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Mar 2021 DOI 10.14302/issn.2692-1537.ijcv-21-3756
In contributing to the initiative to address the COVID-19 pandemic and in order to enhance the knowledge on driving forces shaping the evolution of Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) (isolated from Tunisian patients), a comparison in relation to other coronaviruses infecting humans (SARS-CoV-1, MERS-CoV, HCoV/229E, HCoV/NL63, HCoV/OC43, and HCoV/HKU1) as well as animals (SARS-CoVs in tiger, bats, civet, pangolin, bovine, and MERS-CoV in dromedary/camel), was conducted. In-depth analysis was carried out involving 115 sequences of spike glycoprotein-coding gene extracted from the international databases. Phylogeny inference allowed the reconstruction of a bifurcating tree where four distinct groups were delineated and at the same time, three animal accessions (SARS-CoV-2/tiger, MERS-CoV/camel, and SARS-CoV/bovine) shifted from the animal group and integrated the human coronaviruses clades. Nonetheless, in the presence of reticulate events such as recombination, networks described better the phylogenetic relationships rather than the classic dendrogram. Thus, networks were produced and identified four clusters containing sharply demarcated subgroups (eight subdivisions). Except networked phylogenies of SARS-CoV-1, SARS-CoV-2, and HCoV/HKU1, all the others showed edges and boxes illustrating the occurrence of incompatibilities related to the sequences of spike glycoprotein-coding gene. Thereby and consolidating this result, three methods (RDP package, GARD, and RECCO) were used to detect breakpoints in aligned sequences. Except the clades SARS-CoV-1 and SARS-CoV-2, all the remaining phylogenetic subdivisions were subject to recombination. Furthermore, the screening of selection pressure in all studied sequences by various statistics-based models of the HyPhy package, showed that, similarly, the lineages belonging to the clades SARS-CoV-1 and SARS-CoV-2 were not under selection. In contrast, all members of the remaining clades underwent, to different extents, adaptive selection as well as purifying selection.
May 2021 DOI 10.14302/issn.2689-4602.jes-21-3837
The coronavirus infectious disease (20)19 (COVID-19) pandemic is caused by a newly identified virus (2019) SARS-CoV-2, a beta coronavirus that shares similarities with other human-infecting coronaviruses. Genomic analysis suggests that SARS-CoV-2 is closely related to SARS-CoV, a bat-related coronavirus, RaTG13, and to other pangolin-associated coronaviruses. The spike protein of coronaviruses are glycoproteins and are responsible for attaching the virus to the host cell and entering. Amino acid changes within the spike protein-encoding gene from SARS-CoV to SARS-CoV-2 enable SARS-CoV-2 to form a stable spike protein, to form a stable complex between the S protein and the receptor ACE2, to increase binding points between the S protein and ACE2, and to survive at higher temperatures. SARS-CoV-2 is zoonotic, with genomic analysis implicating bats as the original host and pangolins as the most likely intermediate host to infect humans. As SARS-CoV-2 infects humans, viral point mutations will continually occur and cause the emergence of new competitive SARS-CoV-2 strains. Two major strains include D614G and N501Y and have increased infectivity and transmission, further complicating the scope of the current COVID-19 pandemic. Vigilant monitoring of viral development and evolution is necessary for developing proper treatment methods and vaccine targets.
Sep 2020 DOI 10.14302/issn.2692-1537.ijcv-20-3538
There were compared mechanisms infecting a human organism by different viruses in relation to interaction between human diploid cellular cycle mechanisms and coronaviruses haploid genomic mechanism. Besides there were described mechamism forming combined haploid-diploid cellular cycle of viral affected cells due to interactions between human cellular cycle mechanisms and coronaviruses genomic mechanism. Further there were considered infected way of SARS-CoV-2 from mechanism maintenance stability Internal Energy of an organism’s able-bodies cells and transmutation them into viral affected cells leading to death of affected cells of high respiratory level in nose-trachea-bronchi with transiting coronaviruses through dead cells‘ wall and infecting lungs‘ cells. Taking into account great searches of methods treatments Coronaviruses infected disease, we offered to approved through detail clinical Trial of new efficient method of treatment ill patients with SARS-CoV-2 disease which can rescue of still alive lungs‘ cells. Moreover there was reviewed offered therapy of SARS-CoV-2 induced disease.
