CRISPR-cas subtype I-Fb in Acinetobacter baumannii: evolution and utilization for strain subtyping
Clustered regularly interspaced short palindromic repeats (CRISPR) are polymorphic elements found in the genome of some or all strains of particular bacterial species, providing them with a system of acquired immunity against invading bacteriophages and plasmids. Two CRISPR-Cas systems have been ide...
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| creator | Karah, Nabil Samuelsen, Ørjan Zarrilli, Raffaele Sahl, Jason W Wai, Sun Nyunt Uhlin, Bernt Eric |
| description | Clustered regularly interspaced short palindromic repeats (CRISPR) are polymorphic elements found in the genome of some or all strains of particular bacterial species, providing them with a system of acquired immunity against invading bacteriophages and plasmids. Two CRISPR-Cas systems have been identified in Acinetobacter baumannii, an opportunistic pathogen with a remarkable capacity for clonal dissemination. In this study, we investigated the mode of evolution and diversity of spacers of the CRISPR-cas subtype I-Fb locus in a global collection of 76 isolates of A. baumannii obtained from 14 countries and 4 continents. The locus has basically evolved from a common ancestor following two main lineages and several pathways of vertical descent. However, this vertical passage has been interrupted by occasional events of horizontal transfer of the whole locus between distinct isolates. The isolates were assigned into 40 CRISPR-based sequence types (CST). CST1 and CST23-24 comprised 18 and 9 isolates, representing two main sub-clones of international clones CC1 and CC25, respectively. Epidemiological data showed that some of the CST1 isolates were acquired or imported from Iraq, where it has probably been endemic for more than one decade and occasionally been able to spread to USA, Canada, and Europe. CST23-24 has shown a remarkable ability to cause national outbreaks of infections in Sweden, Argentina, UAE, and USA. The three isolates of CST19 were independently imported from Thailand to Sweden and Norway, raising a concern about the prevalence of CST19 in Thailand. Our study highlights the dynamic nature of the CRISPR-cas subtype I-Fb locus in A. baumannii, and demonstrates the possibility of using a CRISPR-based approach for subtyping a significant part of the global population of A. baumannii. |
| doi_str_mv | 10.1371/journal.pone.0118205 |
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Two CRISPR-Cas systems have been identified in Acinetobacter baumannii, an opportunistic pathogen with a remarkable capacity for clonal dissemination. In this study, we investigated the mode of evolution and diversity of spacers of the CRISPR-cas subtype I-Fb locus in a global collection of 76 isolates of A. baumannii obtained from 14 countries and 4 continents. The locus has basically evolved from a common ancestor following two main lineages and several pathways of vertical descent. However, this vertical passage has been interrupted by occasional events of horizontal transfer of the whole locus between distinct isolates. The isolates were assigned into 40 CRISPR-based sequence types (CST). CST1 and CST23-24 comprised 18 and 9 isolates, representing two main sub-clones of international clones CC1 and CC25, respectively. Epidemiological data showed that some of the CST1 isolates were acquired or imported from Iraq, where it has probably been endemic for more than one decade and occasionally been able to spread to USA, Canada, and Europe. CST23-24 has shown a remarkable ability to cause national outbreaks of infections in Sweden, Argentina, UAE, and USA. The three isolates of CST19 were independently imported from Thailand to Sweden and Norway, raising a concern about the prevalence of CST19 in Thailand. Our study highlights the dynamic nature of the CRISPR-cas subtype I-Fb locus in A. baumannii, and demonstrates the possibility of using a CRISPR-based approach for subtyping a significant part of the global population of A. baumannii.</description><identifier>ISSN: 1932-6203</identifier><identifier>EISSN: 1932-6203</identifier><identifier>DOI: 10.1371/journal.pone.0118205</identifier><identifier>PMID: 25706932</identifier><language>eng</language><publisher>United States: Public Library of Science</publisher><subject>Acinetobacter ; Acinetobacter baumannii ; Acinetobacter baumannii - genetics ; Acinetobacter baumannii - isolation & purification ; Acinetobacter Infections - epidemiology ; Acinetobacter Infections - microbiology ; Adaptation ; Arrays ; Bacteriophages - genetics ; Biological Evolution ; Cloning ; Clustered Regularly Interspaced Short Palindromic Repeats - genetics ; Continents ; CRISPR ; Disease Outbreaks ; Epidemiology ; Evolution ; Genomes ; Genomics ; Horizontal transfer ; Immunity ; Laboratories ; Loci ; Molecular biology ; Nosocomial infections ; Opportunist infection ; Outbreaks ; Phages ; Phylogeny ; Plasmids ; Plasmids - genetics ; Prevalence ; Salmonella ; Yersinia pestis</subject><ispartof>PloS one, 2015-02, Vol.10 (2), p.e0118205-e0118205</ispartof><rights>2015 Karah et al. This is an open access article distributed under the terms of the Creative Commons Attribution License: http://creativecommons.org/licenses/by/4.0/ (the “License”), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.