postulated to meet the demands for sporangium swelling and new organelle formation.
Assessing Seagrass Restoration Actions through a Micro-Bathymetry Survey Approach (Italy, Mediterranean Sea)
Authors: Rende Sante Francesco , Bosman Alessandro , Menna Fabio , Lagudi Antonio , Bruno Fabio , Severino Umberto , Montefalcone Monica , Irving Andrew D. , Raimondi Vincenzo , Calvo Sebastiano , Pergent Gerard , Pergent-Martinì Christine , Tomasello Agostino
Published: April 2022

Underwater photogrammetry provides a means of generating high-resolution products such as dense point clouds, 3D models, and orthomosaics with centimetric scale resolutions. Underwater photogrammetric models can be used to monitor the growth and expansion of benthic communities, including the assessment of the conservation status of seagrass beds and their change over time (time lapse micro-bathymetry) with OBIA classifications (Object-Based Image Analysis). However, one of the most complex aspects of underwater photogrammetry is the accuracy of the 3D models for both the horizontal and vertical components used to estimate the surfaces and volumes of biomass. In this study, a photogrammetry-based micro-bathymetry approach was applied to monitor Posidonia oceanica restoration actions. A procedure for rectifying both the horizontal and vertical elevation data was developed using soundings from high-resolution multibeam bathymetry. Furthermore, a 3D trilateration technique was also tested to collect Ground Control Points (GCPs) together with reference scale bars, both used to estimate the accuracy of the models and orthomosaics. The root mean square error (RMSE) value obtained for the horizontal planimetric measurements was 0.05 m, while the RMSE value for the depth was 0.11 m. Underwater photogrammetry, if properly applied, can provide very high-resolution and accurate models for monitoring seagrass restoration actions for ecological recovery and can be useful for other research purposes in geological and environmental monitoring.