The OTU benchmark uses 454 Titanium and Illumina MiSeq reads of Even and Staggered mock communities used for protocol development in the Human Microbiome Project (HMP). USEARCH results were obtained with the same parameters for all samples. The number of reads per sample ranges from 10,000 (Titanium) to two million (MiSeq). The accuracy of UPARSE was compared to recommended procedures (Sept. 2012) for mothur, QIIME and AmpliconNoise.
|Accuracy measure||Summary||Detailed results
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Are OTUs accurate reconstructions of biological sequences?
Most USEARCH OTUs are >=99% identical to a biological sequence.
Most QIIME, mothur and AmpliconNoise OTUs are >3% diverged from a biological sequence. Roughly half are chimeric.
Does the number of OTUs correspond to the number of species?
USEARCH generated from 0.8 to 1.0 OTUs per detectable species.
Mothur and AmpliconNoised produced 2.3x to 6.7x more OTUs than species.
QIIME produced thousands of OTUs, far more than the number of species.