Sequence-Based Identification of Aspergillus, Fusarium, and Mucorales Species in the Clinical Mycology Laboratory: Where Are We and Where Should We Go from Here?▿
Identifieur interne : 000D88 ( Pmc/Curation ); précédent : 000D87; suivant : 000D89Sequence-Based Identification of Aspergillus, Fusarium, and Mucorales Species in the Clinical Mycology Laboratory: Where Are We and Where Should We Go from Here?▿
Auteurs : S. A. Balajee ; A. M. Borman ; M. E. Brandt ; J. Cano ; M. Cuenca-Estrella ; E. Dannaoui ; J. Guarro ; G. Haase ; C. C. Kibbler ; W. Meyer ; K. O'Donnell ; C. A. Petti ; J. L. Rodriguez-Tudela ; D. Sutton ; A. Velegraki ; B. L. WickesSource :
- Journal of Clinical Microbiology [ 0095-1137 ] ; 2008.
Url:
DOI: 10.1128/JCM.01685-08
PubMed: 19073865
PubMed Central: 2668331
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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Sequence-Based Identification of <italic>Aspergillus, Fusarium</italic>, and <italic>Mucorales</italic> Species in the Clinical Mycology Laboratory: Where Are We and Where Should We Go from Here?<xref ref-type="fn" rid="fn1">▿</xref> </title><author><name sortKey="Balajee, S A" sort="Balajee, S A" uniqKey="Balajee S" first="S. A." last="Balajee">S. A. Balajee</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Borman, A M" sort="Borman, A M" uniqKey="Borman A" first="A. M." last="Borman">A. M. Borman</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Brandt, M E" sort="Brandt, M E" uniqKey="Brandt M" first="M. E." last="Brandt">M. E. Brandt</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Cano, J" sort="Cano, J" uniqKey="Cano J" first="J." last="Cano">J. Cano</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Cuenca Estrella, M" sort="Cuenca Estrella, M" uniqKey="Cuenca Estrella M" first="M." last="Cuenca-Estrella">M. Cuenca-Estrella</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Dannaoui, E" sort="Dannaoui, E" uniqKey="Dannaoui E" first="E." last="Dannaoui">E. Dannaoui</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Guarro, J" sort="Guarro, J" uniqKey="Guarro J" first="J." last="Guarro">J. Guarro</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Haase, G" sort="Haase, G" uniqKey="Haase G" first="G." last="Haase">G. Haase</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Kibbler, C C" sort="Kibbler, C C" uniqKey="Kibbler C" first="C. C." last="Kibbler">C. C. Kibbler</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Meyer, W" sort="Meyer, W" uniqKey="Meyer W" first="W." last="Meyer">W. Meyer</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="O Donnell, K" sort="O Donnell, K" uniqKey="O Donnell K" first="K." last="O'Donnell">K. O'Donnell</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Petti, C A" sort="Petti, C A" uniqKey="Petti C" first="C. A." last="Petti">C. A. Petti</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Rodriguez Tudela, J L" sort="Rodriguez Tudela, J L" uniqKey="Rodriguez Tudela J" first="J. L." last="Rodriguez-Tudela">J. L. Rodriguez-Tudela</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Sutton, D" sort="Sutton, D" uniqKey="Sutton D" first="D." last="Sutton">D. Sutton</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Velegraki, A" sort="Velegraki, A" uniqKey="Velegraki A" first="A." last="Velegraki">A. Velegraki</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Wickes, B L" sort="Wickes, B L" uniqKey="Wickes B" first="B. L." last="Wickes">B. L. Wickes</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">19073865</idno><idno type="pmc">2668331</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2668331</idno><idno type="RBID">PMC:2668331</idno><idno type="doi">10.1128/JCM.01685-08</idno><date when="2008">2008</date><idno type="wicri:Area/Pmc/Corpus">000F27</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Corpus" wicri:corpus="PMC">000F27</idno><idno type="wicri:Area/Pmc/Curation">000D88</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Curation">000D88</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Sequence-Based Identification of <italic>Aspergillus, Fusarium</italic>, and <italic>Mucorales</italic> Species in the Clinical Mycology Laboratory: Where Are We and Where Should We Go from Here?<xref ref-type="fn" rid="fn1">▿</xref> </title><author><name sortKey="Balajee, S A" sort="Balajee, S A" uniqKey="Balajee S" first="S. A." last="Balajee">S. A. Balajee</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Borman, A M" sort="Borman, A M" uniqKey="Borman A" first="A. M." last="Borman">A. M. Borman</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Brandt, M E" sort="Brandt, M E" uniqKey="Brandt M" first="M. E." last="Brandt">M. E. Brandt</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Cano, J" sort="Cano, J" uniqKey="Cano J" first="J." last="Cano">J. Cano</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Cuenca Estrella, M" sort="Cuenca Estrella, M" uniqKey="Cuenca Estrella M" first="M." last="Cuenca-Estrella">M. Cuenca-Estrella</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Dannaoui, E" sort="Dannaoui, E" uniqKey="Dannaoui