</rights><rights>2015 Karah et al 2015 Karah et al</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c564t-fe4aa0ebc7b78ac7fb3858d2ac1699f36f239b1c9bc593904d73c718c776dee03</citedby><cites>FETCH-LOGICAL-c564t-fe4aa0ebc7b78ac7fb3858d2ac1699f36f239b1c9bc593904d73c718c776dee03</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC4338279/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC4338279/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,552,727,780,784,864,885,2100,2926,23865,27923,27924,53790,53792,79371,79372</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/25706932$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink><backlink>$$Uhttps://urn.kb.se/resolve?urn=urn:nbn:se:umu:diva-102241$$DView record from Swedish Publication Index$$Hfree_for_read</backlink></links><search><contributor>Mokrousov, Igor</contributor><creatorcontrib>Karah, Nabil</creatorcontrib><creatorcontrib>Samuelsen, Ørjan</creatorcontrib><creatorcontrib>Zarrilli, Raffaele</creatorcontrib><creatorcontrib>Sahl, Jason W</creatorcontrib><creatorcontrib>Wai, Sun Nyunt</creatorcontrib><creatorcontrib>Uhlin, Bernt Eric</creatorcontrib><title>CRISPR-cas subtype I-Fb in Acinetobacter baumannii: evolution and utilization for strain subtyping</title><title>PloS one</title><addtitle>PLoS One</addtitle><description>Clustered regularly interspaced short palindromic repeats (CRISPR) are polymorphic elements found in the genome of some or all strains of particular bacterial species, providing them with a system of acquired immunity against invading bacteriophages and plasmids. Two CRISPR-Cas systems have been identified in Acinetobacter baumannii, an opportunistic pathogen with a remarkable capacity for clonal dissemination. In this study, we investigated the mode of evolution and diversity of spacers of the CRISPR-cas subtype I-Fb locus in a global collection of 76 isolates of A. baumannii obtained from 14 countries and 4 continents. The locus has basically evolved from a common ancestor following two main lineages and several pathways of vertical descent. However, this vertical passage has been interrupted by occasional events of horizontal transfer of the whole locus between distinct isolates. The isolates were assigned into 40 CRISPR-based sequence types (CST). CST1 and CST23-24 comprised 18 and 9 isolates, representing two main sub-clones of international clones CC1 and CC25, respectively. Epidemiological data showed that some of the CST1 isolates were acquired or imported from Iraq, where it has probably been endemic for more than one decade and occasionally been able to spread to USA, Canada, and Europe. CST23-24 has shown a remarkable ability to cause national outbreaks of infections in Sweden, Argentina, UAE, and USA. The three isolates of CST19 were independently imported from Thailand to Sweden and Norway, raising a concern about the prevalence of CST19 in Thailand. 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Two CRISPR-Cas systems have been identified in Acinetobacter baumannii, an opportunistic pathogen with a remarkable capacity for clonal dissemination. In this study, we investigated the mode of evolution and diversity of spacers of the CRISPR-cas subtype I-Fb locus in a global collection of 76 isolates of A. baumannii obtained from 14 countries and 4 continents. The locus has basically evolved from a common ancestor following two main lineages and several pathways of vertical descent. However, this vertical passage has been interrupted by occasional events of horizontal transfer of the whole locus between distinct isolates. The isolates were assigned into 40 CRISPR-based sequence types (CST). CST1 and CST23-24 comprised 18 and 9 isolates, representing two main sub-clones of international clones CC1 and CC25, respectively. Epidemiological data showed that some of the CST1 isolates were acquired or imported from Iraq, where it has probably been endemic for more than one decade and occasionally been able to spread to USA, Canada, and Europe. CST23-24 has shown a remarkable ability to cause national outbreaks of infections in Sweden, Argentina, UAE, and USA. The three isolates of CST19 were independently imported from Thailand to Sweden and Norway, raising a concern about the prevalence of CST19 in Thailand. Our study highlights the dynamic nature of the CRISPR-cas subtype I-Fb locus in A. baumannii, and demonstrates the possibility of using a CRISPR-based approach for subtyping a significant part of the global population of A. baumannii.</abstract><cop>United States</cop><pub>Public Library of Science</pub><pmid>25706932</pmid><doi>10.1371/journal.pone.0118205</doi><oa>free_for_read</oa></addata></record> |
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| issn | 1932-6203 1932-6203 |
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| subjects | Acinetobacter Acinetobacter baumannii Acinetobacter baumannii - genetics Acinetobacter baumannii - isolation & purification Acinetobacter Infections - epidemiology Acinetobacter Infections - microbiology Adaptation Arrays Bacteriophages - genetics Biological Evolution Cloning Clustered Regularly Interspaced Short Palindromic Repeats - genetics Continents CRISPR Disease Outbreaks Epidemiology Evolution Genomes Genomics Horizontal transfer Immunity Laboratories Loci Molecular biology Nosocomial infections Opportunist infection Outbreaks Phages Phylogeny Plasmids Plasmids - genetics Prevalence Salmonella Yersinia pestis |
| title | CRISPR-cas subtype I-Fb in Acinetobacter baumannii: evolution and utilization for strain subtyping |
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