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Vol 34, No 1 (2019)

Reviews

mRNP Transport in Eukaryots: Transport of mRNP Particles in Cytoplasm

Glukhova A.A., Nabirochkina E.N., Kopytova D.

Abstract

After synthesis and processing in the nucleus, mature mRNA penetrates through nuclear pores to cytoplasm. mRNP particles are formed in the nucleus and remodeled in cytoplasm, resulting in association with factors required for mRNP proper functions. In the cytoplasmic compartment, mRNP particles can include proteins participating in nuclear interactions, as well as new factors specific for cytoplasmic mRNA–protein interactions. Functions of newly synthesized mRNAs and their cytoplasmic localization are substantially diverse. Cytoskeletal and motor proteins were shown to participate in delivery of mRNP particles to their localization sites. Several families of motor proteins are known in eukaryotes, and functions of all of them were shown to be coordinated in order to compose machinery for cargo delivery to specific cytoplasmic destinations. Adapter proteins, mediators between mRNP particles and motor proteins, are also required to make this transport system functional. Unlike the well-studied system of the cytoskeletal and motor proteins, our knowledge of how mRNP particles bind motor proteins via adapter ones is still sparse.

Molecular Genetics, Microbiology and Virology. 2019;34(1):1-7
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Experimental Works

Three Novel Class 1 Integrons Detected in Multidrug-Resistant Pseudomonas aeruginosa Hospital Strains

Astashkin E.I., Lev A.I., Ershova O.N., Novikova T.S., Ageeva E.N., Fedyukina G.N., Svetoch E.A., Fursova N.K.

Abstract

The antibacterial resistance of healthcare-associated infection (HAI) agents is a major public health problem worldwide. Pseudomonas aeruginosa is one of the main HAI agents, especially in intensive care units (ICUs). The present study focuses on the identification of antibacterial resistance genetic determinants and on determining the structure of mobile genetic elements—novel class 1 integrons of P. aeruginosa. P. aeruginosa strains (n = 105) were collected in the Department of the Moscow Neurosurgery ICU in 2013–2016 from the respiratory system (60.0%), urine (28.6%), surgical wounds (5.7%), blood (2.9%), and cerebrospinal fluid (2.9%). The majority (92.4%) of strains were characterized by a phenotype of multidrug-resistance. Beta-lactamase genes blaVIM-2-like, which are widely distributed in Russia, were identified in 37.7% of strains. The blaCTX-M-15 gene was carried by 3.0% of strains that is the first report of such gene identification in P. aeruginosa in Russia. Class 1 integrons were detected in 63.0% of strains, with 36.7% of strains carrying seven types of gene cassette arrays: (blaVIM-2-like), (aadA6-gcuD), (aacA7-blaVIM-2-like), (aac(3 ')Ic-cmlA5), (aadA6Δ3::ISPa21e-gcuD), (gcu87-aadB-aphA15d-aadA1a), and (blaPBL-1-aacA4). The latter three gene cassette arrays are new for class 1 integrons. Identification numbers have been assigned to novel integrons: In1379, In1360, and In1375. New genetic structures were described: the aadA6 gene cassette with inserted ISPa21уe element (In1379); the gsu87 gene cassette coding hypothetical protein which is not represented in the GenBank database (In1360); novel allele of aphA15d gene cassette and the blaPBL-1 gene cassette coding new, not previously described, beta-lactamase of class A (In1375). Identification of novel genetic structures of antibacterial resistance in P. aeruginosa strains isolated in the course of 3 years indicates the activity of genetic processes associated with antibiotic resistance in hospital pathogens in the Department of Neuro-ICU, which indicates the activity of genetic processes associated with the formation of multiple drug resistance of hospital pathogens.

Molecular Genetics, Microbiology and Virology. 2019;34(1):8-15
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Class 1 and 2 Integrons in Hospital Strains of Gram-Negative Bacteria Isolated in Moscow and in Regions of the Russian Federation

Kuzina E.S., Astashkin E.I., Lev A.I., Ageeva E.N., Kartsev N.N., Svetoch E.A., Fursova N.K.

