In Vitro Antiviral Activity of a New Indol-3-carboxylic Acid Derivative Against SARS-CoV-2.

The coronavirus disease (COVID-19) pandemic has brought into sharp relief the threat posed by coronaviruses and laid the foundation for a fundamental analysis of this viral family, as well as a search for effective anti-COVID drugs. Work is underway to update existent vaccines against COVID-19, and screening for low-molecular-weight anti-COVID drug candidates for outpatient medicine continues. The opportunities and ways to accelerate the development of antiviral drugs against other pathogens are being discussed in the context of preparing for the next pandemic. In 2012-2015, Tsyshkova et al. synthesized a group of water-soluble low-molecular-weight compounds exhibiting an antiviral activity, whose chemical structure was similar to that of arbidol. Among those, there were a number of water-soluble compounds based on 5-methoxyindole-3-carboxylic acid aminoalkyl esters. Only one member of this rather extensive group of compounds, dihydrochloride of 6-bromo-5-methoxy-1-methyl-2-(1-piperidinomethyl)-3-(2-diethylaminoethoxy) carbonylindole, exhibited a reliable antiviral effect against SARS-CoV-2 in vitro. At a concentration of 52.0 µM, this compound completely inhibited the replication of the SARS-CoV-2 virus with an infectious activity of 106 TCID50/mL. The concentration curves of the analyzed compound indicate the specificity of its action. Interferon-inducing activity, as well as suppression of syncytium formation induced by the spike protein (S-glycoprotein) of SARS-CoV-2 by 89%, were also revealed. In view of its synthetic accessibility - high activity (IC50 = 1.06 µg/mL) and high selectivity index (SI = 78.6) - this compound appears to meets the requirements for the development of antiviral drugs for COVID-19 prevention and treatment.

Agent-Based Simulation of the COVID-19 Epidemic in Russia.

The COVID-19 pandemic has created a public health emergency in Russia and across the world. The wavelike spread of the new coronavirus infection, caused by newly emerging variants of the coronavirus, has led to a high incidence rate in all subjects of the Russian Federation. It is becoming extremely topical to get the opportunity to manage the development of the epidemic and assess the impact of certain regulatory measures on this process. This will help government agencies make informed decisions to control the burden on healthcare organizations. It is often impossible to obtain such assessments without using modern mathematical models.

The Differential Anti-HIV Effect of a New Humic Substance-Derived Preparation in Diverse Cells of the Immune System.

The anti-HIV activity of a new humic substance-derived preparation has been studied in individual pools of immune cells (CD4+ T lymphocytes, macrophages, dendritic cells). Near-complete inhibition of the HIV infection (by more than 90%) was achieved by treating each of the abovementioned cell types with non-toxic concentrations of the preparation. The inhibitory effect demonstrates the possibility of preventing the depletion of a significant portion of functionally important immune cells. A comparative study of infection inhibition in individual cell pools has allowed us to reveal the differences in the preparation's effectiveness in each of the cell populations. A R5-tropic HIV-1 infection in macrophages exhibited maximum sensitivity to the preparation: 90% and 50% inhibition of the infection were observed in the presence of concentrations as low as 1.4 and 0.35 µg/ml, respectively. A 15- and 19-fold higher concentration was required to achieve the same extent of inhibition in dendritic cells infected with the same strain. The effectiveness of the drug in CD4 + T lymphocytes is quite comparable to its effectiveness in macrophages. The drug is universally effective for both the T- and M-tropic variants of HIV-1.

[Rapid spread of the HIV-1 circular recombinant CRF02-AG in Russia and neighboring countries].

The spread of the HIV-1circular recombinant CRF02-AG in countries of the former Soviet union (Commonwealth of Independent States, CIS) was studies using partial and full genome sequences. The full-genome sequence of the CRF02-AG recombinant circulating in Russia was obtained for the first time. A Global phylogenetic tree of CRF02-AG full-genome sequences was constructed. Three distinct groups of the sequences were detected as clustered by the geographical location (CIS, South Korea, and France), which is indicative of the single-virus introduction in each of the regions mentioned above. The CIS cluster exhibiting minimum genetic diversity was, therefore, relatively young. The phylogenetic analysis of the env gene sequences within the CIS cluster made it possible to clearly discriminate three branches: two of Russian and one of Uzbek origin. The low genetic diversity within the two Russian subclusters provides evidence of at least two recent independent introductions of the CRF02-AG recombinant from Central Asia into Russia. This work was performed within the framework of the 7th Federal Research Program (FP&), Project EURIPRED (European Research Infrastructures for Poverty Related Diseases), grant agreement No.312661.

