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Developing the Molecular Genetic Component of Microbiological Monitoring of Nosocomial Acute Enteric Viral Infections

Developing the Molecular Genetic Component of Microbiological Monitoring of Nosocomial Acute Enteric Viral Infections

Shkarin V.V., Sergeeva A.V., Poslova L.Y., Kovalishena O.V., Blagonravova A.S., Epifanova N.V., Sashina T.A., Morozova O.V., Novikova N.A.
Key words: epidemiological surveillance; nosocomial infections; acute enteric infections of viral etiology; microbiological monitoring; norovirus; rotavirus; adenovirus; astrovirus.
2017, volume 9, issue 3, page 110.

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The aim of the investigation was improving the effectiveness of microbiological monitoring through optimization and development of the molecular genetic component based on comprehensive long-term assessment of hospital-acquired acute enteric infections of viral etiology.

Materials and Methods. In the framework of epidemiological surveillance of nosocomial viral infections, syndrome-based diagnosis of acute enteric infection cases was implemented in a children’s hospital. In fact, the patients with the signs of gastrointestinal dysfunctions unrelated to the underlying disease were identified and examined. DNAs (RNAs) of acute enteric infections of viral etiology were detected and differentiated through PCR-based diagnosis. G[P]-typing of rotaviruses was performed by RT-PCR method using various primers. Genotyping of enteric viruses by sequencing method was performed determining the relevant nucleotide sequences of rotavirus, norovirus and astrovirus cDNA segments using genetic analyzer Beckman Coulter. Nucleotide sequences of cDNA segments were analyzed using BLAST programs to identify closely related strains and an online service for automatic genotyping of noroviruses. Alignment of nucleotide sequences and phylogenetic analysis were performed using MEGA software. Sequences of genome segments obtained in this study have been represented in the international GenBank database.

Results. There has been developed the molecular genetic component of microbiological monitoring of acute enteric infections of viral etiology, which involves not only diagnosing the enteric pathogens by PCR, but also subsequent genotyping as well as phylogenetic analysis to determine genetic characteristics of pathogens.

