Comparative Whole-Genome Analysis of Russian Foodborne Multidrug-Resistant <i>Salmonella</i> Infantis Isolates

Non-typhoidal <i>Salmonella</i> infections remain a significant public health problem worldwide. In this study, we present the first detailed genomic analysis report based on short-read (Illumina) whole-genome sequencing (WGS) of 45 multidrug-resistant (MDR) <i>Salmonella enterica&...

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Main Authors: Anna Egorova, Yulia Mikhaylova, Stepan Saenko, Marina Tyumentseva, Aleksandr Tyumentsev, Konstantin Karbyshev, Aleksey Chernyshkov, Igor Manzeniuk, Vasiliy Akimkin, Andrey Shelenkov
Format: Article
Language:English
Published: MDPI AG 2021-12-01
Series:Microorganisms
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Online Access:https://www.mdpi.com/2076-2607/10/1/89
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Summary:Non-typhoidal <i>Salmonella</i> infections remain a significant public health problem worldwide. In this study, we present the first detailed genomic analysis report based on short-read (Illumina) whole-genome sequencing (WGS) of 45 multidrug-resistant (MDR) <i>Salmonella enterica</i> subsp. <i>enterica</i> serotype Infantis isolates from poultry and meat product samples obtained in Russia during 2018–2020, and long-read (MinION) WGS of five more representative isolates. We sought to determine whether foodborne <i>S.</i> Infantis have acquired new characteristics, traits, and dynamics in MDR growth in recent years. All sequenced isolates belonged to the sequence type ST32 and more than the half of isolates was characterized by six similar antimicrobial susceptibility profiles, most of which corresponded well with the antimicrobial resistance determinants to aminoglycosides, sulphonamides, tetracycline, and chloramphenicol revealed in silico. Some of the isolates were characterized by the presence of several types of plasmids simultaneously. Plasmid typing using WGS revealed Col440I, ColpVC, ColRNAI, IncFIB, IncFII, IncX1, IncHI2, IncHI2A, and IncN replicons. The identified virulence genes for 45 whole genomes of <i>S.</i> Infantis were similar and included 129 genes encoding structural components of the cell, factors responsible for successful invasion of the host, and secreted products. These data will be a valuable contribution to further comparative genomics of <i>S.</i> Infantis circulating in Russia, as well as to epidemiological surveillance of foodborne <i>Salmonella</i> isolates and investigations of <i>Salmonella</i> outbreaks.
ISSN:2076-2607