[Molecular epidemiology of HIV-1 strains in the Moscow Region].

The Moscow Region is one of the HIV-1-affected subjects of the Russian Federation; there were 34613 HIV-1-infected subjects as of October 31, 2009. To characterize the molecular epidemiology of HIV-1 in the Moscow Region, the investigators obtained and studied HIV-1 variants from 61 infected subjects of the region, who were major risk groups: intravenous drug users (IDUs) and hetero- and homosexually infected persons. Genetic analysis of HIV-1 variants was carried out by sequencing the gag genes (729 nucleotides in length, including full-length protein p17 and partial p24) andlor env (270 nucleotides in length, V3 region) with further phylogenetic analysis. The findings demonstrated that HIV-1 subtype A variants are dominant in the Moscow Region and detectable in 93.5% of IDUs and 100% of heterosexually infected persons. Phylogenetically (and accordingly epidemiologically) unrelated HIV-1 subtype B strains were revealed in 4 patients, including 2 IDUs.

[The molecular epidemiology of HIV-1 in Belarus in (1996-2004): a predominance of subtype A variants and circulation of subtype B variants].

To study the molecular epidemiology of HIV-1 in Belarus, the genetic sequences of HIV-1 variants were obtained from 50 infected persons, which represented the main stages, risk groups, and geographic areas of the epidemic. The env and gag sequences were studied for HIV-1 variants from 31 persons, the env sequences were for HIV-1 variants from 18 persons, and the gag sequence was for HIV-1 variant from 1 person. Phylogenetic analysis indicated that the sequences of HIV-1 variants from 46 persons were homogenic and evolutionally closely related to IDU-A strains specific for other epidemics in the former Soviet Union are dominating in the epidemic in Belarus. Circulation of epidemiologically unrelated subtype B viruses was also established.

[Serotypical profile of HIV infection in Moscow]. / Serotipicheskii profil' VICh-infektsii v Moskve.

A total of 310 sera from HIV-1 infected patients detected in Moscow were serologically typed using 10 V3-imitating synthetic peptides. Subtype B virus is the most prevalent in Moscow (66.7%), serotype A/C ranks second (21.3%).

[Increase in the serotypical heterogeneity in HIV-1 in Svetlogorsk focus 1 year after the start of an epidemic]. / Narastanie serotipicheskoi geterogennosti VICh-1 v svetlogorskom ochage cherez 1 god posle nachala épidemii.

Serotypical heterogeneity of HIV-1 variants in the Svetiogorsk focus of HIV-1 epidemic (Gomel region, Belarus) increased in the cohort of intravenous drug addicts in comparison with the situation one year before. A more complex serotypical profile of the epidemic can reflect the routes of virus transmission.

Dehydrogenase activity of infected cells and biological properties of HIV-1 variants.

Changes in dehydrogenase activity of some continuous cell lines were studied during the response to acute infection in vitro with HIV-1 variants having different biological features. Soon after infection, the dehydrogenase activity of infected cells increased, and this increase was greater and more prolonged with the HIV-1 r/h variant than with the HIV-1 s/l variant. Later stages showed decreased dehydrogenase activity of HIV-1-infected cells compared to the noninfected control; this is a manifestation of the cytodestructive effect of the virus. The changes increased monotonously (but not in direct proportion) with an increase in the infecting dose.

[The molecular epidemiological characteristics of the HIV-1 variants circulating among injection drug addicts on the territory of the CIS Nations]. / Molekuliarno-épidemiologicheskie osobennosti variantov VICh-1, tsirkuliruiushchikh sredi shpritsevykh narkomanov na territorii SNG.

Different strains of HIV-1, circulating among drug addicts introducing drugs intravenously and detected on the territories of Russia, Ukraine and Belarus, have been characterized by the methods of the comparative analysis of genetic sequences of different variants of HIV (gene typing) and the study of the immunological properties of autoimmune sera (serotyping).

[Serological properties of HIV-1 isolates from the focus of an epidemic in the Gomel region of the Belarus Republic (1996)]. / Serologicheskie svoistva izoliatov VICh-1 iz ochaga épidemii v Gomel'skoi oblasti Respubliki Belarus' (1996 g.).