E" first="E." last="Dannaoui">E. Dannaoui</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Guarro, J" sort="Guarro, J" uniqKey="Guarro J" first="J." last="Guarro">J. Guarro</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Haase, G" sort="Haase, G" uniqKey="Haase G" first="G." last="Haase">G. Haase</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Kibbler, C C" sort="Kibbler, C C" uniqKey="Kibbler C" first="C. C." last="Kibbler">C. C. Kibbler</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Meyer, W" sort="Meyer, W" uniqKey="Meyer W" first="W." last="Meyer">W. Meyer</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="O Donnell, K" sort="O Donnell, K" uniqKey="O Donnell K" first="K." last="O'Donnell">K. O'Donnell</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Petti, C A" sort="Petti, C A" uniqKey="Petti C" first="C. A." last="Petti">C. A. Petti</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Rodriguez Tudela, J L" sort="Rodriguez Tudela, J L" uniqKey="Rodriguez Tudela J" first="J. L." last="Rodriguez-Tudela">J. L. Rodriguez-Tudela</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Sutton, D" sort="Sutton, D" uniqKey="Sutton D" first="D." last="Sutton">D. Sutton</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Velegraki, A" sort="Velegraki, A" uniqKey="Velegraki A" first="A." last="Velegraki">A. Velegraki</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Wickes, B L" sort="Wickes, B L" uniqKey="Wickes B" first="B. L." last="Wickes">B. L. Wickes</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author></analytic><series><title level="j">Journal of Clinical Microbiology</title><idno type="ISSN">0095-1137</idno><idno type="eISSN">1098-660X</idno><imprint><date when="2008">2008</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader></TEI><pmc article-type="editorial"><pmc-comment>The publisher of this article does not allow downloading of the full text in XML form.</pmc-comment>
<front><journal-meta><journal-id journal-id-type="nlm-ta">J Clin Microbiol</journal-id><journal-id journal-id-type="publisher-id">jcm</journal-id><journal-title>Journal of Clinical Microbiology</journal-title><issn pub-type="ppub">0095-1137</issn><issn pub-type="epub">1098-660X</issn><publisher><publisher-name>American Society for Microbiology (ASM)</publisher-name></publisher></journal-meta><article-meta><article-id pub-id-type="pmid">19073865</article-id><article-id pub-id-type="pmc">2668331</article-id><article-id pub-id-type="publisher-id">1685-08</article-id><article-id pub-id-type="doi">10.1128/JCM.01685-08</article-id><article-categories><subj-group subj-group-type="heading"><subject>Guest Commentary</subject></subj-group></article-categories><title-group><article-title>Sequence-Based Identification of <italic>Aspergillus, Fusarium</italic>, and <italic>Mucorales</italic> Species in the Clinical Mycology Laboratory: Where Are We and Where Should We Go from Here?<xref ref-type="fn" rid="fn1">▿</xref> </article-title></title-group><contrib-group><contrib contrib-type="author"><name><surname>Balajee</surname><given-names>S. A.</given-names></name><xref ref-type="aff" rid="aff1">1</xref><xref ref-type="corresp" rid="cor1">*</xref></contrib><contrib contrib-type="author"><name><surname>Borman</surname><given-names>A. M.</given-names></name><xref ref-type="aff" rid="aff1">2</xref></contrib><contrib contrib-type="author"><name><surname>Brandt</surname><given-names>M. E.</given-names></name><xref ref-type="aff" rid="aff1">1</xref></contrib><contrib contrib-type="author"><name><surname>Cano</surname><given-names>J.</given-names></name><xref ref-type="aff" rid="aff1">3</xref></contrib><contrib contrib-type="author"><name><surname>Cuenca-Estrella</surname><given-names>M.</given-names></name><xref ref-type="aff" rid="aff1">4</xref></contrib><contrib contrib-type="author"><name><surname>Dannaoui</surname><given-names>E.</given-names></name><xref ref-type="aff" rid="aff1">5</xref></contrib><contrib contrib-type="author"><name><surname>Guarro</surname><given-names>J.</given-names></name><xref ref-type="aff" rid="aff1">3</xref></contrib><contrib contrib-type="author"><name><surname>Haase</surname><given-names>G.</given-names></name><xref ref-type="aff" rid="aff1">6</xref></contrib><contrib contrib-type="author"><name><surname>Kibbler</surname><given-names>C. C.</given-names></name><xref ref-type="aff" rid="aff1">7</xref></contrib><contrib contrib-type="author"><name><surname>Meyer</surname><given-names>W.</given-names></name><xref ref-type="aff" rid="aff1">8</xref></contrib><contrib contrib-type="author"><name><surname>O'Donnell</surname><given-names>K.</given-names></name><xref ref-type="aff" rid="aff1">9</xref></contrib><contrib contrib-type="author"><name><surname>Petti</surname><given-names>C. A.</given-names></name><xref ref-type="aff" rid="aff1">10</xref></contrib><contrib contrib-type="author"><name><surname>Rodriguez-Tudela</surname><given-names>J. L.