Use of Fourier-transform infrared spectroscopy for real-time outbreak investigation of OXA-48-producing Escherichia coli
Abstract Background Efficient infection control during carbapenem-resistant Enterobacterales outbreaks demands rapid and simple techniques for outbreak investigations. WGS, the current gold standard for outbreak identification, is expensive, time-consuming and requires a high level of expertise. Fou...
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Veröffentlicht in: | Journal of antimicrobial chemotherapy 2024-02, Vol.79 (2), p.349-353 |
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creator | Kon, Hadas Lurie-Weinberger, Mor N Lugassy, Carmela Chen, Dafna Schechner, Vered Schwaber, Mitchell J Hussein, Khetam Alon, Tamar Tarabeia, Jalal Hamo, Moran Firan, Ibraheem Aboalhega, Worood Lomansov, Elena Mendelsohn, Sigal Keren-Paz, Alona Carmeli, Yehuda |
description | Abstract
Background
Efficient infection control during carbapenem-resistant Enterobacterales outbreaks demands rapid and simple techniques for outbreak investigations. WGS, the current gold standard for outbreak identification, is expensive, time-consuming and requires a high level of expertise. Fourier-transform infrared (FTIR) spectroscopy (IR Biotyper) is a rapid typing method based on infrared radiation applied to samples, which provides a highly specific absorption spectrum.
Objectives
To investigate an outbreak of OXA-48-producing Escherichia coli in real-time using FTIR and subsequently compare the results with WGS.
Methods
Twenty-one isolates were collected during a nosocomial outbreak, and identification and antibiotic susceptibilities were confirmed by VITEK®2. FTIR was conducted for all isolates, and nine representative isolates were sequenced.
Results
FTIR was able to correctly determine the clonal relatedness of the isolates and to identify the outbreak cluster, as confirmed by WGS. By WGS, isolates in the main FTIR cluster belonged to the same MLST type and core-genome MLST type, and they harboured similar plasmids and resistance genes, whereas the singletons external to the FTIR cluster had different genetic content.
Conclusions
FTIR can operate as a rapid, efficient and reliable first-line tool for outbreak investigations during a real-time ongoing E. coli outbreak, which can contribute to limiting the spread of pathogens. |
doi_str_mv | 10.1093/jac/dkad387 |
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Background
Efficient infection control during carbapenem-resistant Enterobacterales outbreaks demands rapid and simple techniques for outbreak investigations. WGS, the current gold standard for outbreak identification, is expensive, time-consuming and requires a high level of expertise. Fourier-transform infrared (FTIR) spectroscopy (IR Biotyper) is a rapid typing method based on infrared radiation applied to samples, which provides a highly specific absorption spectrum.
Objectives
To investigate an outbreak of OXA-48-producing Escherichia coli in real-time using FTIR and subsequently compare the results with WGS.
Methods
Twenty-one isolates were collected during a nosocomial outbreak, and identification and antibiotic susceptibilities were confirmed by VITEK®2. FTIR was conducted for all isolates, and nine representative isolates were sequenced.
Results
FTIR was able to correctly determine the clonal relatedness of the isolates and to identify the outbreak cluster, as confirmed by WGS. By WGS, isolates in the main FTIR cluster belonged to the same MLST type and core-genome MLST type, and they harboured similar plasmids and resistance genes, whereas the singletons external to the FTIR cluster had different genetic content.
