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Prevalence of the CRISPR-cas system and its association with antibiotic resistance in clinical Klebsiella pneumoniae isolates
CRISPR-Cas is a prokaryotic adaptive immune system that protects bacteria and archaea against mobile genetic elements (MGEs) such as bacteriophages plasmids, and transposons. In this study, we aimed to assess the prevalence of the CRISPR-Cas systems and their association with antibiotic resistance i...
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| Published in: | BMC infectious diseases 2024-06, Vol.24 (1), p.554-554 |
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| creator | Kadkhoda, Hiva Gholizadeh, Pourya Ghotaslou, Reza Pirzadeh, Tahereh Ahangarzadeh Rezaee, Mohammad Nabizadeh, Edris Feizi, Hadi Samadi Kafil, Hossein Aghazadeh, Mohammad |
| description | CRISPR-Cas is a prokaryotic adaptive immune system that protects bacteria and archaea against mobile genetic elements (MGEs) such as bacteriophages plasmids, and transposons. In this study, we aimed to assess the prevalence of the CRISPR-Cas systems and their association with antibiotic resistance in one of the most challenging bacterial pathogens, Klebsiella pneumoniae.
A total of 105 K. pneumoniae isolates were collected from various clinical infections. Extended-spectrum β-lactamases (ESBLs) phenotypically were detected and the presence of ESBL, aminoglycoside-modifying enzymes (AME), and CRISPR-Cas system subtype genes were identified using PCR. Moreover, the diversity of the isolates was determined by enterobacterial repetitive intergenic consensus (ERIC)-PCR.
Phenotypically, 41.9% (44/105) of the isolates were found to be ESBL producers. A significant inverse correlation existed between the subtype I-E CRISPR-Cas system's presence and ESBL production in K. pneumoniae isolates. Additionally, the frequency of the ESBL genes bla
(3%), bla
(12.1%), bla
(51.5%), and bla
(33.3%), as well as some AME genes such as aac(3)-Iva (21.2%) and ant(2'')-Ia (3%) was significantly lower in the isolates with the subtype I-E CRISPR-Cas system in comparison to CRISPR-negative isolates. There was a significant inverse correlation between the presence of ESBL and some AME genes with subtype I-E CRISPR-Cas system.
The presence of the subtype I-E CRISPR-Cas system was correlated with the antibiotic-resistant gene (ARGs). The isolates with subtype I-E CRISPR-Cas system had a lower frequency of ESBL genes and some AME genes than CRISPR-negative isolates. |
| doi_str_mv | 10.1186/s12879-024-09451-5 |
| format | article |
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A total of 105 K. pneumoniae isolates were collected from various clinical infections. Extended-spectrum β-lactamases (ESBLs) phenotypically were detected and the presence of ESBL, aminoglycoside-modifying enzymes (AME), and CRISPR-Cas system subtype genes were identified using PCR. Moreover, the diversity of the isolates was determined by enterobacterial repetitive intergenic consensus (ERIC)-PCR.
Phenotypically, 41.9% (44/105) of the isolates were found to be ESBL producers. A significant inverse correlation existed between the subtype I-E CRISPR-Cas system's presence and ESBL production in K. pneumoniae isolates. Additionally, the frequency of the ESBL genes bla
(3%), bla
(12.1%), bla
(51.5%), and bla
(33.3%), as well as some AME genes such as aac(3)-Iva (21.2%) and ant(2'')-Ia (3%) was significantly lower in the isolates with the subtype I-E CRISPR-Cas system in comparison to CRISPR-negative isolates. There was a significant inverse correlation between the presence of ESBL and some AME genes with subtype I-E CRISPR-Cas system.