</given-names></name><xref ref-type="aff" rid="aff1">4</xref></contrib><contrib contrib-type="author"><name><surname>Sutton</surname><given-names>D.</given-names></name><xref ref-type="aff" rid="aff1">11</xref></contrib><contrib contrib-type="author"><name><surname>Velegraki</surname><given-names>A.</given-names></name><xref ref-type="aff" rid="aff1">12</xref></contrib><contrib contrib-type="author"><name><surname>Wickes</surname><given-names>B. L.</given-names></name><xref ref-type="aff" rid="aff1">13</xref></contrib></contrib-group><aff id="aff1">Mycotic Diseases Branch, Centers for Disease Control and Prevention, Atlanta, Georgia,<label>1</label> Mycology Reference Laboratory, Health Protection Agency, Bristol, United Kingdom,<label>2</label> Unitat de Microbiologia, Facultat de Medicina, Universitat Rovira i Virgili, Reus, Spain,<label>3</label> Mycology Reference Laboratory, National Centre for Microbiology, Instituto de Salud Carlos III, Madrid, Spain,<label>4</label> Centre National de Référence Mycologie et Antifongiques, Unité de Mycologie Moléculaire, CNRS URA3012, Institut Pasteur, Paris, France,<label>5</label> Institute of Microbiology, University Hospital, RWTH Aachen, 52074 Aachen, Germany,<label>6</label> Centre for Medical Microbiology, University College London, London, United Kingdom,<label>7</label> Molecular Mycology Research Laboratory, Centre for Infectious Diseases and Microbiology, University of Sydney, Western Clinical School at Westmead Hospital, Westmead Millennium Institute, Westmead, NSW 2145, Australia,<label>8</label> Microbial Genomics and Bioprocessing Research Unit, NCAUR-ARS-USDA, Peoria, Illinois,<label>9</label> Departments of Medicine and Pathology, University of Utah School of Medicine, Salt Lake City, Utah,<label>10</label> Department of Pathology, The University of Texas Health Science Center at San Antonio, San Antonio, Texas,<label>11</label> Mycology Laboratory, Department of Microbiology, Medical School, National and Kapodistrian University of Athens, Athens, Greece,<label>12</label> Department of Microbiology and Immunology, The University of Texas Health Science Center at San Antonio, San Antonio, Texas<label>13</label></aff><author-notes><fn id="cor1"><label>*</label><p>Corresponding author. Mailing address: Mycotic Diseases Branch, Centers for Disease Control and Prevention, Mail Stop G 11, 1600 Clifton Road, Atlanta, GA 30333. Phone: (404) 639 3337. Fax: (404) 639-3546. E-mail: <email>fir3@cdc.gov</email></p></fn></author-notes><pub-date pub-type="ppub"><month>4</month><year>2009</year></pub-date><pub-date pub-type="epub"><day>10</day><month>12</month><year>2008</year></pub-date><volume>47</volume><issue>4</issue><fpage>877</fpage><lpage>884</lpage><permissions><copyright-statement>Copyright © 2009, American Society for Microbiology</copyright-statement></permissions><self-uri xlink:title="pdf" xlink:href="zjm00409000877.pdf"></self-uri></article-meta><notes><fn-group><fn><p><italic>The views expressed in this Commentary do not necessarily reflect the views of the journal or of ASM</italic>.</p></fn></fn-group></notes></front><floats-wrap><fig position="float" id="f1"><label>FIG. 1.</label><caption><p>RNA polymerase II second largest subunit (<italic>RPB2</italic>) phylogeny of <italic>Fusarium</italic> (modified from Fig. 1 in reference <xref ref-type="bibr" rid="r30">30</xref>), showing the utility of DNA sequence data from various loci for resolving at or near the species level within six medically important species complexes. GFSC, <italic>Gibberella fujikuroi</italic> species complex; FOSC, <italic>Fusarium oxysporum</italic> species complex; FIESC, <italic>Fusarium incarnatum-equiseti</italic> species complex; FCSC, <italic>Fusarium chlamydosporum</italic> species complex; FSSC, <italic>Fusarium solani</italic> species complex; FDSC, <italic>Fusarium dimerum</italic> species complex. Loci include <italic>EF-1</italic>α (translation elongation factor), β-<italic>TUB</italic> (β-tubulin), and <italic>CAM</italic> (calmodulin). Numbers above the internodes represent the frequency (%) with which they were recovered from 1,000 bootstrap replicates of the data. A sequence of <italic>Lecanicillium lecanii</italic> was used to root the phylogeny.</p></caption><graphic xlink:href="zjm0040988090001"></graphic></fig><fig position="float" id="f2"><label>FIG. 2.</label><caption><p>An algorithm for identification of an unknown filamentous fungal species in a clinical microbiology laboratory. *, many factors affect percent identity scores including quality and length of query sequence and the number and accuracy of existing GenBank records for same species and locus. +, identification to species level within the <italic>Aspergillus</italic> and <italic>Fusarium</italic> complex can be achieved by comparative sequence analyses of protein coding regions.</p></caption><graphic xlink:href="zjm0040988090002"></graphic></fig></floats-wrap></pmc></record>Pour manipuler ce document sous Unix (Dilib)
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