Genomic Characterization of Clinical <i>Acinetobacter baumannii</i> Isolates Obtained from COVID-19 Patients in Russia
The coronavirus disease 2019 (COVID-19) pandemic has already affected all realms of public healthcare and, in particular, has led to increasing use of various antibiotics to treat possible bacterial coinfections even in cases for which such infections were not confirmed clinically. This could lead t...
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MDPI AG
2022-03-01
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| Series: | Antibiotics |
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| Online Access: | https://www.mdpi.com/2079-6382/11/3/346 |
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| author | Andrey Shelenkov Yulia Mikhaylova Lyudmila Petrova Irina Gaidukova Mikhail Zamyatin Vasiliy Akimkin |
| author_facet | Andrey Shelenkov Yulia Mikhaylova Lyudmila Petrova Irina Gaidukova Mikhail Zamyatin Vasiliy Akimkin |
| author_sort | Andrey Shelenkov |
| collection | DOAJ |
| description | The coronavirus disease 2019 (COVID-19) pandemic has already affected all realms of public healthcare and, in particular, has led to increasing use of various antibiotics to treat possible bacterial coinfections even in cases for which such infections were not confirmed clinically. This could lead to an increase in the fraction and severity of multidrug-resistant bacterial isolates in healthcare facilities, especially in intensive care units (ICU). However, detailed epidemiological investigations, possibly including whole genome sequencing (WGS), are required to confirm the increase in antibiotic resistance and changes, if any, in the population and clonal structures of bacterial pathogens. In this study, we performed a comprehensive genomic and phenotypic characterization of selected multidrug-resistant <i>A. baumannii</i> isolates obtained from the patients of a dedicated COVID-19 ICU in Moscow, Russia. Hybrid short- and long-read sequencing allowed us to obtain complete profiles of genomic antimicrobial resistance and virulence determinants, as well as to reveal the plasmid structure. We demonstrated the genomic similarity in terms of cgMLST profiles of the isolates studied with a clone previously identified in the same facility. We believe that the data provided will contribute to better understanding the changes imposed by the COVID-19 pandemic on the population structure and the antimicrobial resistance of bacterial pathogens in healthcare facilities. |
| first_indexed | 2024-03-09T20:12:21Z |
| format | Article |
| id | doaj.art-1af07fc0b9c941d3b1a0f1990af9182d |
| institution | Directory Open Access Journal |
| issn | 2079-6382 |
| language | English |
| last_indexed | 2024-03-09T20:12:21Z |
| publishDate | 2022-03-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Antibiotics |
| spelling | doaj.art-1af07fc0b9c941d3b1a0f1990af9182d2023-11-24T00:11:02ZengMDPI AGAntibiotics2079-63822022-03-0111334610.3390/antibiotics11030346Genomic Characterization of Clinical <i>Acinetobacter baumannii</i> Isolates Obtained from COVID-19 Patients in RussiaAndrey Shelenkov0Yulia Mikhaylova1Lyudmila Petrova2Irina Gaidukova3Mikhail Zamyatin4Vasiliy Akimkin5Central Research Institute of Epidemiology, Novogireevskaya Str., 3a, 111123 Moscow, RussiaCentral Research Institute of Epidemiology, Novogireevskaya Str., 3a, 111123 Moscow, RussiaNational Medical and Surgical Center named after N.I. Pirogov, Nizhnyaya Pervomayskaya Str., 70, 105203 Moscow, RussiaNational Medical and Surgical Center named after N.I. Pirogov, Nizhnyaya Pervomayskaya Str., 70, 105203 Moscow, RussiaNational Medical and Surgical Center named after N.I. Pirogov, Nizhnyaya Pervomayskaya Str., 70, 105203 Moscow, RussiaCentral Research Institute of Epidemiology, Novogireevskaya Str., 3a, 111123 Moscow, RussiaThe coronavirus disease 2019 (COVID-19) pandemic has already affected all realms of public healthcare and, in particular, has led to increasing use of various antibiotics to treat possible bacterial coinfections even in cases for which such infections were not confirmed clinically. This could lead to an increase in the fraction and severity of multidrug-resistant bacterial isolates in healthcare facilities, especially in intensive care units (ICU). However, detailed epidemiological investigations, possibly including whole genome sequencing (WGS), are required to confirm the increase in antibiotic resistance and changes, if any, in the population and clonal structures of bacterial pathogens. In this study, we performed a comprehensive genomic and phenotypic characterization of selected multidrug-resistant <i>A. baumannii</i> isolates obtained from the patients of a dedicated COVID-19 ICU in Moscow, Russia. Hybrid short- and long-read sequencing allowed us to obtain complete profiles of genomic antimicrobial resistance and virulence determinants, as well as to reveal the plasmid structure. We demonstrated the genomic similarity in terms of cgMLST profiles of the isolates studied with a clone previously identified in the same facility. We believe that the data provided will contribute to better understanding the changes imposed by the COVID-19 pandemic on the population structure and the antimicrobial resistance of bacterial pathogens in healthcare facilities.https://www.mdpi.com/2079-6382/11/3/346<i>Acinetobacter baumannii</i>genomic epidemiologywhole genome sequencinghealthcare-associated infectionsantibiotic resistanceCOVID-19 |
| spellingShingle | Andrey Shelenkov Yulia Mikhaylova Lyudmila Petrova Irina Gaidukova Mikhail Zamyatin Vasiliy Akimkin Genomic Characterization of Clinical <i>Acinetobacter baumannii</i> Isolates Obtained from COVID-19 Patients in Russia Antibiotics <i>Acinetobacter baumannii</i> genomic epidemiology whole genome sequencing healthcare-associated infections antibiotic resistance COVID-19 |
| title | Genomic Characterization of Clinical <i>Acinetobacter baumannii</i> Isolates Obtained from COVID-19 Patients in Russia |
| title_full | Genomic Characterization of Clinical <i>Acinetobacter baumannii</i> Isolates Obtained from COVID-19 Patients in Russia |
| title_fullStr | Genomic Characterization of Clinical <i>Acinetobacter baumannii</i> Isolates Obtained from COVID-19 Patients in Russia |
| title_full_unstemmed | Genomic Characterization of Clinical <i>Acinetobacter baumannii</i> Isolates Obtained from COVID-19 Patients in Russia |
| title_short | Genomic Characterization of Clinical <i>Acinetobacter baumannii</i> Isolates Obtained from COVID-19 Patients in Russia |
| title_sort | genomic characterization of clinical i acinetobacter baumannii i isolates obtained from covid 19 patients in russia |
| topic | <i>Acinetobacter baumannii</i> genomic epidemiology whole genome sequencing healthcare-associated infections antibiotic resistance COVID-19 |
| url | https://www.mdpi.com/2079-6382/11/3/346 |
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