The presence of the subtype I-E CRISPR-Cas system was correlated with the antibiotic-resistant gene (ARGs). The isolates with subtype I-E CRISPR-Cas system had a lower frequency of ESBL genes and some AME genes than CRISPR-negative isolates.</description><identifier>ISSN: 1471-2334</identifier><identifier>EISSN: 1471-2334</identifier><identifier>DOI: 10.1186/s12879-024-09451-5</identifier><identifier>PMID: 38831286</identifier><language>eng</language><publisher>England: BioMed Central Ltd</publisher><subject>Adaptive systems ; Aminoglycoside antibiotics ; Aminoglycosides ; Anti-Bacterial Agents - pharmacology ; Antibiotic resistance ; Antibiotics ; Bacteria ; beta-Lactamases - genetics ; Care and treatment ; Complications and side effects ; Correlation ; CRISPR ; CRISPR-Cas system ; CRISPR-Cas Systems ; DNA polymerase ; Dosage and administration ; Drug resistance ; Drug resistance in microorganisms ; Drug Resistance, Bacterial - genetics ; E coli ; Extended-spectrum β-lactamases ; Female ; Gene frequency ; Genes ; Genetic engineering ; Humans ; Immune system ; Klebsiella ; Klebsiella infections ; Klebsiella Infections - epidemiology ; Klebsiella Infections - microbiology ; Klebsiella pneumoniae ; Klebsiella pneumoniae - drug effects ; Klebsiella pneumoniae - genetics ; Male ; Microbial Sensitivity Tests ; Middle Aged ; Phages ; Plasmids ; Prevalence ; Prevention ; Thermal cycling ; Transposons ; Virulence ; β Lactamase</subject><ispartof>BMC infectious diseases, 2024-06, Vol.24 (1), p.554-554</ispartof><rights>2024. The Author(s).</rights><rights>COPYRIGHT 2024 BioMed Central Ltd.</rights><rights>2024. This work is licensed under http://creativecommons.org/licenses/by/4.0/ (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.</rights><rights>The Author(s) 2024</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC11149351/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.proquest.com/docview/3066880888?pq-origsite=primo$$EHTML$$P50$$Gproquest$$Hfree_for_read</linktohtml><link.rule.ids>230,314,727,780,784,885,25753,27924,27925,37012,37013,44590,53791,53793</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/38831286$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Kadkhoda, Hiva</creatorcontrib><creatorcontrib>Gholizadeh, Pourya</creatorcontrib><creatorcontrib>Ghotaslou, Reza</creatorcontrib><creatorcontrib>Pirzadeh, Tahereh</creatorcontrib><creatorcontrib>Ahangarzadeh Rezaee, Mohammad</creatorcontrib><creatorcontrib>Nabizadeh, Edris</creatorcontrib><creatorcontrib>Feizi, Hadi</creatorcontrib><creatorcontrib>Samadi Kafil, Hossein</creatorcontrib><creatorcontrib>Aghazadeh, Mohammad</creatorcontrib><title>Prevalence of the CRISPR-cas system and its association with antibiotic resistance in clinical Klebsiella pneumoniae isolates</title><title>BMC infectious diseases</title><addtitle>BMC Infect Dis</addtitle><description>CRISPR-Cas is a prokaryotic adaptive immune system that protects bacteria and archaea against mobile genetic elements (MGEs) such as bacteriophages plasmids, and transposons. In this study, we aimed to assess the prevalence of the CRISPR-Cas systems and their association with antibiotic resistance in one of the most challenging bacterial pathogens, Klebsiella pneumoniae.
A total of 105 K. pneumoniae isolates were collected from various clinical infections. Extended-spectrum β-lactamases (ESBLs) phenotypically were detected and the presence of ESBL, aminoglycoside-modifying enzymes (AME), and CRISPR-Cas system subtype genes were identified using PCR. Moreover, the diversity of the isolates was determined by enterobacterial repetitive intergenic consensus (ERIC)-PCR.
Phenotypically, 41.9% (44/105) of the isolates were found to be ESBL producers. A significant inverse correlation existed between the subtype I-E CRISPR-Cas system's presence and ESBL production in K. pneumoniae isolates. Additionally, the frequency of the ESBL genes bla
(3%), bla
(12.1%), bla
(51.5%), and bla
(33.3%), as well as some AME genes such as aac(3)-Iva (21.2%) and ant(2'')-Ia (3%) was significantly lower in the isolates with the subtype I-E CRISPR-Cas system in comparison to CRISPR-negative isolates. There was a significant inverse correlation between the presence of ESBL and some AME genes with subtype I-E CRISPR-Cas system.
