Oligonucleotide and DNA Microarrays: Versatile Tools for Rapid Bacterial Diagnostics
Identifieur interne : 001835 ( Istex/Corpus ); précédent : 001834; suivant : 001836Oligonucleotide and DNA Microarrays: Versatile Tools for Rapid Bacterial Diagnostics
Auteurs : Tanja Kostic ; Patrice Francois ; Levente Bodrossy ; Jacques SchrenzelSource :
Abstract
Abstract: The rapid and unambiguous detection and identification of microorganisms, historically a major challenge of clinical microbiology, gained additional importance in the fields of public health and biodefence. These requirements cannot be well addressed by classical culture-based approaches. Therefore, a wide range of molecular approaches has been suggested. Microarrays are molecular tools that can be used for simultaneous identification of microorganisms in clinical and environmental samples. Main advantages of microarrays are high throughput, parallelism and miniaturization of the detection system. Furthermore, they allow for both high specificity and high sensitivity of the detection. Microarrays consist of set of probes immobilized on a solid surface. Even though the first application of the microarrays can be seen as relatively recent (Schena et al. 1995), the technology developed rapidly reaching the milestone of 5,000 published papers in 2004 (Holzman and Kolker 2004). This development encompasses both the successful transfer of various technological aspects as well as the expansion of the application scope. The most important technological elements of custom-made platforms as well as the characteristics of the commercially available formats are reviewed in this chapter. Furthermore, application potential is presented together with considerations about quality control.
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DOI: 10.1007/978-0-387-75113-9_23
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These requirements cannot be well addressed by classical culture-based approaches. Therefore, a wide range of molecular approaches has been suggested. Microarrays are molecular tools that can be used for simultaneous identification of microorganisms in clinical and environmental samples. Main advantages of microarrays are high throughput, parallelism and miniaturization of the detection system. Furthermore, they allow for both high specificity and high sensitivity of the detection. Microarrays consist of set of probes immobilized on a solid surface. Even though the first application of the microarrays can be seen as relatively recent (Schena et al. 1995), the technology developed rapidly reaching the milestone of 5,000 published papers in 2004 (Holzman and Kolker 2004). This development encompasses both the successful transfer of various technological aspects as well as the expansion of the application scope. 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ARC</orgName><address><region>A-2444 Seibersdorf</region><country key="AT">AUSTRIA</country></address></affiliation></author><author><persName><forename type="first">Patrice</forename><surname>Francois</surname></persName><affiliation><orgName type="institution">Genomic Research Laboratory, Division of Infectious Diseases, University of Geneva Hospital Rue Micheli-du-crest</orgName><address><region>24 CH-1211 Geneva</region><country key="CH">SWITZERLAND</country></address></affiliation></author><author><persName><forename type="first">Levente</forename><surname>Bodrossy</surname></persName><affiliation><orgName type="department">Department of Bioresources</orgName><orgName type="institution">Austrian Research Centres GmbH - ARC</orgName><address><region>A-2444 Seibersdorf</region><country key="AT">AUSTRIA</country></address></affiliation></author><author><persName><forename type="first">Jacques</forename><surname>Schrenzel</surname></persName><affiliation><orgName type="department">Hospital of Geneva Department of Internal Medicine</orgName><orgName type="institution">Genomic Research Laboratory and Clinical Microbiology Laboratory Service of Infectious Diseases University</orgName><address><settlement>Geneva</settlement><country key="CH">SWITZERLAND</country></address></affiliation></author><idno type="istex">5C5CFE21ADFD450DCBE66E0CDC14B9005C7C0DD8</idno><idno type="ark">ark:/67375/HCB-R9MWF1BG-6</idno><idno type="DOI">10.1007/978-0-387-75113-9_23</idno></analytic><monogr><title level="m" type="main">Principles of Bacterial