The phylogenomic analysis of Salmonella enterica subsp. enterica serovar Enteritidis isolates associated with sporadic and group morbidity in Russia


DOI: https://dx.doi.org/10.18565/epidem.2023.13.2.76-82

Kuleshov K.V., Pavlova A.S., Egorova A.E., Guseva A.N., Krutova N.E., Akulova N.K., Bikmetova K.R., Parkina N.V., Mikhailova Yu.V., Veselova O.A., Podkolzin A.T., Akimkin V.G.

Central Research Institute of Epidemiology, Russian Federal Service for Supervision of Consumer Rights Protection and Human Well-Being, Moscow, Russia
Objective. To assess the genetic diversity of Salmonella enterica subsp. enterica serovar Enteritidis isolates circulating in Russia, which were obtained in cases of group and sporadic morbidity, using genome-wide sequencing data.
Subjects and methods. Genome-wide sequencing and a phylogenetic analysis of 460 S. enteritidis isolates obtained during the work of the Reference Center for Monitoring Salmonellosis were carried out.
Results. The findings made it possible to describe the population structure of Russian S. Enteritidis isolates and to understand their phylogenetic position in the context of global pathogen diversity, to assess the concordance of epidemiological data with genetic clustering data and to show the spatial and temporal features of clustering the isolates belonging to epidemiologically unrelated cases of group morbidity.
Conclusion. The results of the study create prerequisites for the formation of a unified national laboratory and information system for monitoring S. enteritidis and investigating the epidemic foci of group morbidity with salmonellosis.
Keywords: genomic sequencing, genetic subtyping, Salmonella Enteritidis, salmonellosis
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About the Autors

Konstantin V. Kuleshov, Cand. Biol. Sci., Senior Researcher, Laboratory of Molecular Diagnostics and Epidemiology of Intestinal Infections, Central Research Institute of Epidemiology, Russian Federal Service for Supervision of Consumer Rights Protection and Human Well-Being, Moscow, Russia; konstantinkul@gmail.com; https://orcid.org/0000-0002-5238-7900
Anastasia S. Pavlova, Junior Researcher, Laboratory of Molecular Diagnostics and Epidemiology of Intestinal Infections, Central Research Institute of Epidemiology, Russian Federal Service for Supervision of Consumer Rights Protection and Human Well-Being, Moscow, Russia; nasty-pavlov@yandex.ru; http://orcid.org/0000-0003-4619-9337
Anna E. Egorova, Researcher, Laboratory for the Molecular Mechanisms of Antibiotic Resistance, Central Research Institute of Epidemiology, Russian Federal Service for Supervision of Consumer Rights Protection and Human Well-Being, Moscow, Russia; bioanna1995@gmail.com; https://orcid.org/0000-0003-0486-1353
Anna N. Guseva, Junior Researcher, Laboratory of Molecular Diagnostics and Epidemiology of Intestinal Infections, Central Research Institute of Epidemiology, Russian Federal Service for Supervision of Consumer Rights Protection and Human Well-Being, Moscow, Russia; anguseva@cmd.su; https://orcid.org/0000-0001-7028-0253
Natalia E. Krutova, Junior Researcher, Laboratory of Molecular Diagnostics and Epidemiology of Intestinal Infections, Central Research Institute of Epidemiology, Russian Federal Service for Supervision of Consumer Rights Protection and Human Well-Being, Moscow, Russia; nkrutova@cmd.su; https://orcid.org/0000-0003-2925-5376
Nadezhda K. Akulova, Senior Researcher, Laboratory of Molecular Diagnostics and Epidemiology of Intestinal Infections, Central Research Institute of Epidemiology, Russian Federal Service for Supervision of Consumer Rights Protection and Human Well-Being, Moscow, Russia; akulova.n@gmail.com; http://orcid.org/0000-0003-0208-7165
Kristina R. Bikmetova, Junior Researcher, Laboratory of Molecular Diagnostics and Epidemiology of Intestinal Infections, Central Research Institute of Epidemiology, Russian Federal Service for Supervision of Consumer Rights Protection and Human Well-Being, Moscow, Russia; c.bicmetowa@yandex.ru; http://orcid.org/0000-0003-3368-7833
Natalia V. Parkina, Researcher, Laboratory of Molecular Diagnostics and Epidemiology of Intestinal Infections, Central Research Institute of Epidemiology, Russian Federal Service for Supervision of Consumer Rights Protection and Human Well-Being, Moscow, Russia; parkina@cmd.su; http://orcid.org/0000-0003-3948-1385
Yulia V. Mikhaylova, Head of Laboratory of Molecular Mechanisms of Antibiotic Resistance, Central Research Institute of Epidemiology, Russian Federal Service for Supervision of Consumer Rights Protection and Human Well-Being, Moscow, Russia; mihailova@cmd.su; http://orcid.org/0000-0002-5646-538X
Olga A. Veselova, Researcher, Laboratory of Molecular Diagnostics and Epidemiology of Intestinal Infections, Central Research Institute of Epidemiology, Russian Federal Service for Supervision of Consumer Rights Protection and Human Well-Being, Moscow, Russia; sapienscri@gmail.com; http://orcid.org/0000-0002-5041-4370
Alexandr T. Podkolzin, MD, Deputy Director in Epidemiology, Central Research Institute of Epidemiology, Russian Federal Service for Supervision of Consumer Rights Protection and Human Well-Being, Moscow, Russia; apodkolzin@pcr.ru; https://orcid.org/0000-0002-0044-3341
Professor Vasiliy G. Akimkin, Academician of the Russian Academy of Sciences; MD, Director, Central Research Institute of Epidemiology, Russian Federal Service for Supervision of Consumer Rights Protection and Human Well-Being, Moscow, Russia; vgakimkin@yandex.ru; https://orcid.org/0000-0003-4228-9044


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