The presence of the subtype I-E CRISPR-Cas system was correlated with the antibiotic-resistant gene (ARGs). The isolates with subtype I-E CRISPR-Cas system had a lower frequency of ESBL genes and some AME genes than CRISPR-negative isolates.</description><subject>Adaptive systems</subject><subject>Aminoglycoside antibiotics</subject><subject>Aminoglycosides</subject><subject>Anti-Bacterial Agents - pharmacology</subject><subject>Antibiotic resistance</subject><subject>Antibiotics</subject><subject>Bacteria</subject><subject>beta-Lactamases - genetics</subject><subject>Care and treatment</subject><subject>Complications and side effects</subject><subject>Correlation</subject><subject>CRISPR</subject><subject>CRISPR-Cas system</subject><subject>CRISPR-Cas Systems</subject><subject>DNA polymerase</subject><subject>Dosage and administration</subject><subject>Drug resistance</subject><subject>Drug resistance in microorganisms</subject><subject>Drug Resistance, Bacterial - genetics</subject><subject>E coli</subject><subject>Extended-spectrum β-lactamases</subject><subject>Female</subject><subject>Gene frequency</subject><subject>Genes</subject><subject>Genetic engineering</subject><subject>Humans</subject><subject>Immune system</subject><subject>Klebsiella</subject><subject>Klebsiella infections</subject><subject>Klebsiella Infections - epidemiology</subject><subject>Klebsiella Infections - microbiology</subject><subject>Klebsiella pneumoniae</subject><subject>Klebsiella pneumoniae - drug effects</subject><subject>Klebsiella pneumoniae - genetics</subject><subject>Male</subject><subject>Microbial Sensitivity Tests</subject><subject>Middle Aged</subject><subject>Phages</subject><subject>Plasmids</subject><subject>Prevalence</subject><subject>Prevention</subject><subject>Thermal cycling</subject><subject>Transposons</subject><subject>Virulence</subject><subject>β Lactamase</subject><issn>1471-2334</issn><issn>1471-2334</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2024</creationdate><recordtype>article</recordtype><sourceid>PIMPY</sourceid><sourceid>DOA</sourceid><recordid>eNqNks1vFCEYhydGY2v1H_BgSLzoYSoMw9fJNBs_NjZps1WvhGFedtnMQB2Yag_-77K2Nl3jwXCAvDzvQ_hBVT0n-JgQyd8k0kihaty0NVYtIzV7UB2SVpC6obR9eG99UD1JaYsxEbJRj6sDKiUtzfyw-nk-wZUZIFhA0aG8AbRYLS_OV7U1CaXrlGFEJvTI54RMStF6k30M6LvPm7KRfedj9hZNkHzKZufxAdnBB2_NgD4N0CUPw2DQZYB5jMGbQqQ4mAzpafXImSHBs9v5qPry_t3nxcf69OzDcnFyWvetwLnugdMOWM-5URZLK6VSwkkjOG0B4453jPTKWck6yUknHG6FEoJwyhR2zNGjannj7aPZ6svJj2a61tF4_bsQp7U2U7nFABqXvLCTpCG0bxtuDeNGGO6AgiJE2OJ6e-O6nLsRegshT2bYk-7vBL_R63ilCSGtoowUw6tbwxS_zZCyHn2yu4wCxDlpinnLhFIYF_TlX-g2zlMoWe0oLiWW5SnvqHV5Se2Di-Vgu5PqE6F4uZFgvFDH_6DK6GH0NgZwvtT3Gl7vNRQmw4-8NnNKenmx-n_27Os---J-gnfR_fmV9BenAOIV</recordid><startdate>20240603</startdate><enddate>20240603</enddate><creator>Kadkhoda, Hiva</creator><creator>Gholizadeh, Pourya</creator><creator>Ghotaslou, Reza</creator><creator>Pirzadeh, Tahereh</creator><creator>Ahangarzadeh Rezaee, Mohammad</creator><creator>Nabizadeh, Edris</creator><creator>Feizi, Hadi</creator><creator>Samadi Kafil, Hossein</creator><creator>Aghazadeh, Mohammad</creator><general>BioMed Central Ltd</general><general>BioMed Central</general><general>BMC</general><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>IOV</scope><scope>ISR</scope><scope>3V.</scope><scope>7QL</scope><scope>7T2</scope><scope>7U9</scope><scope>7X7</scope><scope>7XB</scope><scope>88E</scope><scope>8C1</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>ABUWG</scope><scope>AFKRA</scope><scope>AZQEC</scope><scope>BENPR</scope><scope>C1K</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>H94</scope><scope>K9.