Abstract

Natural systems of cloning and expression of mobile gene cassettes caught by site-specific recombination, class 1 and 2 integrons, play an important role in mobilization and spread of genetic determinants of antibiotic resistance in gram-negative bacterial human pathogens, especially in a hospital environment. The gene cassettes localized in variable parts of integrons determine resistance to antibacterial drugs (AD) of different functional classes. The aim of the work is the detection and characteristic of class 1 and 2 integrons in gram-negative bacteria isolated in multidisciplinary hospitals of Moscow and other regions of the Russian Federation in 2003–2015. Clinical strains of gram-negative bacteria (n = 1248) mainly had multidrug resistance phenotype (94%). An amount of 10% of strains were resistant to AD of three functional groups; 19%, four; 42%, five; 17%, six; and 7%, seven. A high level of resistance of the studied strains to beta-lactams is associated with the presence of beta-lactamase genes of blaTEM (35% strains), blaSHV (25%), blaCTX-M (38%), blaOXA (31%), blaVIM (3%), and blaNDM (2%) types; to AD of other functional groups, with the presence of class 1 integrons (59%) and class 2 integrons (8%). Most class 1 integrons (54%) and class 2 integrons (88%) contained in its variable part 22 variants of gene cassette arrays in class 1 integrons and 4 variants in class 2 integrons. During the study, 31 types of gene cassettes were identified (including the most widespread, aadB, aacA4, aacC1, aadA1, aadA2, aadA5, blaVIM-2, dfrA1, dfrA7, dfrA12, orfC, orfE, orfY, and sat1) associated with the resistance of strains to aminoglycosides, chloramphenicol, sulfonamides, and beta-lactams, as well as orf cassettes encoding the proteins with unknown functions. New gene cassette arrays were identified: dfrA12s-orfF-aadA2 (In1249) and dfrA1-IS911-sat1-aadA1 (not numbered).

Molecular Genetics, Microbiology and Virology. 2019;34(1):16-24
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Generation of a Vaccine against Group B Streptococcal Infection on the Basis of a Cold-Adapted Influenza A Virus

Smolonogina T.A., Isakova-Sivak I.N., Kotomina T.S., Evsina A.S., Stepanova E.A., Prokopenko P.I., Leontieva G.F., Suvorov A.N., Rudenko L.G.

Abstract

The aim of this study was to develop a cold-adapted influenza A (H7N9) strain-based vector vaccine expressing epitopes of conserved lipoprotein of Streptococcus agalactiae. Recombinant hemagglutinin (HA) genes of live attenuated influenza vaccine (LAIV) strain A/Anhui/1/2013(H7N9) with insertions of group B Streptococcus (GBS) surface antigen ScaAB gene parts of different length in-frame between signal peptide and HA1 were constructed by means of reverse genetics. Viral vector vaccine H7-ScaAB-85 expressing the shortest (85 amino acids) polypeptide from lipoprotein ScaAB linked to HA via a flexible linker was genetically stable, replicated in embryonated chicken eggs and MDCK cells at the same level as cold-adapted influenza A (H7N9) strain. An increase of ScaAB polypeptide insertion length up to 141 amino acids resulted in a decrease of the viral replication level in both susceptible systems and intense mutagenesis of hybrid HA-gene of recombinant influenza A virus in the gene region encoding foreign bacterial lipoprotein. These findings suggest that H7-ScaAB-85 is a promising vaccine candidate, which should be further assessed using a mouse model.

Molecular Genetics, Microbiology and Virology. 2019;34(1):25-34
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The Fast-Growing Strain of Hepatitis A Virus MB-7/293 (HepA-293) Adapted to HEK293 Cell Culture: Properties of Virus Production and Analysis of Genomic RNA

Bondarenko T.Y., Ternovoi V.A., Svyatchenko V.A., Kiselev N.N., Shvalov A.N., Kusliy E.V., Netesov S.V.

Abstract

Hepatitis A virus (HAV) continues to cause outbreaks of viral hepatitis, which remains a socially significant disease despite existing vaccines. During the production of vaccines, HAV strains that require prolonged incubation of infected cell cultures, up to 4 weeks, are used. Several HAV strains, which are fast-growing on cell cultures, up to 7–10 days, are known. This paper presents the results of virological characterization and analysis of the genome of the HAV strain MB-7/293 (HepA-293) derived from MB-7/4647, one of the fast-growing strains, which was obtained by adapting it to HEK293 cell culture (human embryonic kidney cells). It was shown that the MB-7/293 strain significantly exceeds the parent MB-7/4647 strain in productivity when cultured on HEK293 cell culture, i.e., in the yield of the infectious virus and the virus-specific antigen. Analysis of the nucleotide sequence of full-length genomic RNA of the MB-7/293 strain showed that it differs from the genome sequence of MB-7/4647 in three nucleotide substitutions in the 5'-untranslated region and 20 nucleotide substitutions in the coding region, which lead to substitutions of ten amino acid residues in the proteins VP3, VP1, 2B and 2C. Comparative analysis of the genomic sequences of the strains MB-7/293, MB-7/4647, and other HAV strains, including the previously described fast-growing strains, allowed to reveal mutations that affect the reproductive properties of the virus.

Molecular Genetics, Microbiology and Virology. 2019;34(1):35-41
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Analysis of the African Swine Fever Virus Immunomodulatory Proteins

Nefedeva M.V., Titov I.A., Mima K.A., Malogolovkin A.S.