Detection: Biosensors, Recognition Receptors and Microsystems</title><title level="m" type="part">Biorecognition</title><idno type="DOI">10.1007/978-0-387-75113-9</idno><idno type="book-id">978-0-387-75113-9</idno><idno type="ISBN">978-0-387-75112-2</idno><idno type="eISBN">978-0-387-75113-9</idno><idno type="chapter-id">Chap23</idno><idno type="part-id">Part3</idno><editor><persName><forename type="first">Mohammed</forename><surname>Zourob</surname></persName><email>m.zourob@biophagepharma.net</email><affiliation><orgName type="institution">Biophage Pharma Inc</orgName><address><settlement>Montreal</settlement><country key="CA">CANADA</country></address></affiliation></editor><editor><persName><forename type="first">Souna</forename><surname>Elwary</surname></persName><email>selwary@yahoo.com</email><affiliation><orgName type="institution">Consultant to Biophage Pharma Inc</orgName><address><settlement>Montreal</settlement><country key="CA">CANADA</country></address></affiliation></editor><editor><persName><forename type="first">Anthony</forename><surname>Turner</surname></persName><email>a.p.turner@cranfield.ac.uk</email><affiliation><orgName type="institution">Cranfield University</orgName><address><settlement>Bedfordshire</settlement><country key="GB">UNITED KINGDOM</country></address></affiliation></editor><imprint><biblScope unit="page" from="629">629</biblScope><biblScope unit="page" to="657">657</biblScope><biblScope unit="chapter-count">36</biblScope><biblScope unit="part-chapter-count">9</biblScope></imprint></monogr></biblStruct></sourceDesc></fileDesc><profileDesc><abstract xml:lang="en"><head>Abstract</head><p>The rapid and unambiguous detection and identification of microorganisms, historically a major challenge of clinical microbiology, gained additional importance in the fields of public health and biodefence. These requirements cannot be well addressed by classical culture-based approaches. Therefore, a wide range of molecular approaches has been suggested. Microarrays are molecular tools that can be used for simultaneous identification of microorganisms in clinical and environmental samples. Main advantages of microarrays are high throughput, parallelism and miniaturization of the detection system. Furthermore, they allow for both high specificity and high sensitivity of the detection.</p><p>Microarrays consist of set of probes immobilized on a solid surface. Even though the first application of the microarrays can be seen as relatively recent (Schena et al. 1995), the technology developed rapidly reaching the milestone of 5,000 published papers in 2004 (Holzman and Kolker 2004). This development encompasses both the successful transfer of various technological aspects as well as the expansion of the application scope. The most important technological elements of custom-made platforms as well as the characteristics of the commercially available formats are reviewed in this chapter. Furthermore, application potential is presented together with considerations about quality control.</p></abstract><textClass ana="subject"><keywords scheme="book-subject-collection"><list><label>SUCO11647</label><item><term>Engineering</term></item></list></keywords></textClass><textClass ana="subject"><keywords scheme="book-subject"><list><label>SCT</label><item><term type="Primary">Engineering</term></item><label>SCT2700X</label><item><term type="Secondary" subtype="priority-1">Biomedical Engineering</term></item><label>SCB0000X</label><item><term type="Secondary" subtype="priority-2">Biomedicine general</term></item><label>SCP27008</label><item><term type="Secondary" subtype="priority-3">Biophysics and Biological Physics</term></item></list></keywords></textClass><langUsage><language 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DisplayOrder="Western"><GivenName>Mohammed</GivenName><FamilyName>Zourob</FamilyName></EditorName><Contact><Email>m.zourob@biophagepharma.net</Email></Contact></Editor><Editor AffiliationIDS="Aff2"><EditorName DisplayOrder="Western"><GivenName>Souna</GivenName><FamilyName>Elwary</FamilyName></EditorName><Contact><Email>selwary@yahoo.com</Email></Contact></Editor><Editor AffiliationIDS="Aff3"><EditorName DisplayOrder="Western"><GivenName>Anthony</GivenName><FamilyName>Turner</FamilyName></EditorName><Contact><Email>a.p.turner@cranfield.ac.uk</Email></Contact></Editor><Affiliation ID="Aff1"><OrgName>Biophage