</scope><scope>M0S</scope><scope>M1P</scope><scope>M7N</scope><scope>PIMPY</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PRINS</scope><scope>7X8</scope><scope>5PM</scope><scope>DOA</scope></search><sort><creationdate>20240603</creationdate><title>Prevalence of the CRISPR-cas system and its association with antibiotic resistance in clinical Klebsiella pneumoniae isolates</title><author>Kadkhoda, Hiva ; Gholizadeh, Pourya ; Ghotaslou, Reza ; Pirzadeh, Tahereh ; Ahangarzadeh Rezaee, Mohammad ; Nabizadeh, Edris ; Feizi, Hadi ; Samadi Kafil, Hossein ; Aghazadeh, Mohammad</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-d470t-de63be5d66a9c08c88997f8a7634e00b6b51d9fc85b861b7f047977163590f5f3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2024</creationdate><topic>Adaptive systems</topic><topic>Aminoglycoside antibiotics</topic><topic>Aminoglycosides</topic><topic>Anti-Bacterial Agents - pharmacology</topic><topic>Antibiotic resistance</topic><topic>Antibiotics</topic><topic>Bacteria</topic><topic>beta-Lactamases - genetics</topic><topic>Care and treatment</topic><topic>Complications and side effects</topic><topic>Correlation</topic><topic>CRISPR</topic><topic>CRISPR-Cas system</topic><topic>CRISPR-Cas Systems</topic><topic>DNA polymerase</topic><topic>Dosage and administration</topic><topic>Drug resistance</topic><topic>Drug resistance in microorganisms</topic><topic>Drug Resistance, Bacterial - genetics</topic><topic>E coli</topic><topic>Extended-spectrum β-lactamases</topic><topic>Female</topic><topic>Gene frequency</topic><topic>Genes</topic><topic>Genetic engineering</topic><topic>Humans</topic><topic>Immune system</topic><topic>Klebsiella</topic><topic>Klebsiella infections</topic><topic>Klebsiella Infections - epidemiology</topic><topic>Klebsiella Infections - microbiology</topic><topic>Klebsiella pneumoniae</topic><topic>Klebsiella pneumoniae - drug effects</topic><topic>Klebsiella pneumoniae - genetics</topic><topic>Male</topic><topic>Microbial Sensitivity Tests</topic><topic>Middle Aged</topic><topic>Phages</topic><topic>Plasmids</topic><topic>Prevalence</topic><topic>Prevention</topic><topic>Thermal cycling</topic><topic>Transposons</topic><topic>Virulence</topic><topic>β Lactamase</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Kadkhoda, Hiva</creatorcontrib><creatorcontrib>Gholizadeh, Pourya</creatorcontrib><creatorcontrib>Ghotaslou, Reza</creatorcontrib><creatorcontrib>Pirzadeh, Tahereh</creatorcontrib><creatorcontrib>Ahangarzadeh Rezaee, Mohammad</creatorcontrib><creatorcontrib>Nabizadeh, Edris</creatorcontrib><creatorcontrib>Feizi, Hadi</creatorcontrib><creatorcontrib>Samadi Kafil, Hossein</creatorcontrib><creatorcontrib>Aghazadeh, Mohammad</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>Gale In Context: Opposing Viewpoints</collection><collection>Gale In Context: Science</collection><collection>ProQuest Central (Corporate)</collection><collection>Bacteriology Abstracts (Microbiology B)</collection><collection>Health and Safety Science Abstracts (Full archive)</collection><collection>Virology and AIDS Abstracts</collection><collection>ProQuest Health & Medical Collection</collection><collection>ProQuest Central (purchase pre-March 2016)</collection><collection>Medical Database (Alumni Edition)</collection><collection>ProQuest Public Health Database</collection><collection>Hospital Premium Collection</collection><collection>Hospital Premium Collection (Alumni Edition)</collection><collection>ProQuest Central (Alumni) (purchase pre-March 2016)</collection><collection>ProQuest Central (Alumni)</collection><collection>ProQuest Central</collection><collection>ProQuest Central Essentials</collection><collection>ProQuest Central</collection><collection>Environmental Sciences and Pollution Management</collection><collection>ProQuest One Community College</collection><collection>ProQuest Central</collection><collection>Health Research Premium Collection</collection><collection>Health Research Premium Collection (Alumni)</collection><collection>AIDS and Cancer Research Abstracts</collection><collection>ProQuest Health & Medical Complete (Alumni)</collection><collection>Health & Medical Collection (Alumni Edition)</collection><collection>Medical Database</collection><collection>Algology Mycology and Protozoology Abstracts (Microbiology C)</collection><collection>Publicly Available Content Database (Proquest) (PQ_SDU_P3)</collection><collection>ProQuest One Academic Eastern Edition (DO NOT USE)</collection><collection>ProQuest One Academic</collection><collection>ProQuest One