Abstract
Filamentous fungal infections have recently increased because of the increasing numbers of immunocompromised hosts. In this study, we evaluated DNA sequencing of the D1/D2 region of the large subunit of the 28S ribosomal RNA gene and the internal transcribed spacer (ITS) region using SmartGene (SG; SmartGene Inc., Raleigh, NC) for the identification of a broad range of commonly encountered filamentous fungi. The SG proofreaders were used to upload, align, and edit fragments, and the resultant sequences were interpreted using the quality-controlled SG database. The results were compared with reference identifications using conventional phenotypic methods or ITS DNA sequences obtained from GenBank if phenotypic identifications were inconclusive. A total of 146 clinical isolates were included in this study, representing 49 different genera. The overall agreements of the D1/D2 and the ITS sequencing methods to reference identification were 97.2% (95% CI, 93.1% to 98.9%) and 97.7% (95% CI, 92.8% to 99.4%), respectively. Of the 146 isolates, 18 (12.3%) did not amplify using the ITS universal primers after repeated attempts and, therefore, could not be sequenced using this target. Correct identification was achieved for 100% (95% CI, ...Continue Reading
References
Apr 22, 1999·Medical Education·R B Sutton
Apr 17, 2001·Clinical Infectious Diseases : an Official Publication of the Infectious Diseases Society of America·J W BaddleyP G Pappas
Oct 29, 2002·Infection Control and Hospital Epidemiology : the Official Journal of the Society of Hospital Epidemiologists of America·Gonzalo BearmanGianna Zuccotti
Feb 8, 2003·Mycoses·G S de Hoog, R Horré
Feb 10, 2004·Journal of Clinical Microbiology·Leslie HallGlenn D Roberts
May 6, 2005·Journal of Clinical Microbiology·Hans P HinriksonChristine J Morrison
Jan 5, 2006·Journal of Clinical Microbiology·D E CiardoP P Bosshard
Sep 7, 2006·Journal of Clinical Microbiology·Michael BoudewijnsWillem J G Melchers
Dec 1, 2006·Journal of Clinical Microbiology·June I PounderCathy A Petti
Dec 26, 2006·Expert Review of Molecular Diagnostics·Virginia VerdaguerKaroll J Cortez
Aug 2, 2007·Biological & Pharmaceutical Bulletin·Toshiyuki AtsumiMasayuki Mikage
Aug 22, 2007·Medical Mycology·S Arunmozhi BalajeeMary E Brandt
Feb 23, 2008·Current Eye Research·R BagyalakshmiH N Madhavan
Mar 8, 2008·Medical Mycology·Anuradha ChowdharyGeetika Khanna
Apr 12, 2008·Medical Mycology·J S Zeng, G S De Hoog
Apr 24, 2008·Clinical Microbiology and Infection : the Official Publication of the European Society of Clinical Microbiology and Infectious Diseases·H Einsele, J Loeffler
May 21, 2008·Studies in Mycology·S A BalajeeR A Samson
Dec 17, 2008·Journal of Clinical Microbiology·S A BalajeeB L Wickes
Jan 1, 2009·Clinical Infectious Diseases : an Official Publication of the Infectious Diseases Society of America·D NeofytosK Marr
Jul 31, 2009·Journal of Clinical Microbiology·Vincent C C ChengK Y Yuen
Dec 17, 2009·European Journal of Haematology·Pranatharthi Chandrasekar
Jan 1, 2010·Journal of Clinical Microbiology·Anna M RomanelliBrian L Wickes
Jan 22, 2010·Critical Reviews in Microbiology·Michael A Pfaller, Daniel J Diekema
Feb 2, 2010·Transplant Infectious Disease : an Official Journal of the Transplantation Society·D NeofytosK A Marr
Mar 12, 2010·Clinical Infectious Diseases : an Official Publication of the Infectious Diseases Society of America·Dimitrios P KontoyiannisPeter G Pappas
Jun 25, 2010·Journal of Clinical Microbiology·Diana E CiardoErik C Böttger
Citations
Jul 6, 2014·Diseases of Aquatic Organisms·Kathryn A TuxburyJoseph L Mankowski
Oct 28, 2015·International Journal of Molecular Sciences·Ying ZhaoPatrick C Y Woo
May 31, 2015·Medical Mycology·Anshula AmbastaDeirdre L Church
Nov 26, 2015·PloS One·Mateus Laguardia-NascimentoEdel Figueiredo Barbosa-Stancioli
Jun 17, 2016·Journal of Wildlife Diseases·David PerpiñánDebra L Miller
Aug 28, 2014·PloS One·Ramón Alberto Batista-GarcíaJorge Folch-Mallol
Sep 7, 2014·Journal of Microbiological Methods·Guillaume DesoubeauxPhilippe Lanotte
Sep 27, 2016·Biocontrol Science·Fuyuki Aoyama, Takahisa Miyamoto
Feb 6, 2017·Journal of Infection and Chemotherapy : Official Journal of the Japan Society of Chemotherapy·Hiram Villanueva-LozanoGloria M González
Jan 20, 2017·Journal of Clinical Microbiology·Gina HongSean X Zhang
Nov 30, 2018·Journal of Clinical Microbiology·Daniel B WoodburnKaren A Terio
Aug 31, 2019·Brazilian Journal of Microbiology : [publication of the Brazilian Society for Microbiology]·Silvia Giannattasio-FerrazEdel Figueiredo Barbosa-Stancioli
May 30, 2017·Antonie van Leeuwenhoek·Romina Daiana FernandezRoxana Aragón
Sep 11, 2020·Clinical Microbiology Reviews·Deirdre L ChurchStefan Emler
Oct 23, 2019·BMC Veterinary Research·Grazieli MaboniSusan Sanchez
May 1, 2021·Pathogens·Kamila KuleszaŁukasz Stępień
Oct 12, 2016·Microbiology Spectrum·Sean X Zhang, Nathan P Wiederhold