Genomics Inform.
2018 Dec;16(4):e24. 10.5808/GI.2018.16.4.e24.
Evaluation of 16S rRNA Databases for Taxonomic Assignments Using a Mock Community
- Affiliations
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- 1Institute of Health and Environment, Seoul National University, Seoul 08826, Korea. won1@snu.ac.kr
- 2Interdisciplinary Program in Bioinformatics, Seoul National University, Seoul 08826, Korea.
- 3Department of Public Health Sciences, Seoul National University, Seoul 08826, Korea.
- KMID: 2439214
- DOI: http://doi.org/10.5808/GI.2018.16.4.e24
Abstract
- Taxonomic identification is fundamental to all microbiology studies. Particularly in metagenomics, which identifies 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 show that EzBioCloud performs well compared with other existing databases.
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