Pharma Inc</OrgName><OrgAddress><City>Montreal</City><Country>Canada</Country></OrgAddress></Affiliation><Affiliation ID="Aff2"><OrgName>Consultant to Biophage Pharma Inc</OrgName><OrgAddress><City>Montreal</City><Country>Canada</Country></OrgAddress></Affiliation><Affiliation ID="Aff3"><OrgName>Cranfield University</OrgName><OrgAddress><City>Bedfordshire</City><Country>UK</Country></OrgAddress></Affiliation></EditorGroup></BookHeader><Part ID="Part3"><PartInfo TocLevels="0"><PartID>3</PartID><PartNumber>III</PartNumber><PartSequenceNumber>3</PartSequenceNumber><PartTitle>Biorecognition</PartTitle><PartChapterCount>9</PartChapterCount><PartContext><BookID>978-0-387-75113-9</BookID><BookTitle>Principles of Bacterial Detection: Biosensors, Recognition Receptors and Microsystems</BookTitle></PartContext></PartInfo><Chapter ID="Chap23" Language="En"><ChapterInfo ChapterType="OriginalPaper" ContainsESM="No" NumberingStyle="ChapterContentSeparately" TocLevels="0"><ChapterID>23</ChapterID><ChapterNumber>23</ChapterNumber><ChapterDOI>10.1007/978-0-387-75113-9_23</ChapterDOI><ChapterSequenceNumber>23</ChapterSequenceNumber><ChapterTitle Language="En">Oligonucleotide and DNA Microarrays: Versatile Tools for Rapid Bacterial Diagnostics</ChapterTitle><ChapterFirstPage>629</ChapterFirstPage><ChapterLastPage>657</ChapterLastPage><ChapterCopyright><CopyrightHolderName>Springer Science+Business Media, LLC</CopyrightHolderName><CopyrightYear>2008</CopyrightYear></ChapterCopyright><ChapterGrants Type="Regular"><MetadataGrant Grant="OpenAccess"></MetadataGrant><AbstractGrant Grant="OpenAccess"></AbstractGrant><BodyPDFGrant Grant="Restricted"></BodyPDFGrant><BodyHTMLGrant Grant="Restricted"></BodyHTMLGrant><BibliographyGrant Grant="Restricted"></BibliographyGrant><ESMGrant Grant="Restricted"></ESMGrant></ChapterGrants><ChapterContext><PartID>3</PartID><BookID>978-0-387-75113-9</BookID><BookTitle>Principles of Bacterial Detection: Biosensors, Recognition Receptors and Microsystems</BookTitle></ChapterContext></ChapterInfo><ChapterHeader><AuthorGroup><Author AffiliationIDS="Aff4"><AuthorName DisplayOrder="Western"><GivenName>Tanja</GivenName><FamilyName>Kostic</FamilyName></AuthorName></Author><Author AffiliationIDS="Aff5"><AuthorName DisplayOrder="Western"><GivenName>Patrice</GivenName><FamilyName>Francois</FamilyName></AuthorName></Author><Author AffiliationIDS="Aff4"><AuthorName DisplayOrder="Western"><GivenName>Levente</GivenName><FamilyName>Bodrossy</FamilyName></AuthorName></Author><Author AffiliationIDS="Aff6"><AuthorName DisplayOrder="Western"><GivenName>Jacques</GivenName><FamilyName>Schrenzel</FamilyName></AuthorName></Author><Affiliation ID="Aff4"><OrgDivision>Department of Bioresources</OrgDivision><OrgName>Austrian Research Centres GmbH - ARC</OrgName><OrgAddress><State>A-2444 Seibersdorf</State><Country>Austria</Country></OrgAddress></Affiliation><Affiliation ID="Aff5"><OrgName>Genomic Research Laboratory, Division of Infectious Diseases, University of Geneva Hospital Rue Micheli-du-crest</OrgName><OrgAddress><State>24 CH-1211 Geneva</State><Country>Switzerland</Country></OrgAddress></Affiliation><Affiliation ID="Aff6"><OrgDivision>Hospital of Geneva Department of Internal Medicine</OrgDivision><OrgName>Genomic Research Laboratory and Clinical Microbiology Laboratory Service of Infectious Diseases University</OrgName><OrgAddress><City>Geneva</City><Country>Switzerland</Country></OrgAddress></Affiliation></AuthorGroup><Abstract ID="Abs1" Language="En"><Heading>Abstract</Heading><Para TextBreak="No">The rapid and unambiguous detection and identification of microorganisms, historically a major challenge of clinical microbiology, gained additional importance in the fields of public health and biodefence. These requirements cannot be well addressed by classical culture-based approaches. Therefore, a wide range of molecular approaches has been suggested. Microarrays are molecular tools that can be used for simultaneous identification of microorganisms in clinical and environmental samples. Main advantages of microarrays are high throughput, parallelism and miniaturization of the detection system. Furthermore, they allow for both high specificity and high sensitivity of the detection.