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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MDPI AG
2021-12-01
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| Series: | Microorganisms |
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| Online Access: | https://www.mdpi.com/2076-2607/10/1/89 |
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| author | Anna Egorova Yulia Mikhaylova Stepan Saenko Marina Tyumentseva Aleksandr Tyumentsev Konstantin Karbyshev Aleksey Chernyshkov Igor Manzeniuk Vasiliy Akimkin Andrey Shelenkov |
| author_facet | Anna Egorova Yulia Mikhaylova Stepan Saenko Marina Tyumentseva Aleksandr Tyumentsev Konstantin Karbyshev Aleksey Chernyshkov Igor Manzeniuk Vasiliy Akimkin Andrey Shelenkov |
| author_sort | Anna Egorova |
| collection | DOAJ |
| description | 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. |
| first_indexed | 2024-03-10T00:54:02Z |
| format | Article |
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| institution | Directory Open Access Journal |
| issn | 2076-2607 |
| language | English |
| last_indexed | 2024-03-10T00:54:02Z |
| publishDate | 2021-12-01 |
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| record_format | Article |
| series | Microorganisms |
| spelling | doaj.art-a0522ce12d35489198e1592e7e31b86f2023-11-23T14:47:09ZengMDPI AGMicroorganisms2076-26072021-12-011018910.3390/microorganisms10010089Comparative Whole-Genome Analysis of Russian Foodborne Multidrug-Resistant <i>Salmonella</i> Infantis IsolatesAnna Egorova0Yulia Mikhaylova1Stepan Saenko2Marina Tyumentseva3Aleksandr Tyumentsev4Konstantin Karbyshev5Aleksey Chernyshkov6Igor Manzeniuk7Vasiliy Akimkin8Andrey Shelenkov9Central Research Institute of Epidemiology, Novogireevskaya str., 3a, 111123 Moscow, RussiaCentral Research Institute of Epidemiology, Novogireevskaya str., 3a, 111123 Moscow, RussiaCentral Research Institute of Epidemiology, Novogireevskaya str., 3a, 111123 Moscow, RussiaCentral Research Institute of Epidemiology, Novogireevskaya str., 3a, 111123 Moscow, RussiaCentral Research Institute of Epidemiology, Novogireevskaya str., 3a, 111123 Moscow, RussiaCentral Research Institute of Epidemiology, Novogireevskaya str., 3a, 111123 Moscow, RussiaCentral Research Institute of Epidemiology, Novogireevskaya str., 3a, 111123 Moscow, RussiaCentral Research Institute of Epidemiology, Novogireevskaya str., 3a, 111123 Moscow, RussiaCentral Research Institute of Epidemiology, Novogireevskaya str., 3a, 111123 Moscow, RussiaCentral Research Institute of Epidemiology, Novogireevskaya str., 3a, 111123 Moscow, RussiaNon-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.https://www.mdpi.com/2076-2607/10/1/89<i>Salmonella</i> Infantisantibiotic resistancewhole-genome sequencinggenomic epidemiology |
| spellingShingle | Anna Egorova Yulia Mikhaylova Stepan Saenko Marina Tyumentseva Aleksandr Tyumentsev Konstantin Karbyshev Aleksey Chernyshkov Igor Manzeniuk Vasiliy Akimkin Andrey Shelenkov Comparative Whole-Genome Analysis of Russian Foodborne Multidrug-Resistant <i>Salmonella</i> Infantis Isolates Microorganisms <i>Salmonella</i> Infantis antibiotic resistance whole-genome sequencing genomic epidemiology |
| title | Comparative Whole-Genome Analysis of Russian Foodborne Multidrug-Resistant <i>Salmonella</i> Infantis Isolates |
| title_full | Comparative Whole-Genome Analysis of Russian Foodborne Multidrug-Resistant <i>Salmonella</i> Infantis Isolates |
| title_fullStr | Comparative Whole-Genome Analysis of Russian Foodborne Multidrug-Resistant <i>Salmonella</i> Infantis Isolates |
| title_full_unstemmed | Comparative Whole-Genome Analysis of Russian Foodborne Multidrug-Resistant <i>Salmonella</i> Infantis Isolates |
| title_short | Comparative Whole-Genome Analysis of Russian Foodborne Multidrug-Resistant <i>Salmonella</i> Infantis Isolates |
| title_sort | comparative whole genome analysis of russian foodborne multidrug resistant i salmonella i infantis isolates |
| topic | <i>Salmonella</i> Infantis antibiotic resistance whole-genome sequencing genomic epidemiology |
| url | https://www.mdpi.com/2076-2607/10/1/89 |
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