Accurate determination of microbial diversity from 454 pyrosequencing data

Nat Methods. 2009 Sep;6(9):639-41. doi: 10.1038/nmeth.1361. Epub 2009 Aug 9.


We present an algorithm, PyroNoise, that clusters the flowgrams of 454 pyrosequencing reads using a distance measure that models sequencing noise. This infers the true sequences in a collection of amplicons. We pyrosequenced a known mixture of microbial 16S rDNA sequences extracted from a lake and found that without noise reduction the number of operational taxonomic units is overestimated but using PyroNoise it can be accurately calculated.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Algorithms
  • Bacteria / genetics*
  • Genetic Variation*
  • Models, Genetic
  • Polymerase Chain Reaction
  • RNA, Bacterial / genetics
  • RNA, Ribosomal, 16S / genetics
  • Sequence Analysis, DNA / methods*
  • Software


  • RNA, Bacterial
  • RNA, Ribosomal, 16S