</Para><Para TextBreak="No">Microarrays consist of set of probes immobilized on a solid surface. Even though the first application of the microarrays can be seen as relatively recent (Schena et al. 1995), the technology developed rapidly reaching the milestone of 5,000 published papers in 2004 (Holzman and Kolker 2004). This development encompasses both the successful transfer of various technological aspects as well as the expansion of the application scope. The most important technological elements of custom-made platforms as well as the characteristics of the commercially available formats are reviewed in this chapter. Furthermore, application potential is presented together with considerations about quality control.</Para></Abstract></ChapterHeader><NoBody></NoBody></Chapter></Part></Book></Publisher></istex:document></istex:metadataXml><mods version="3.6"><titleInfo lang="en"><title>Oligonucleotide and DNA Microarrays: Versatile Tools for Rapid Bacterial Diagnostics</title></titleInfo><titleInfo type="alternative" contentType="CDATA"><title>Oligonucleotide and DNA Microarrays: Versatile Tools for Rapid Bacterial Diagnostics</title></titleInfo><name type="personal"><namePart type="given">Tanja</namePart><namePart type="family">Kostic</namePart><affiliation>Department of Bioresources, Austrian Research Centres GmbH - ARC, A-2444 Seibersdorf, Austria</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">Patrice</namePart><namePart type="family">Francois</namePart><affiliation>Genomic Research Laboratory, Division of Infectious Diseases, University of Geneva Hospital Rue Micheli-du-crest, 24 CH-1211 Geneva, Switzerland</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">Levente</namePart><namePart type="family">Bodrossy</namePart><affiliation>Department of Bioresources, Austrian Research Centres GmbH - ARC, A-2444 Seibersdorf, Austria</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">Jacques</namePart><namePart type="family">Schrenzel</namePart><affiliation>Hospital of Geneva Department of Internal Medicine, Genomic Research Laboratory and Clinical Microbiology Laboratory Service of Infectious Diseases University, Geneva, Switzerland</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">Mohammed</namePart><namePart type="family">Zourob</namePart><affiliation>Biophage Pharma Inc, Montreal, Canada</affiliation><affiliation>E-mail: m.zourob@biophagepharma.net</affiliation><role><roleTerm type="text">editor</roleTerm></role></name><name type="personal"><namePart type="given">Souna</namePart><namePart type="family">Elwary</namePart><affiliation>Consultant to Biophage Pharma Inc, Montreal, Canada</affiliation><affiliation>E-mail: selwary@yahoo.com</affiliation><role><roleTerm type="text">editor</roleTerm></role></name><name type="personal"><namePart type="given">Anthony</namePart><namePart type="family">Turner</namePart><affiliation>Cranfield University, Bedfordshire, UK</affiliation><affiliation>E-mail: a.p.turner@cranfield.ac.uk</affiliation><role><roleTerm type="text">editor</roleTerm></role></name><typeOfResource>text</typeOfResource><genre type="chapter" displayLabel="chapter" authority="ISTEX" authorityURI="https://content-type.data.istex.fr" valueURI="https://content-type.data.istex.fr/ark:/67375/XTP-CGT4WMJM-6"></genre><originInfo><publisher>Springer New York</publisher><place><placeTerm type="text">New York, NY</placeTerm></place><dateIssued encoding="w3cdtf">2008</dateIssued><copyrightDate encoding="w3cdtf">2008</copyrightDate></originInfo><language><languageTerm type="code" authority="rfc3066">en</languageTerm><languageTerm type="code" authority="iso639-2b">eng</languageTerm></language><abstract lang="en">Abstract: The rapid and unambiguous detection and identification of microorganisms, historically a major challenge of clinical microbiology, gained additional importance in the fields of public health and biodefence. These requirements cannot be well addressed by classical culture-based approaches. Therefore, a wide range of molecular approaches has been suggested. Microarrays are molecular tools that can be used for simultaneous identification of microorganisms in clinical and environmental samples. Main advantages of microarrays are high throughput, parallelism and miniaturization of the detection system. Furthermore, they allow for both high specificity and high sensitivity of the detection. Microarrays consist of set of probes immobilized on a solid surface. Even though the first application of the microarrays can be seen as relatively recent (Schena et al. 1995), the technology developed rapidly reaching the milestone of 5,000 published papers in 2004 (Holzman and Kolker 2004). This development encompasses both the successful transfer of various technological aspects as well as the expansion of the application scope. The most important technological elements of custom-made platforms as well as the characteristics of the commercially available formats are reviewed in this chapter. Furthermore, application potential is presented together with considerations about quality control.