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Genomics Inform > Volume 16(4); 2018 > Article
DOI: https://doi.org/10.5808/GI.2018.16.4.e24    Published online December 28, 2018.
Evaluation of 16S rRNA Databases for Taxonomic Assignments Using Mock Community
Sang-Cheol Park1, Sungho Won1,2,3
1Institute of Health and Environment, Seoul National University, Seoul 08826, Korea
2Interdisciplinary Program in Bioinformatics, Seoul National University, Seoul 08826, Korea
3Department of Public Health Sciences, Seoul National University, Seoul 08826, Korea
Corresponding author:  Sungho Won
Email: won1@snu.ac.kr
Received: November 15, 2018   Revised: December 13, 2018   Accepted: December 16, 2018
Abstract
Taxonomy identification is fundamental to all microbiology studies. Particularly in metagenomics, which identify the composition of microorganisms using thousands of sequences, its importance is even greater. Identification is inevitably affected by the choice of database. This study was conducted to evaluate the accuracy of three widely used 16S databases, Greengenes, Silva, and EzBioCloud, and to suggest basic guidelines for selecting reference databases. Using public mock community data, each database was used to assign taxonomy and to test its accuracy. We showed that EzBioCloud performs well compared to other existing databases.
Keywords: 16S rRNA database, evaluation, accuracy, taxonomy, identification
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