Evaluation and limitations of different approaches among COVID-19 fatal cases using whole-exome sequencing data

Abstract Background COVID-19 caused by the SARS-CoV-2 infection may result in various disease symptoms and severity, ranging from asymptomatic, through mildly symptomatic, up to very severe and even fatal cases. Although environmental, clinical, and social factors play important roles in both susceptibility to the SARS-CoV-2 infection and progress of COVID-19 disease, it is becoming evident that both pathogen and host genetic factors are important too. In this study, we report findings from whole-exome sequencing (WES) of 27 individuals who died due to COVID-19, especially focusing on frequencies of DNA variants in genes previously associated with the SARS-CoV-2 infection and the severity of COVID-19. Results We selected the risk DNA variants/alleles or target genes using four different approaches: 1) aggregated GWAS results from the GWAS Catalog; 2) selected publications from PubMed; 3) the aggregated results of the Host Genetics Initiative database; and 4) a commercial DNA variant annotation/interpretation tool providing its own knowledgebase. We divided these variants/genes into those reported to influence the susceptibility to the SARS-CoV-2 infection and those influencing the severity of COVID-19. Based on the above, we compared the frequencies of alleles found in the fatal COVID-19 cases to the frequencies identified in two population control datasets (non-Finnish European population from the gnomAD database and genomic frequencies specific for the Slovak population from our own database). When compared to both control population datasets, our analyses indicated a trend of higher frequencies of severe COVID-19 associated risk alleles among fatal COVID-19 cases. This trend reached statistical significance specifically when using the HGI-derived variant list. We also analysed other approaches to WES data evaluation, demonstrating its utility as well as limitations. Conclusions Although our results proved the likely involvement of host genetic factors pointed out by previous studies looking into severity of COVID-19 disease, careful considerations of the molecular-testing strategies and the evaluated genomic positions may have a strong impact on the utility of genomic testing

Silver/Chitosan Antimicrobial Nanocomposites Coating for Medical Devices: Comparison of Nanofiller Effect Prepared via Chemical Reduction and Biosynthesis

Medical devices have an essential part in healthcare system in recent years, such as usage of heart valves, several types of stents and implants devices in patients. However, bacterial infection of medical devices causes critical issues for patients due to attachment of bacteria and formation of biofilm onto the medical devices. Therefore, finding an effective antibacterial coating to prevent biofilm formation and infection is our goal. In this study, we developed silver/chitosan nanocomposites for antimicrobial coating system by chemical and green methods using sodium borohydride and linden extract, respectively. Silver is known as a strong inorganic antimicrobial agent to kill bacteria by inactivating enzymes and dysfunction bacterial cell membranes. By immobilizing silver nanoparticles on chitosan biopolymer can prevent agglomeration of nanoparticles, besides it can improve the biocompatibility. We characterized properties of our silver chitosan nanocomposites samples using particle size distribution, ultraviolet-visible spectroscopy, X-ray diffraction analysis and scanning electron microscopy. Effective antimicrobial film preventing biofilm formation on medical devices was designed. Antimicrobial testing confirmed antimicrobial properties however variable for each type of nanosilver