  1. Epifanova N.V., Novikova N.A., Efimov E.I., Parfenova O.V., Lukovnikova L.B., Fomina S.G. Molecular-genetic characteristic of astroviruses circulating in Nizhny Novgorod. Zhurnal mikrobiologii, epidemiologii i immunobiologii 2012; 6: 32–36.
  2. Epifanova N.V., Lukovnikova L.B., Novikova N.A., Parfenova O.V., Fomina S.G. Epidemic variants of norovirus genotype GII.4 in Nizhny Novgorod in 2006–2012. Zhurnal mikrobiologii, epidemiologii i immunobiologii 2014; 2: 64–72.
  3. Epifanova N.V., Lukovnikova L.B., Golitsinа L.N., Fomina S.G., Zverev V.V., Ponomareva N.V., Parfenova O.V., Novikov D.V., Volkova M.A., Novikova N.A. Etiological structure of viral intestinal infections in children in Nizhny Novgorod. Meditsinskiy al’manakh 2010; 2(11): 233–236.
  4. Sergeeva A.V., Poslova L.Y., Kovalishena O.V., Blagonravova A.S., Epifanova N.V., Sashina T.A., Morozova O.V., Novikova N.A. Viral etiology acute intestinal infections molecular monitoring in children’s hospital. Infektsiya i immunitet 2015; 5(3): 243–252.
  5. Kageyama T., Kojima S., Shinohara M., Uchida K., Fukushi S., Hoshino F.B., Takeda N., Katayama K. Broadly reactive and highly sensitive assay for Norwalk-like viruses based on real-time quantitative reverse transcription-PCR. J Clin Microbiol 2003; 41(4): 1548–1557, https://doi.org/10.1128/jcm.41.4.1548-1557.2003.
  6. Noel J.S., Lee T.W., Kurtz J.B., Glass R.I., Monroe S.S. Typing of human astroviruses from clinical isolates by enzyme immunoassay and nucleotide sequencing. J Clin Microbiol 1995; 33(4): 797–801.
  7. Zhirakovskaya E.V., Tikunov A.Y., Kurilshchikov A.M., Tikunova N.V., Aksanova R.K., Sokolov S.N., Netesov S.V., Gorbunova M.G. Genetic diversity of group a rotavirus isolates found in Western Siberia in 2007–2011. Molecular Genetics, Microbiology and Virology 2012; 27(4): 174–183, https://doi.org/10.3103/s0891416812040076.
  8. Zhirakovskaya E.V., Tikunov A.Yu., Kurilshchikov A.M., Demina A.V., Pokrovskaya I.V., Sheronova O.B., Pozdnyakova L.L., Netesova S.V., Tikunova N.V. The etiological structure of acute enteric infections in adults in Novosibirsk. Infektsionnye bolezni 2013; 11(2): 31–37.
  9. Novikova N.A., Epifanova N.V., Fedorova O.F. G[P]-genotipirovanie rotavirusov s ispol’zovaniem polimeraznoy tsepnoy reaktsii [G[P]-genotyping of rotaviruses using the polymerase chain reaction]. Nizhny Novgorod; 2007.
  10. Novokshonov A.A., Sokolova N.V., Sakharova A.A., Berezhkova T.V. Clinical efficacy of a new enterosorbent in the complex therapy of acute intestinal infections of viral etiology in children. Lechashchiy vrach 2009; 7: 78–81.
  11. Bull R.A., Tu E.T.V., McIver C.J., Rawlinson W.D., White P.A. Emergence of a new norovirus genotype II.4 variant associated with global outbreaks of gastroenteritis. J Clin Microbiol 2006; 44(2): 327–333, https://doi.org/10.1128/jcm.44.2.327-333.2006.
  12. De Grazia S., Platia M.A., Rotolo V., Colomba C., Martella V., Giammanco G.M. Surveillance of human astrovirus circulation in Italy 2002–2005: emergence of lineage 2c strains. Clin Microbiol Infect 2011; 17(1): 97–101, https://doi.org/10.1111/j.1469-0691.2010.03207.x.
  13. DiStefano D.J., Kraiouchkine N., Mallette L., Maliga M., Kulnis G., Keller P.M., Clark H.F., Shaw A.R. Novel rotavirus VP7 typing assay using a one-step reverse transcriptase PCR protocol and product sequencing and utility of the assay for epidemiological studies and strain characterization, including serotype subgroup analysis. J Clin Microbiol 2005; 43(12): 5876–5880, https://doi.org/10.1128/jcm.43.12.5876-5880.2005.
  14. Yunkerov V.I., Grigor’ev S.G. Matematiko-statisticheskaya obrabotka dannykh meditsinskikh issledovaniy [Mathematical and statistical processing of data for medical research]. Saint Petersburg: VMedA; 2002; 266 p.
  15. Glass R.I., Bresee J., Jiang B., Gentsch J., Ando T., Fankhauser R., Noel J., Parashar U., Rosen B., Monroe S.S. Gastroenteritis viruses: an overview. Novartis Found Symp 2001; 238: 5–25, https://doi.org/10.1002/0470846534.ch2.
  16. Kambhampati A., Koopmans M., Lopman B.A. Burden of norovirus in healthcare facilities and strategies for outbreak control. J Hosp Infect 2015; 89(4): 296–301, https://doi.org/10.1016/j.jhin.2015.01.011.
  17. Mahar J.E., Bok K., Green K.Y., Kirkwood C.D. The importance of intergenic recombination in norovirus GII.3 evolution. J Virol 2013; 87(7): 3687–3698, https://doi.org/10.1128/jvi.03056-12.
  18. Tamura K., Stecher G., Peterson D., Filipski A., Kumar S. MEGA6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 2013; 30(12): 2725–2729, https://doi.org/10.1093/molbev/mst197.
Shkarin V.V., Sergeeva A.V., Poslova L.Y., Kovalishena O.V., Blagonravova A.S., Epifanova N.V., Sashina T.A., Morozova O.V., Novikova N.A. Developing the Molecular Genetic Component of Microbiological Monitoring of Nosocomial Acute Enteric Viral Infections. Sovremennye tehnologii v medicine 2017; 9(3): 110, https://doi.org/10.17691/stm2017.9.3.15


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