Conclusions
FTIR can operate as a rapid, efficient and reliable first-line tool for outbreak investigations during a real-time ongoing E. coli outbreak, which can contribute to limiting the spread of pathogens.</description><identifier>ISSN: 0305-7453</identifier><identifier>ISSN: 1460-2091</identifier><identifier>EISSN: 1460-2091</identifier><identifier>DOI: 10.1093/jac/dkad387</identifier><identifier>PMID: 38101944</identifier><language>eng</language><publisher>US: Oxford University Press</publisher><ispartof>Journal of antimicrobial chemotherapy, 2024-02, Vol.79 (2), p.349-353</ispartof><rights>The Author(s) 2023. Published by Oxford University Press on behalf of British Society for Antimicrobial Chemotherapy. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com 2023</rights><rights>The Author(s) 2023. Published by Oxford University Press on behalf of British Society for Antimicrobial Chemotherapy. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><cites>FETCH-LOGICAL-c278t-5c08dc43b49c6807a009932f1a5129a090e55c7a9b03a93ef87d3f38b7b41173</cites><orcidid>0000-0002-0679-3967</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><link.rule.ids>314,780,784,1584,27924,27925</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/38101944$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Kon, Hadas</creatorcontrib><creatorcontrib>Lurie-Weinberger, Mor N</creatorcontrib><creatorcontrib>Lugassy, Carmela</creatorcontrib><creatorcontrib>Chen, Dafna</creatorcontrib><creatorcontrib>Schechner, Vered</creatorcontrib><creatorcontrib>Schwaber, Mitchell J</creatorcontrib><creatorcontrib>Hussein, Khetam</creatorcontrib><creatorcontrib>Alon, Tamar</creatorcontrib><creatorcontrib>Tarabeia, Jalal</creatorcontrib><creatorcontrib>Hamo, Moran</creatorcontrib><creatorcontrib>Firan, Ibraheem</creatorcontrib><creatorcontrib>Aboalhega, Worood</creatorcontrib><creatorcontrib>Lomansov, Elena</creatorcontrib><creatorcontrib>Mendelsohn, Sigal</creatorcontrib><creatorcontrib>Keren-Paz, Alona</creatorcontrib><creatorcontrib>Carmeli, Yehuda</creatorcontrib><title>Use of Fourier-transform infrared spectroscopy for real-time outbreak investigation of OXA-48-producing Escherichia coli</title><title>Journal of antimicrobial chemotherapy</title><addtitle>J Antimicrob Chemother</addtitle><description>Abstract
Background
Efficient infection control during carbapenem-resistant Enterobacterales outbreaks demands rapid and simple techniques for outbreak investigations. WGS, the current gold standard for outbreak identification, is expensive, time-consuming and requires a high level of expertise. Fourier-transform infrared (FTIR) spectroscopy (IR Biotyper) is a rapid typing method based on infrared radiation applied to samples, which provides a highly specific absorption spectrum.
Objectives
To investigate an outbreak of OXA-48-producing Escherichia coli in real-time using FTIR and subsequently compare the results with WGS.
Methods
Twenty-one isolates were collected during a nosocomial outbreak, and identification and antibiotic susceptibilities were confirmed by VITEK®2. FTIR was conducted for all isolates, and nine representative isolates were sequenced.
Results
FTIR was able to correctly determine the clonal relatedness of the isolates and to identify the outbreak cluster, as confirmed by WGS. By WGS, isolates in the main FTIR cluster belonged to the same MLST type and core-genome MLST type, and they harboured similar plasmids and resistance genes, whereas the singletons external to the FTIR cluster had different genetic content.
Conclusions
FTIR can operate as a rapid, efficient and reliable first-line tool for outbreak investigations during a real-time ongoing E. coli outbreak, which can contribute to limiting the spread of pathogens.</description><issn>0305-7453</issn><issn>1460-2091</issn><issn>1460-2091</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2024</creationdate><recordtype>article</recordtype><recordid>eNp9kMFLwzAUh4Mobk5P3qUnEST60iRrcpSxqSB4UfBW0jTdsrVNTVpx_70Zmx49PR7vex_v_RC6JHBHQNL7tdL35UaVVGRHaEzYFHAKkhyjMVDgOGOcjtBZCGsAmPKpOEUjKggQydgYfb8Hk7gqWbjBW-Nx71UbKuebxLaVV96USeiM7r0L2nXbJI4Sb1SNe9vExaEvYreJ8JcJvV2q3rp253v9eMBM4M67ctC2XSbzoFfGW72yKtGutufopFJ1MBeHOkFvi_nb7Am_vD4-zx5esE4z0WOuQZSa0YJJPRWQKQApaVoRxUkqFUgwnOtMyQKoktRUIitpRUWRFYyQjE7QzV4bL_kc4o15Y4M2da1a44aQpxJSyQSXPKK3e1THZ4M3Vd552yi_zQnku6TzmHR-SDrSVwfxUDSm_GN_o43A9R5wQ_ev6QcR_4iR</recordid><startdate>20240201</startdate><enddate>20240201</enddate><creator>Kon, Hadas</creator><creator>Lurie-Weinberger, Mor N</creator><creator>Lugassy, Carmela</creator><creator>Chen, Dafna</creator><creator>Schechner, Vered</creator><creator>Schwaber, Mitchell