Accurate differentiation of Escherichia coli and Shigella serogroups: challenges and strategies
Identifieur interne : 000934 ( Pmc/Checkpoint ); précédent : 000933; suivant : 000935Accurate differentiation of Escherichia coli and Shigella serogroups: challenges and strategies
Auteurs : N. K. Devanga Ragupathi ; D. P. Muthuirulandi Sethuvel ; F. Y. Inbanathan ; B. VeeraraghavanSource :
- New Microbes and New Infections [ 2052-2975 ] ; 2017.
Abstract
Url:
DOI: 10.1016/j.nmni.2017.09.003
PubMed: 29204286
PubMed Central: 5711669
Affiliations:
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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Accurate differentiation of <italic>Escherichia coli</italic> and <italic>Shigella</italic> serogroups: challenges and strategies</title><author><name sortKey="Devanga Ragupathi, N K" sort="Devanga Ragupathi, N K" uniqKey="Devanga Ragupathi N" first="N. K." last="Devanga Ragupathi">N. K. Devanga Ragupathi</name></author><author><name sortKey="Muthuirulandi Sethuvel, D P" sort="Muthuirulandi Sethuvel, D P" uniqKey="Muthuirulandi Sethuvel D" first="D. P." last="Muthuirulandi Sethuvel">D. P. Muthuirulandi Sethuvel</name></author><author><name sortKey="Inbanathan, F Y" sort="Inbanathan, F Y" uniqKey="Inbanathan F" first="F. Y." last="Inbanathan">F. Y. Inbanathan</name></author><author><name sortKey="Veeraraghavan, B" sort="Veeraraghavan, B" uniqKey="Veeraraghavan B" first="B." last="Veeraraghavan">B. Veeraraghavan</name></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">29204286</idno><idno type="pmc">5711669</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5711669</idno><idno type="RBID">PMC:5711669</idno><idno type="doi">10.1016/j.nmni.2017.09.003</idno><date when="2017">2017</date><idno type="wicri:Area/Pmc/Corpus">001391</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Corpus" wicri:corpus="PMC">001391</idno><idno type="wicri:Area/Pmc/Curation">001391</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Curation">001391</idno><idno type="wicri:Area/Pmc/Checkpoint">000934</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Checkpoint">000934</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Accurate differentiation of <italic>Escherichia coli</italic> and <italic>Shigella</italic> serogroups: challenges and strategies</title><author><name sortKey="Devanga Ragupathi, N K" sort="Devanga Ragupathi, N K" uniqKey="Devanga Ragupathi N" first="N. K." last="Devanga Ragupathi">N. K. Devanga Ragupathi</name></author><author><name sortKey="Muthuirulandi Sethuvel, D P" sort="Muthuirulandi Sethuvel, D P" uniqKey="Muthuirulandi Sethuvel D" first="D. P." last="Muthuirulandi Sethuvel">D. P. Muthuirulandi Sethuvel</name></author><author><name sortKey="Inbanathan, F Y" sort="Inbanathan, F Y" uniqKey="Inbanathan F" first="F. Y." last="Inbanathan">F. Y. Inbanathan</name></author><author><name sortKey="Veeraraghavan, B" sort="Veeraraghavan, B" uniqKey="Veeraraghavan B" first="B." last="Veeraraghavan">B. Veeraraghavan</name></author></analytic><series><title level="j">New Microbes and New Infections</title><idno type="eISSN">2052-2975</idno><imprint><date when="2017">2017</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p><italic>Shigella</italic> spp. and <italic>Escherichia coli</italic> are closely related; both belong to the family <italic>Enterobacteriaceae.</italic> Phenotypically, <italic>Shigella</italic> spp. and <italic>E. coli</italic> share many common characteristics, yet they have separate entities in epidemiology and clinical disease, which poses a diagnostic challenge. We collated information for the best possible approach to differentiate clinically relevant <italic>E. coli</italic> from <italic>Shigella</italic> spp. We found that a molecular approach is required for confirmation. High discriminatory potential is seen with whole genome sequencing analysed for k-mers and single nucleotide polymorphism. Among these, identification using single nucleotide polymorphism is easy to perform and analyse, and it thus appears more promising. Among the nonmolecular methods, matrix-assisted desorption ionization–time of flight mass spectrometry may be applicable when data analysis is assisted with advanced analytic tools.</p></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Brenner, D J" uniqKey="Brenner D">D.J. Brenner</name></author><author><name sortKey="Fanning, G R" uniqKey="Fanning G">G.R. Fanning</name></author><author><name sortKey="Steigerwalt, A G" uniqKey="Steigerwalt A">A.G. Steigerwalt</name></author><author><name sortKey="Orskov, I" uniqKey="Orskov I">I. Orskov</name></author><author><name sortKey="Orskov, F" uniqKey="Orskov F">F. 