</abstract><relatedItem type="host"><titleInfo><title>Principles of Bacterial Detection: Biosensors, Recognition Receptors and Microsystems</title></titleInfo><name type="personal"><namePart type="given">Mohammed</namePart><namePart type="family">Zourob</namePart><affiliation>Biophage Pharma Inc, Montreal, Canada</affiliation><affiliation>E-mail: m.zourob@biophagepharma.net</affiliation><role><roleTerm type="text">editor</roleTerm></role></name><name type="personal"><namePart type="given">Souna</namePart><namePart type="family">Elwary</namePart><affiliation>Consultant to Biophage Pharma Inc, Montreal, Canada</affiliation><affiliation>E-mail: selwary@yahoo.com</affiliation><role><roleTerm type="text">editor</roleTerm></role></name><name type="personal"><namePart type="given">Anthony</namePart><namePart type="family">Turner</namePart><affiliation>Cranfield University, Bedfordshire, UK</affiliation><affiliation>E-mail: a.p.turner@cranfield.ac.uk</affiliation><role><roleTerm type="text">editor</roleTerm></role></name><genre type="book" authority="ISTEX" authorityURI="https://publication-type.data.istex.fr" valueURI="https://publication-type.data.istex.fr/ark:/67375/JMC-5WTPMB5N-F">book</genre><originInfo><publisher>Springer</publisher><copyrightDate encoding="w3cdtf">2008</copyrightDate><issuance>monographic</issuance></originInfo><subject><genre>Book-Subject-Collection</genre><topic authority="SpringerSubjectCodes" authorityURI="SUCO11647">Engineering</topic></subject><subject><genre>Book-Subject-Group</genre><topic authority="SpringerSubjectCodes" authorityURI="SCT">Engineering</topic><topic authority="SpringerSubjectCodes" authorityURI="SCT2700X">Biomedical Engineering</topic><topic authority="SpringerSubjectCodes" authorityURI="SCB0000X">Biomedicine general</topic><topic authority="SpringerSubjectCodes" authorityURI="SCP27008">Biophysics and Biological Physics</topic></subject><identifier type="DOI">10.1007/978-0-387-75113-9</identifier><identifier type="ISBN">978-0-387-75112-2</identifier><identifier type="eISBN">978-0-387-75113-9</identifier><identifier type="BookTitleID">144235</identifier><identifier type="BookID">978-0-387-75113-9</identifier><identifier type="BookChapterCount">36</identifier><identifier type="PartChapterCount">9</identifier><part><date>2008</date><detail type="part"><title>III: Biorecognition</title></detail><detail type="part"><number>III</number></detail><detail type="chapter"><number>23</number><caption>chapter</caption></detail><extent unit="pages"><start>629</start><end>657</end></extent></part><recordInfo><recordOrigin>Springer Science+Business Media, LLC, 2008</recordOrigin></recordInfo></relatedItem><identifier type="istex">5C5CFE21ADFD450DCBE66E0CDC14B9005C7C0DD8</identifier><identifier type="ark">ark:/67375/HCB-R9MWF1BG-6</identifier><identifier type="DOI">10.1007/978-0-387-75113-9_23</identifier><identifier type="ChapterID">23</identifier><identifier type="ChapterID">Chap23</identifier><accessCondition type="use and reproduction" contentType="copyright">Springer Science+Business Media, LLC, 2008</accessCondition><recordInfo><recordContentSource authority="ISTEX" authorityURI="https://loaded-corpus.data.istex.fr" valueURI="https://loaded-corpus.data.istex.fr/ark:/67375/XBH-RLRX46XW-4">springer</recordContentSource><recordOrigin>Springer Science+Business Media, LLC, 2008</recordOrigin></recordInfo></mods><json:item><extension>json</extension><original>false</original><mimetype>application/json</mimetype><uri>https://api.istex.fr/ark:/67375/HCB-R9MWF1BG-6/record.json</uri></json:item></metadata><annexes><json:item><extension>txt</extension><original>true</original><mimetype>text/plain</mimetype><uri>https://api.istex.fr/ark:/67375/HCB-R9MWF1BG-6/annexes.txt</uri></json:item></annexes><serie></serie></istex></record>Pour manipuler ce document sous Unix (Dilib)
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