J</creator><creator>Hussein, Khetam</creator><creator>Alon, Tamar</creator><creator>Tarabeia, Jalal</creator><creator>Hamo, Moran</creator><creator>Firan, Ibraheem</creator><creator>Aboalhega, Worood</creator><creator>Lomansov, Elena</creator><creator>Mendelsohn, Sigal</creator><creator>Keren-Paz, Alona</creator><creator>Carmeli, Yehuda</creator><general>Oxford University Press</general><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7X8</scope><orcidid>https://orcid.org/0000-0002-0679-3967</orcidid></search><sort><creationdate>20240201</creationdate><title>Use of Fourier-transform infrared spectroscopy for real-time outbreak investigation of OXA-48-producing Escherichia coli</title><author>Kon, Hadas ; Lurie-Weinberger, Mor N ; Lugassy, Carmela ; Chen, Dafna ; Schechner, Vered ; Schwaber, Mitchell J ; Hussein, Khetam ; Alon, Tamar ; Tarabeia, Jalal ; Hamo, Moran ; Firan, Ibraheem ; Aboalhega, Worood ; Lomansov, Elena ; Mendelsohn, Sigal ; Keren-Paz, Alona ; Carmeli, Yehuda</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c278t-5c08dc43b49c6807a009932f1a5129a090e55c7a9b03a93ef87d3f38b7b41173</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2024</creationdate><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Kon, Hadas</creatorcontrib><creatorcontrib>Lurie-Weinberger, Mor N</creatorcontrib><creatorcontrib>Lugassy, Carmela</creatorcontrib><creatorcontrib>Chen, Dafna</creatorcontrib><creatorcontrib>Schechner, Vered</creatorcontrib><creatorcontrib>Schwaber, Mitchell J</creatorcontrib><creatorcontrib>Hussein, Khetam</creatorcontrib><creatorcontrib>Alon, Tamar</creatorcontrib><creatorcontrib>Tarabeia, Jalal</creatorcontrib><creatorcontrib>Hamo, Moran</creatorcontrib><creatorcontrib>Firan, Ibraheem</creatorcontrib><creatorcontrib>Aboalhega, Worood</creatorcontrib><creatorcontrib>Lomansov, Elena</creatorcontrib><creatorcontrib>Mendelsohn, Sigal</creatorcontrib><creatorcontrib>Keren-Paz, Alona</creatorcontrib><creatorcontrib>Carmeli, Yehuda</creatorcontrib><collection>PubMed</collection><collection>CrossRef</collection><collection>MEDLINE - Academic</collection><jtitle>Journal of antimicrobial chemotherapy</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Kon, Hadas</au><au>Lurie-Weinberger, Mor N</au><au>Lugassy, Carmela</au><au>Chen, Dafna</au><au>Schechner, Vered</au><au>Schwaber, Mitchell J</au><au>Hussein, Khetam</au><au>Alon, Tamar</au><au>Tarabeia, Jalal</au><au>Hamo, Moran</au><au>Firan, Ibraheem</au><au>Aboalhega, Worood</au><au>Lomansov, Elena</au><au>Mendelsohn, Sigal</au><au>Keren-Paz, Alona</au><au>Carmeli, Yehuda</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Use of Fourier-transform infrared spectroscopy for real-time outbreak investigation of OXA-48-producing Escherichia coli</atitle><jtitle>Journal of antimicrobial chemotherapy</jtitle><addtitle>J Antimicrob Chemother</addtitle><date>2024-02-01</date><risdate>2024</risdate><volume>79</volume><issue>2</issue><spage>349</spage><epage>353</epage><pages>349-353</pages><issn>0305-7453</issn><issn>1460-2091</issn><eissn>1460-2091</eissn><abstract>Abstract
Background
Efficient infection control during carbapenem-resistant Enterobacterales outbreaks demands rapid and simple techniques for outbreak investigations. WGS, the current gold standard for outbreak identification, is expensive, time-consuming and requires a high level of expertise. Fourier-transform infrared (FTIR) spectroscopy (IR Biotyper) is a rapid typing method based on infrared radiation applied to samples, which provides a highly specific absorption spectrum.
Objectives
To investigate an outbreak of OXA-48-producing Escherichia coli in real-time using FTIR and subsequently compare the results with WGS.
Methods
Twenty-one isolates were collected during a nosocomial outbreak, and identification and antibiotic susceptibilities were confirmed by VITEK®2. FTIR was conducted for all isolates, and nine representative isolates were sequenced.
Results
FTIR was able to correctly determine the clonal relatedness of the isolates and to identify the outbreak cluster, as confirmed by WGS. By WGS, isolates in the main FTIR cluster belonged to the same MLST type and core-genome MLST type, and they harboured similar plasmids and resistance genes, whereas the singletons external to the FTIR cluster had different genetic content.
Conclusions
FTIR can operate as a rapid, efficient and reliable first-line tool for outbreak investigations during a real-time ongoing E. coli outbreak, which can contribute to limiting the spread of pathogens.</abstract><cop>US</cop><pub>Oxford University Press</pub><pmid>38101944</pmid><doi>10.1093/jac/dkad387</doi><tpages>5</tpages><orcidid>https://orcid.org/0000-0002-0679-3967</orcidid></addata></record> |
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title | Use of Fourier-transform infrared spectroscopy for real-time outbreak investigation of OXA-48-producing Escherichia coli |
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