Sequence-based identification of gram negative nonfermenters using commercial 16S rDNA databases

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Publication Type Poster
School or College School of Medicine
Department Pathology
Program ARUP Institute for Clinical and Experimental Pathology
Creator Cloud, Joann L.; Dunn, Jim; Hoggan, Karen; Wilson, Deborah; Iwen, Peter; Lasala, Paul; Hall, Geri; Woods, Gail L.
Title Sequence-based identification of gram negative nonfermenters using commercial 16S rDNA databases
Date 2005-08-29
Description This poster presents a study assessing the validity of the databases from two commercial systems were compared for the identification of NF. Background: Identification of gram negative nonfermenters (NF) from cultured human specimens is often difficult using traditional phenotypic methods. Partial 16S rDNA sequencing to identify NF depends on the completeness of the comparative database. Public databases lack quality control, but are routinely updated as sequences are published. Commercial databases are often incomplete and lack routine updates. In this study, the validity of the databases from two commercial systems were compared for the identification of NF. Methods: 100 NF clinical isolates identified by phenotypic methods were included. The 16S rDNA sequence for the first 500 bases was determined for each isolate. Consensus sequences were compared to the MicroSeq500 (Applied Biosystems) and Virodec (Roche Diagnostics) databases.
Type Text
Publisher Associated and Regional University Pathologists (ARUP) Institute for Clinical and Experimental Pathology
Subject MicroSeq500; Virodec
Subject LCSH DNA; DNA data banks; Human gene libraries; Nocardia; Phenotype; Phylogeny; RNA
Subject MESH DNA, Ribosomal; Databases, Factual; Gene Library; Nocardia; Phenotype; Phylogeny; RNA, Ribosomal, 16S
Language eng
Rights Management http://creativecommons.org/licenses/by-nc-nd/2.5/
Format Medium application/pdf
Format Extent 1,675,075 bytes
Identifier ir-main,178
ARK ark:/87278/s6kw60m3
Setname ir_uspace
Date Created 2012-06-13
Date Modified 2012-06-13
ID 706461
Reference URL https://collections.lib.utah.edu/ark:/87278/s6kw60m3
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