Immunoreactivity of sera obtained in 1996 from HIV-1-infected intravenous narcomaniacs from an epidemic focus in Gomel region, Belarus, is studied with a panel of 10-16-component synthetic peptides simulating apical epitope of surface glycoprotein gp120 V3 loop of HIV-1 variants. Comparative analysis of resultant spectra with representative immunoreactivity spectra of sera from a sampling of HIV-1-positive sera collected in 1986-1997 in different regions of the former USSR demonstrated a high homogeneity of immunoreactivity spectra of sera from Gomel region. Serotypes of HIV-1 A/C variants circulating in populations of intravenous narcomaniacs in the focus in Gomel region in 1996 and in Southern and South-Eastern Ukraine in 1995-1996 are similar. This confirms a previous conclusion about the prevalence of A/C serotype among intravenous narcomaniacs in the former USSR.

[Serotypical stratification of HIV-1 in populations of intravenous drug users in the south/southwestern Ukraine]. / Serotipicheskaia stratifikatsiia VICh-1 v populiatsii vnutrivennykh narkomanov na iuge/iogo-vostoke Ukrainy.

A total of 101 HIV-1 positive sera from intravenous drug users (IVDU) in Southern and South-Eastern Ukraine were serotyped using V3-mimicking peptides. Serotype B circulates in Nikolaev and type A/C in Odessa and Donetsk. Prevalence of A/C serotype in the population of IVDU is a characteristic feature of the epidemic situation in this region, in contrast to the USA and Western Europe, where subtype B circulates. Serotypical stratification indicates that routes of HIV-1 dissemination in the Ukraine differ from those in the USA and Western Europe, which should be borne in mind when planning the strategy of epidemic control.

[A replaceable nonfrictional membrane filter for the prevention of cell culture contamination]. / Smennyi nefriktsionnyi membrannyi fil'tr dlia predotvrashcheniia kontaminatsii keltiochnykh kul'tur.

A changeable membrane filter preventing the friction between moving parts and the membrane during tight screwing of a culture flask is proposed.

Dependencies of substitution steps number on Hamming distance are identical for one-parameter discrete models of both direct and parallel genetic diversity.

With the help of previously introduced enumeration procedure (M.Yu. Shchelkanov, A.N. Yudin, A.V Antonov, N.S. Starikov, A.A. Vedenov, E.V. Karamov, J. Biomol. Struct. Dyn. 15, 217-229 (1997)) and probability distribution function for the enumeration after some substitution steps (M.Yu. Shchelkanov, L.A. Soinov, V.V. Zalunin, D.A. Gumennyi, A.N. Yudin, A.A. Natan, V.B. Kireev, E.V. Karamov, J. Biomol. Struct. Dyn. 15, N 4, (1998)) we have demonstrated that dependencies of replication acts number on Hamming distance are identical for one-parameter discrete models of both direct and parallel genetic diversity.

[Analysis of the biological characteristics of primary HIV-1 isolates using the main components method]. / Analiz biologicheskikh kharakteristik pervichnykh izoliatov VICh-1 s pomoshch'iu metoda glavnykh komponent.

The principal component method is verified for analysis of categorized biological characteristics of HIV-1 variants. Thirty wild isolates of HIV-1 are studied. The method notably facilitated comparative analysis of a large scope of experimental data. Using this method, it is possible to detect a relationship between the biological characteristics and results of other taxonomic schemes, to distinguish the factors restricting the biological signs, to single out the most informative signs for describing a given set of isolates, and to define the criteria for comparing the properties of two sets of virus isolates and selecting the isolates notably differing from each other for more thorough phenotyping.

Variability analysis of HIV-1 gp120 V3 region: IV. Distribution functions for intra- and inter-subtype amino acid hamming distances.

Distribution functions for intra- and inter- HIV-1 V3-loop subtypes amino acid Hamming distances were calculated (850 V3-loop sequences from the Los Alamos HIV-1 Database (1996) were used). These functions have pronounced bell-like shape. Such shapes of the histograms for HIV-1 V3 intra- and inter-subtype distriutions are discussed to confirm the applicability of different hierarchical cluster procedures for HIV-1 V3 classification. Two-mode distribution for the subtype E could sertificate that this subtype includes two thinner taxons.