Differentiation of Escherichia coli pathotypes by oligonucleotide spotted array.
Identifieur interne : 000427 ( Ncbi/Curation ); précédent : 000426; suivant : 000428Differentiation of Escherichia coli pathotypes by oligonucleotide spotted array.
Auteurs : Raghavan U M. Palaniappan [États-Unis] ; Yu Zhang ; David Chiu ; Alfonso Torres ; Chobi Debroy ; Thomas S. Whittam ; Yung-Fu ChangSource :
- Journal of clinical microbiology [ 0095-1137 ] ; 2006.
Descripteurs français
- KwdFr :
- ADN bactérien (analyse), ADN bactérien (génétique), Analyse de profil d'expression de gènes, Escherichia coli (), Escherichia coli (génétique), Escherichia coli (isolement et purification), Escherichia coli (pathogénicité), Infections à Escherichia coli (diagnostic), Sondes oligonucléotidiques, Séquençage par oligonucléotides en batterie (), Virulence.
- MESH :
- analyse : ADN bactérien.
- diagnostic : Infections à Escherichia coli.
- génétique : ADN bactérien, Escherichia coli.
- isolement et purification : Escherichia coli.
- pathogénicité : Escherichia coli.
- Analyse de profil d'expression de gènes, Escherichia coli, Sondes oligonucléotidiques, Séquençage par oligonucléotides en batterie, Virulence.
English descriptors
- KwdEn :
- DNA, Bacterial (analysis), DNA, Bacterial (genetics), Escherichia coli (classification), Escherichia coli (genetics), Escherichia coli (isolation & purification), Escherichia coli (pathogenicity), Escherichia coli Infections (diagnosis), Gene Expression Profiling, Oligonucleotide Array Sequence Analysis (methods), Oligonucleotide Probes, Virulence.
- MESH :
- chemical , analysis : DNA, Bacterial.
- chemical , genetics : DNA, Bacterial.
- classification : Escherichia coli.
- diagnosis : Escherichia coli Infections.
- genetics : Escherichia coli.
- isolation & purification : Escherichia coli.
- methods : Oligonucleotide Array Sequence Analysis.
- pathogenicity : Escherichia coli.
- Gene Expression Profiling, Oligonucleotide Probes, Virulence.
Abstract
To accurately determine the pathotypes of Escherichia coli strains, a comprehensive assessment of each strain that targets multiple genes is required. A new approach to the identification and characterization of E. coli pathotypes was developed by constructing gene-specific probes (70-mers) for not only the virulence genes associated with each E. coli pathotype but also the O157-, CFT073-, and K-12-specific and common genes of each pathotype. Analysis of oligonucleotide probes with reference and clinical isolates of E. coli pathotypes indicated that the array could differentiate the pathotypes on the basis of their virulence and specific gene patterns. Probes targeting common genes of E. coli were present in all the reference and clinical strains. Salmonella enterica subsp. enterica-specific genes and Salmonella core genes were used as negative controls. The entire E. coli pathotype showed reactivity to only 4 of the 81 Salmonella-specific gene probes. Characterization of the genetic and virulence profiles of a single strain by using probes for virulence factors and specific and common genes in the spotted array is an ideal diagnostic tool for determination of E. coli pathotypes and could also have a significant impact on the epidemiological analysis of E. coli infections.
DOI: 10.1128/JCM.44.4.1495-1501.2006
PubMed: 16597882
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pubmed:16597882Le document en format XML
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Whittam</name></author><author><name sortKey="Chang, Yung Fu" sort="Chang, Yung Fu" uniqKey="Chang Y" first="Yung-Fu" last="Chang">Yung-Fu Chang</name></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2006">2006</date><idno type="RBID">pubmed:16597882</idno><idno type="pmid">16597882</idno><idno type="doi">10.1128/JCM.44.4.1495-1501.2006</idno><idno type="wicri:Area/PubMed/Corpus">002261</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Corpus" wicri:corpus="PubMed">002261</idno><idno type="wicri:Area/PubMed/Curation">002261</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Curation">002261</idno><idno type="wicri:Area/PubMed/Checkpoint">002138</idno><idno type="wicri:explorRef" wicri:stream="Checkpoint" wicri:step="PubMed">002138</idno><idno type="wicri:Area/Ncbi/Merge">000427</idno><idno type="wicri:Area/Ncbi/Curation">000427</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">Differentiation of Escherichia coli pathotypes by oligonucleotide spotted array.