Genomic and Phenotypic Analysis of Multidrug-Resistant <i>Acinetobacter baumannii</i> Clinical Isolates Carrying Different Types of CRISPR/Cas Systems
<i>Acinetobacter baumannii</i> is an opportunistic pathogen being one of the most important causative agents of a wide range of nosocomial infections associated with multidrug resistance and high mortality rate. This study presents a multiparametric and correlation analyses of clinical m...
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MDPI AG
2021-02-01
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| Online Access: | https://www.mdpi.com/2076-0817/10/2/205 |
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| author | Marina Tyumentseva Yulia Mikhaylova Anna Prelovskaya Aleksandr Tyumentsev Lyudmila Petrova Valeria Fomina Mikhail Zamyatin Andrey Shelenkov Vasiliy Akimkin |
| author_facet | Marina Tyumentseva Yulia Mikhaylova Anna Prelovskaya Aleksandr Tyumentsev Lyudmila Petrova Valeria Fomina Mikhail Zamyatin Andrey Shelenkov Vasiliy Akimkin |
| author_sort | Marina Tyumentseva |
| collection | DOAJ |
| description | <i>Acinetobacter baumannii</i> is an opportunistic pathogen being one of the most important causative agents of a wide range of nosocomial infections associated with multidrug resistance and high mortality rate. This study presents a multiparametric and correlation analyses of clinical multidrug-resistant <i>A. baumannii</i> isolates using short- and long-read whole-genome sequencing, which allowed us to reveal specific characteristics of the isolates with different CRISPR/Cas systems. We also compared antibiotic resistance and virulence gene acquisition for the groups of the isolates having functional CRISPR/Cas systems, just CRISPR arrays without cas genes, and without detectable CRISPR spacers. The data include three schemes of molecular typing, phenotypic and genotypic antibiotic resistance determination, as well as phylogenetic analysis of full-length cas gene sequences, predicted prophage sequences and CRISPR array type determination. For the first time the differences between the isolates carrying Type I-F1 and Type I-F2 CRISPR/Cas systems were investigated. <i>A. baumannii</i> isolates with Type I-F1 system were shown to have smaller number of reliably detected CRISPR arrays, and thus they could more easily adapt to environmental conditions through acquisition of antibiotic resistance genes, while Type I-F2 <i>A. baumannii</i> might have stronger “immunity” and use CRISPR/Cas system to block the dissemination of these genes. In addition, virulence factors <i>abaI, abaR</i>, <i>bap</i> and <i>bauA</i> were overrepresented in <i>A. baumannii</i> isolates lacking CRISPR/Cas system. This indicates the role of CRISPR/Cas in fighting against phage infections and preventing horizontal gene transfer. We believe that the data presented will contribute to further investigations in the field of antimicrobial resistance and CRISPR/Cas studies. |
| first_indexed | 2024-03-09T00:53:29Z |
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| institution | Directory Open Access Journal |
| issn | 2076-0817 |
| language | English |
| last_indexed | 2024-03-09T00:53:29Z |
| publishDate | 2021-02-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Pathogens |
| spelling | doaj.art-5ca4fa494d204c208af22642542ca8d82023-12-11T17:01:10ZengMDPI AGPathogens2076-08172021-02-0110220510.3390/pathogens10020205Genomic and Phenotypic Analysis of Multidrug-Resistant <i>Acinetobacter baumannii</i> Clinical Isolates Carrying Different Types of CRISPR/Cas SystemsMarina Tyumentseva0Yulia Mikhaylova1Anna Prelovskaya2Aleksandr Tyumentsev3Lyudmila Petrova4Valeria Fomina5Mikhail Zamyatin6Andrey Shelenkov7Vasiliy Akimkin8Central 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, 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, RussiaCentral Research Institute of Epidemiology, Novogireevskaya str., 3a, 111123 Moscow, Russia<i>Acinetobacter baumannii</i> is an opportunistic pathogen being one of the most important causative agents of a wide range of nosocomial infections associated with multidrug resistance and high mortality rate. This study presents a multiparametric and correlation analyses of clinical multidrug-resistant <i>A. baumannii</i> isolates using short- and long-read whole-genome sequencing, which allowed us to reveal specific characteristics of the isolates with different CRISPR/Cas systems. We also compared antibiotic resistance and virulence gene acquisition for the groups of the isolates having functional CRISPR/Cas systems, just CRISPR arrays without cas genes, and without detectable CRISPR spacers. The data include three schemes of molecular typing, phenotypic and genotypic antibiotic resistance determination, as well as phylogenetic analysis of full-length cas gene sequences, predicted prophage sequences and CRISPR array type determination. For the first time the differences between the isolates carrying Type I-F1 and Type I-F2 CRISPR/Cas systems were investigated. <i>A. baumannii</i> isolates with Type I-F1 system were shown to have smaller number of reliably detected CRISPR arrays, and thus they could more easily adapt to environmental conditions through acquisition of antibiotic resistance genes, while Type I-F2 <i>A. baumannii</i> might have stronger “immunity” and use CRISPR/Cas system to block the dissemination of these genes. In addition, virulence factors <i>abaI, abaR</i>, <i>bap</i> and <i>bauA</i> were overrepresented in <i>A. baumannii</i> isolates lacking CRISPR/Cas system. This indicates the role of CRISPR/Cas in fighting against phage infections and preventing horizontal gene transfer. We believe that the data presented will contribute to further investigations in the field of antimicrobial resistance and CRISPR/Cas studies.https://www.mdpi.com/2076-0817/10/2/205<i>Acinetobacter baumannii</i>whole genome sequencingantibiotic resistanceMDRCRISPR/Cas systems |
| spellingShingle | Marina Tyumentseva Yulia Mikhaylova Anna Prelovskaya Aleksandr Tyumentsev Lyudmila Petrova Valeria Fomina Mikhail Zamyatin Andrey Shelenkov Vasiliy Akimkin Genomic and Phenotypic Analysis of Multidrug-Resistant <i>Acinetobacter baumannii</i> Clinical Isolates Carrying Different Types of CRISPR/Cas Systems Pathogens <i>Acinetobacter baumannii</i> whole genome sequencing antibiotic resistance MDR CRISPR/Cas systems |
| title | Genomic and Phenotypic Analysis of Multidrug-Resistant <i>Acinetobacter baumannii</i> Clinical Isolates Carrying Different Types of CRISPR/Cas Systems |
| title_full | Genomic and Phenotypic Analysis of Multidrug-Resistant <i>Acinetobacter baumannii</i> Clinical Isolates Carrying Different Types of CRISPR/Cas Systems |
| title_fullStr | Genomic and Phenotypic Analysis of Multidrug-Resistant <i>Acinetobacter baumannii</i> Clinical Isolates Carrying Different Types of CRISPR/Cas Systems |
| title_full_unstemmed | Genomic and Phenotypic Analysis of Multidrug-Resistant <i>Acinetobacter baumannii</i> Clinical Isolates Carrying Different Types of CRISPR/Cas Systems |
| title_short | Genomic and Phenotypic Analysis of Multidrug-Resistant <i>Acinetobacter baumannii</i> Clinical Isolates Carrying Different Types of CRISPR/Cas Systems |
| title_sort | genomic and phenotypic analysis of multidrug resistant i acinetobacter baumannii i clinical isolates carrying different types of crispr cas systems |
| topic | <i>Acinetobacter baumannii</i> whole genome sequencing antibiotic resistance MDR CRISPR/Cas systems |
| url | https://www.mdpi.com/2076-0817/10/2/205 |
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