Academic UKI Edition</collection><collection>ProQuest Central China</collection><collection>MEDLINE - Academic</collection><collection>PubMed Central (Full Participant titles)</collection><collection>Directory of Open Access Journals(OpenAccess)</collection><jtitle>BMC infectious diseases</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Kadkhoda, Hiva</au><au>Gholizadeh, Pourya</au><au>Ghotaslou, Reza</au><au>Pirzadeh, Tahereh</au><au>Ahangarzadeh Rezaee, Mohammad</au><au>Nabizadeh, Edris</au><au>Feizi, Hadi</au><au>Samadi Kafil, Hossein</au><au>Aghazadeh, Mohammad</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Prevalence of the CRISPR-cas system and its association with antibiotic resistance in clinical Klebsiella pneumoniae isolates</atitle><jtitle>BMC infectious diseases</jtitle><addtitle>BMC Infect Dis</addtitle><date>2024-06-03</date><risdate>2024</risdate><volume>24</volume><issue>1</issue><spage>554</spage><epage>554</epage><pages>554-554</pages><issn>1471-2334</issn><eissn>1471-2334</eissn><abstract>CRISPR-Cas is a prokaryotic adaptive immune system that protects bacteria and archaea against mobile genetic elements (MGEs) such as bacteriophages plasmids, and transposons. In this study, we aimed to assess the prevalence of the CRISPR-Cas systems and their association with antibiotic resistance in one of the most challenging bacterial pathogens, Klebsiella pneumoniae.
A total of 105 K. pneumoniae isolates were collected from various clinical infections. Extended-spectrum β-lactamases (ESBLs) phenotypically were detected and the presence of ESBL, aminoglycoside-modifying enzymes (AME), and CRISPR-Cas system subtype genes were identified using PCR. Moreover, the diversity of the isolates was determined by enterobacterial repetitive intergenic consensus (ERIC)-PCR.
Phenotypically, 41.9% (44/105) of the isolates were found to be ESBL producers. A significant inverse correlation existed between the subtype I-E CRISPR-Cas system's presence and ESBL production in K. pneumoniae isolates. Additionally, the frequency of the ESBL genes bla
(3%), bla
(12.1%), bla
(51.5%), and bla
(33.3%), as well as some AME genes such as aac(3)-Iva (21.2%) and ant(2'')-Ia (3%) was significantly lower in the isolates with the subtype I-E CRISPR-Cas system in comparison to CRISPR-negative isolates. There was a significant inverse correlation between the presence of ESBL and some AME genes with subtype I-E CRISPR-Cas system.
The presence of the subtype I-E CRISPR-Cas system was correlated with the antibiotic-resistant gene (ARGs). The isolates with subtype I-E CRISPR-Cas system had a lower frequency of ESBL genes and some AME genes than CRISPR-negative isolates.</abstract><cop>England</cop><pub>BioMed Central Ltd</pub><pmid>38831286</pmid><doi>10.1186/s12879-024-09451-5</doi><tpages>1</tpages><oa>free_for_read</oa></addata></record> |
| fulltext | fulltext |
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| ispartof | BMC infectious diseases, 2024-06, Vol.24 (1), p.554-554 |
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| subjects | Adaptive systems Aminoglycoside antibiotics Aminoglycosides Anti-Bacterial Agents - pharmacology Antibiotic resistance Antibiotics Bacteria beta-Lactamases - genetics Care and treatment Complications and side effects Correlation CRISPR CRISPR-Cas system CRISPR-Cas Systems DNA polymerase Dosage and administration Drug resistance Drug resistance in microorganisms Drug Resistance, Bacterial - genetics E coli Extended-spectrum β-lactamases Female Gene frequency Genes Genetic engineering Humans Immune system Klebsiella Klebsiella infections Klebsiella Infections - epidemiology Klebsiella Infections - microbiology Klebsiella pneumoniae Klebsiella pneumoniae - drug effects Klebsiella pneumoniae - genetics Male Microbial Sensitivity Tests Middle Aged Phages Plasmids Prevalence Prevention Thermal cycling Transposons Virulence β Lactamase |
| title | Prevalence of the CRISPR-cas system and its association with antibiotic resistance in clinical Klebsiella pneumoniae isolates |
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