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UPARSE: highly accurate OTU sequences from microbial amplicon reads.

Nature Methods

Software, Sensitivity and Specificity, Research Design, genetics, RNA, Ribosomal, 16S, Phylogeny, Microbiota, Metagenomics, Humans, Databases, Genetic, Algorithms

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      Abstract

      Amplified marker-gene sequences can be used to understand microbial community structure, but they suffer from a high level of sequencing and amplification artifacts. The UPARSE pipeline reports operational taxonomic unit (OTU) sequences with ≤1% incorrect bases in artificial microbial community tests, compared with >3% incorrect bases commonly reported by other methods. The improved accuracy results in far fewer OTUs, consistently closer to the expected number of species in a community.

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      Journal
      10.1038/nmeth.2604
      23955772

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