</title><author><name sortKey="Palaniappan, Raghavan U M" sort="Palaniappan, Raghavan U M" uniqKey="Palaniappan R" first="Raghavan U M" last="Palaniappan">Raghavan U M. Palaniappan</name><affiliation wicri:level="4"><nlm:affiliation>Department of Population Medicine and Diagnostic Sciences, College of Veterinary Medicine, Cornell University, Ithaca, NY 14853, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Population Medicine and Diagnostic Sciences, College of Veterinary Medicine, Cornell University, Ithaca, NY 14853</wicri:regionArea><placeName><region type="state">État de New York</region><settlement type="city">Ithaca (New York)</settlement></placeName><orgName type="university">Université Cornell</orgName></affiliation></author><author><name sortKey="Zhang, Yu" sort="Zhang, Yu" uniqKey="Zhang Y" first="Yu" last="Zhang">Yu Zhang</name></author><author><name sortKey="Chiu, David" sort="Chiu, David" uniqKey="Chiu D" first="David" last="Chiu">David Chiu</name></author><author><name sortKey="Torres, Alfonso" sort="Torres, Alfonso" uniqKey="Torres A" first="Alfonso" last="Torres">Alfonso Torres</name></author><author><name sortKey="Debroy, Chobi" sort="Debroy, Chobi" uniqKey="Debroy C" first="Chobi" last="Debroy">Chobi Debroy</name></author><author><name sortKey="Whittam, Thomas S" sort="Whittam, Thomas S" uniqKey="Whittam T" first="Thomas S" last="Whittam">Thomas S. Whittam</name></author><author><name sortKey="Chang, Yung Fu" sort="Chang, Yung Fu" uniqKey="Chang Y" first="Yung-Fu" last="Chang">Yung-Fu Chang</name></author></analytic><series><title level="j">Journal of clinical microbiology</title><idno type="ISSN">0095-1137</idno><imprint><date when="2006" type="published">2006</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>DNA, Bacterial (analysis)</term><term>DNA, Bacterial (genetics)</term><term>Escherichia coli (classification)</term><term>Escherichia coli (genetics)</term><term>Escherichia coli (isolation & purification)</term><term>Escherichia coli (pathogenicity)</term><term>Escherichia coli Infections (diagnosis)</term><term>Gene Expression Profiling</term><term>Oligonucleotide Array Sequence Analysis (methods)</term><term>Oligonucleotide Probes</term><term>Virulence</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>ADN bactérien (analyse)</term><term>ADN bactérien (génétique)</term><term>Analyse de profil d'expression de gènes</term><term>Escherichia coli ()</term><term>Escherichia coli (génétique)</term><term>Escherichia coli (isolement et purification)</term><term>Escherichia coli (pathogénicité)</term><term>Infections à Escherichia coli (diagnostic)</term><term>Sondes oligonucléotidiques</term><term>Séquençage par oligonucléotides en batterie ()</term><term>Virulence</term></keywords><keywords scheme="MESH" type="chemical" qualifier="analysis" xml:lang="en"><term>DNA, Bacterial</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>DNA, Bacterial</term></keywords><keywords scheme="MESH" qualifier="analyse" xml:lang="fr"><term>ADN bactérien</term></keywords><keywords scheme="MESH" qualifier="classification" xml:lang="en"><term>Escherichia coli</term></keywords><keywords scheme="MESH" qualifier="diagnosis" xml:lang="en"><term>Escherichia coli Infections</term></keywords><keywords scheme="MESH" qualifier="diagnostic" xml:lang="fr"><term>Infections à Escherichia coli</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Escherichia coli</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>ADN bactérien</term><term>Escherichia coli</term></keywords><keywords scheme="MESH" qualifier="isolation & purification" xml:lang="en"><term>Escherichia coli</term></keywords><keywords scheme="MESH" qualifier="isolement et purification" xml:lang="fr"><term>Escherichia coli</term></keywords><keywords scheme="MESH" qualifier="methods" xml:lang="en"><term>Oligonucleotide Array Sequence Analysis</term></keywords><keywords scheme="MESH" qualifier="pathogenicity" xml:lang="en"><term>Escherichia coli</term></keywords><keywords scheme="MESH" qualifier="pathogénicité" xml:lang="fr"><term>Escherichia coli</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Gene Expression Profiling</term><term>Oligonucleotide Probes</term><term>Virulence</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Analyse de profil d'expression de gènes</term><term>Escherichia coli</term><term>Sondes oligonucléotidiques</term><term>Séquençage par oligonucléotides en batterie</term><term>Virulence</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">To accurately determine the pathotypes of Escherichia coli strains, a comprehensive assessment of each strain that targets multiple genes is required. A new approach to the identification and characterization of E. coli pathotypes was developed by constructing gene-specific probes (70-mers) for not only the virulence genes associated with each E. coli pathotype but also the O157-, CFT073-, and K-12-specific and common genes of each pathotype. Analysis of oligonucleotide probes with reference and clinical isolates of E. coli pathotypes indicated that the array could differentiate the pathotypes on the basis of their virulence and specific gene patterns. Probes targeting common genes of E. coli were present in all the reference and clinical strains. Salmonella enterica subsp. enterica-specific genes and Salmonella core genes were used as negative controls. The entire E. coli pathotype showed reactivity to only 4 of the 81 Salmonella-specific gene probes. Characterization of the genetic and virulence profiles of a single strain by using probes for virulence factors and specific and common genes in the spotted array is an ideal diagnostic tool for determination of E. coli pathotypes and could also have a significant impact on the epidemiological analysis of E. coli infections.</div></front></TEI></record>Pour manipuler ce document sous Unix (Dilib)
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