Aug 2020 DOI 10.14302/issn.2692-1537.ijcv-20-3492
Mannose binding lectins (MBL), a key molecule in our innate immune response, contributes to host defense against coronaviruses such as SARS-CoV. This article reviews the role of MBL in the innate immune response against coronavirus infections, highlights evidence of MBL’s significance, and suggests dietary MBL supplementation through increased consumption of fruits and vegetables as an accessible and viable approach to minimizing COVID-19 infection risk. Increasing consumption of plant lectins (e.g., eating fruits and vegetables) may reduce COVID-19 risks.
Jun 2020 DOI 10.14302/issn.2641-4538.jphi-20-3426
The COVID-19 pandemic has killed more than 400 thousand and infected more than 7 million people in the whole world as of 06/10/2020. Many open systems, such as educations, transportations, entertainments, sports or foods, have been completely or partially locked down in many regions of the world to prevent COVID-19 spreading. Therefore, how to reopen all of the open systems after the shutdown has become a world urgent issue. Evidences of COIVD-19 have showed: person-to-person transmission occurs among close contacts; virus droplets (or aerosols) play an important role in the transmission; people can prevent COVID-19 by measures of mask-wearing or maintaining social distancing. However, how these measures work to prevent COVID-19 is still not clear in a perspective of biomedical Infophysics. In this study, (1) we think the transmission of infection can be accomplished by real or virtual person; (2) we define a virtual person as ghost airflow, a term we coin to describe virus droplets (or aerosols) that are initially generated by human carriers and remain in the air to be transmitted. These ghost airflows are as dangerous as the real virus carriers particularly in enclosed (confined) environments; (3) we propose biomedical infophysical models (BMIPM) of filtering the ghost airflows by mask-wearing and maintaining social distancing, to help people to understand the filtering mechanisms and willingly follow the guidelines of preventing covid-19, and therefore to successfully reopen all of the open systems after the shutdowns (lockdowns) and (or) to avoid the shutdowns (lockdowns) in future epidemics or pandemics. Significantly, we compare the prevention efficiencies of COVID-19 between people who are accustomed and not accustomed to masks based on the published WHO, CDC or NHC pandemic data. The compared results support our models in this investigation. Coronaviruses easily survive and have high toxicity, in dirty, wet and cold environments, and the air pollution is linked with higher COVID-19 death rates. The dingy environments and air-conditioning, freezing systems sufficiently provide such necessary dirty, wet and cold conditions and polluted airflows to exacerbate the mortality rate of COVID-19. Therefore, we strongly suggest: to use air conditioners as less as possible, to turn the wind levels as low as possible and to clean (disinfecting) the air-conditioning systems (filters and channels) and environments as frequent as possible.
May 2020 DOI 10.14302/issn.2692-1537.ijcv-20-3344
Identifying the epidemiological characteristics of COVID-19 disease will help to make appropriate decisions and thus control the epidemic. Although many details, such as the source of the virus and its ability to spread between people remain unknown, an increasing number of cases show the signs of human-to-human transmission. The purpose of this review is to introduce the reservoir hosts, and the possible role of distributions of bat coronaviruses in China, and eventually to aim to predict virus natural hotspots and their cross-species transmission potential. Why bats can maintain coronaviruses long-term without showing clinical symptoms of diseases and what is allowing bats to have a higher tolerance against viral diseases. We need to unveil the mystery of unique bat immunity. Although bats are not in close contact with humans, spillover of viruses from bats to intermediate animal hosts like civet is thought to be the most likely mode to cause human infection. It appears that the coffee beans which are a rich source of chlorogenic acid are acting as a reservoir host and causative agent, and at the same time as a defense agent to create resistance in the consumers (bats and animals). It is assumed that the intake of chlorogenic acid should be capable of protecting human from contamination or severe morbidity.