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<front><journal-meta><journal-id journal-id-type="nlm-ta">New Microbes New Infect</journal-id><journal-id journal-id-type="iso-abbrev">New Microbes New Infect</journal-id><journal-title-group><journal-title>New Microbes and New Infections</journal-title></journal-title-group><issn pub-type="epub">2052-2975</issn><publisher><publisher-name>Elsevier</publisher-name></publisher></journal-meta><article-meta><article-id pub-id-type="pmid">29204286</article-id><article-id pub-id-type="pmc">5711669</article-id><article-id pub-id-type="publisher-id">S2052-2975(17)30074-4</article-id><article-id pub-id-type="doi">10.1016/j.nmni.2017.09.003</article-id><article-categories><subj-group subj-group-type="heading"><subject>Mini-Review</subject></subj-group></article-categories><title-group><article-title>Accurate differentiation of <italic>Escherichia coli</italic> and <italic>Shigella</italic> serogroups: challenges and strategies</article-title></title-group><contrib-group><contrib contrib-type="author"><name><surname>Devanga Ragupathi</surname><given-names>N.K.</given-names></name></contrib><contrib contrib-type="author"><name><surname>Muthuirulandi Sethuvel</surname><given-names>D.P.</given-names></name></contrib><contrib contrib-type="author"><name><surname>Inbanathan</surname><given-names>F.Y.</given-names></name></contrib><contrib contrib-type="author"><name><surname>Veeraraghavan</surname><given-names>B.</given-names></name><email>vbalaji@cmcvellore.ac.in</email><xref rid="cor1" ref-type="corresp">∗</xref></contrib></contrib-group><aff id="aff1">Department of Clinical Microbiology, Christian Medical College, Vellore, India</aff><author-notes><corresp id="cor1"><label>∗</label>Corresponding author. B. Veeraraghavan, Department of Clinical Microbiology, Christian Medical College, Vellore 4, IndiaDepartment of Clinical MicrobiologyChristian Medical CollegeVellore4India <email>vbalaji@cmcvellore.ac.in</email></corresp></author-notes><pub-date pub-type="pmc-release"><day>23</day><month>9</month><year>2017</year></pub-date><pmc-comment> PMC Release delay is 0 months and 0 days and was based on .</pmc-comment>
<pub-date pub-type="collection"><month>1</month><year>2018</year></pub-date><pub-date pub-type="epub"><day>23</day><month>9</month><year>2017</year></pub-date><volume>21</volume><fpage>58</fpage><lpage>62</lpage><history><date date-type="received"><day>28</day><month>6</month><year>2017</year></date><date date-type="rev-recd"><day>7</day><month>9</month><year>2017</year></date><date date-type="accepted"><day>19</day><month>9</month><year>2017</year></date></history><permissions><copyright-statement>© 2017 The Authors</copyright-statement><copyright-year>2017</copyright-year><license license-type="CC BY-NC-ND" xlink:href="http://creativecommons.org/licenses/by-nc-nd/4.0/"><license-p>This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).</license-p></license></permissions><abstract id="abs0010"><p><italic>Shigella</italic> spp. and <italic>Escherichia coli</italic> are closely related; both belong to the family <italic>Enterobacteriaceae.</italic> Phenotypically, <italic>Shigella</italic> spp. and <italic>E. coli</italic> share many common characteristics, yet they have separate entities in epidemiology and clinical disease, which poses a diagnostic challenge. We collated information for the best possible approach to differentiate clinically relevant <italic>E. coli</italic> from <italic>Shigella</italic> spp. We found that a molecular approach is required for confirmation. High discriminatory potential is seen with whole genome sequencing analysed for k-mers and single nucleotide polymorphism. Among these, identification using single nucleotide polymorphism is easy to perform and analyse, and it thus appears more promising. Among the nonmolecular methods, matrix-assisted desorption ionization–time of flight mass spectrometry may be applicable when data analysis is assisted with advanced analytic tools.</p></abstract><kwd-group id="kwrds0010"><title>Keywords</title><kwd>16S rRNA</kwd><kwd>k-mer</kwd><kwd>MALDI-TOF MS</kwd><kwd>single nucleotide polymorphism</kwd><kwd>whole genome sequencing</kwd></kwd-group></article-meta></front></pmc><affiliations><list></list><tree><noCountry><name sortKey="Devanga Ragupathi, N K" sort="Devanga Ragupathi, N K" uniqKey="Devanga Ragupathi N" first="N. K." last="Devanga Ragupathi">N. K. Devanga Ragupathi</name><name sortKey="Inbanathan, F Y" sort="Inbanathan, F Y" uniqKey="Inbanathan F" first="F. Y." last="Inbanathan">F. Y. Inbanathan</name><name sortKey="Muthuirulandi Sethuvel, D P" sort="Muthuirulandi Sethuvel, D P" uniqKey="Muthuirulandi Sethuvel D" first="D. P." last="Muthuirulandi Sethuvel">D. P. Muthuirulandi Sethuvel</name><name sortKey="Veeraraghavan, B" sort="Veeraraghavan, B" uniqKey="Veeraraghavan B" first="B." last="Veeraraghavan">B. Veeraraghavan</name></noCountry></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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