Abstract

Molecular epidemiology of viral infections traditionally based on the analysis of changes in individual genes or genetic markers. The analysis of the African swine fever virus (ASFV) genes encoding immunomodulatory proteins is an important tool for studying the diversity and evolution of the virus. In this work, we carried out a structural and phylogenetic analysis of the ASF virus immunomodulatory proteins 5EL (A238L gene), I14L (Dp71L gene), K11L (I329L gene). The degree of nucleotide substitutions of the ASFV concatenated genes A238L, I329L and Dp71L revealed purifying (stabilizing) selection at the nucleotide sequences level. The variability characteristic of the selected group of ASFV genes is of great interest for the genetic differences search in immunomodulatory proteins. The sequencing results of the A238L, I329L and Dp71L genes and their phylogenetic analysis showed that these genes are conservative among a large group of ASFV genes. The I329L gene is a genetic marker of common origin. The East African strains (Genotype X) of Dp71L gene have two forms: a long (184 amino acids) and a short (from 70 to 72 amino acids) and is formed by fusion of the 13L and 14L. All ASF virus Russian isolates isolated in 2016–2017 were identical to the reference strain ASFV/Georgia/wb/2007. Characterization of variability 5EL protein, I14L, K11L may be serve to identify target sites in the ASFV genome and to develop vaccines. The obtained data allow to evaluate the genetic diversity of the ASFV immunomodulatory proteins and the dynamics of their evolution, to predict the possible participation of the A238L, I329L and Dp71L genes in the virulence of various ASFV strains.

Molecular Genetics, Microbiology and Virology. 2019;34(1):42-49
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Developing a New Method for Pathotyping of Newcastle Disease Virus Based on Sialidase Protein

Mayahi V., Esmaelizad M., Harzandi N.

Abstract

Newcastle disease virus (NDV) is considered as a deadly infection to majority of the avian species. One of the key factors responsible for virus pathogenesis is sialidase protein expressed by hemagglutinin-neuraminidase gene on the envelope of virus particles, which involves in virus attachment to cells. In this study we compared restriction map of hemagglutinin-neuraminidase gene encoding sialidase protein among Lentogenic strains and Velogenic isolates obtained in Iran, and a variety of virus genotypes (I–VII) retrieved from GenBank. A polymorphic region with 527 bp length was found in the mentioned gene. Reverse transcription-Polymerase chain reaction was done for Iranian Velogenic isolates and vaccine strains (B1, La Sota and V4). The Pattern of four restriction endonuclease enzymes (AluI, AvaIl, HaeIII and TaqI) was analyzed by Polymerase chain reaction-Restriction fragment length polymorphism technique. There were significant differences among Iranian Velogenic isolates and vaccine strains. The experimental results of the mentioned method were in concordance with in silico evaluations of restriction map of 146 strains including: class I and class II genotypes obtained from the National Center for Biotechnology Information (NCBI). Therefore, we suggest that this method might be useful for pathotyping and differentiation of class I and II Newcastle disease virus.

Molecular Genetics, Microbiology and Virology. 2019;34(1):50-58
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Evaluation of Anti-Toxoplasma gondii Immune Responses in BALB/c Mice Induced by DNA Vaccines Encoding Surface Antigen 1 (SAG1) and 3 (SAG3)

Sobati H., Dalimi A., Kazemi B., Ghaffarifar F.

Abstract

DNA vaccine cocktail construction is one of the most important strategies for the development of new generation multiantigenic vaccine against toxoplasmosis. In the present study DNA cocktail vaccines containing SAG1 and SAG3 (from a native Iranian parasite, AN: JF312642) genes were constructed and their immune response and protective efficacy was evaluated in comparison with control groups in BALB/c mice. For this purpose, the plasmids containing complete SAG3, SAG1 genes were constructed and then the recombinant plasmids were administered via intramuscular injections according to immunized mice three times with three-week intervals. Both alum and MMT (3-[4,5-dimethylthiazol-2-yl]-2,5 diphenyl tetrazolium bromide) were used as an adjuvant to enhance the immune response. Both humeral and cellular immune response of the mice groups were evaluation. Finally, the mice in immunized and non-immunized groups were inoculated by the parasite and the mortality of the mice was evaluated on a daily basis. In cytokine assay, the INFγ were found higher in the mice that received the cocktail DNA containing recombinant plasmids. Evaluation of proliferation of splenocytes using the Alum and nano adjuvant MMT assay indicated induction of cellular response. Measurement of total IgG and the isotypes of IgG1 and IgG2a showed that the cocktail DNA stimulated IgG and IgG2a production in comparison with the control groups (P < 0.05). Furthermore, the survival rate of mice in the groups that received the cocktail DNA was significantly higher than that in the control groups (P < 0.05). Accordingly, administration of the cocktail DNA vaccine led to production of higher levels of IFNγ, confirmed by secretion of IgG2a, and the immune response was shifted toward Th1. Thus, the cocktail DNA containing the recombinant plasmids can be an appropriate candidate for immunization against toxoplasmosis.

Molecular Genetics, Microbiology and Virology. 2019;34(1):59-66
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