Errors in ribosomal sequence datasets generated using PCR-coupled 'panbacterial' pyrosequencing, and the establishment of an improved approach

Erica M. Prosdocimi, Stefano Novati, Raffaele Bruno, Claudio Bandi, Patrizia Mulatto, Riccardo Giannico, Maurizio Casiraghi, Emanuele Ferri

Research output: Contribution to journalArticle

9 Citations (Scopus)

Abstract

Universal bacterial primers are often used in PCR-coupled sequencing approaches to investigate environmental and host-associated bacterial communities. Some of these primers can also amplify eukaryotic DNA. This is leading to the submission of datasets to public databases which are erroneously annotated as prokaryotic sequences. The present note sends a message about the risk of submitting incorrectly annotated sequence data and suggests a reliable approach for the sequencing of 16S rRNA genes and identification of bacteria within complex communities.

Original languageEnglish
Pages (from-to)65-67
Number of pages3
JournalMolecular and Cellular Probes
Volume27
Issue number1
DOIs
Publication statusPublished - Feb 2013

Fingerprint

rRNA Genes
Databases
Bacteria
Polymerase Chain Reaction
DNA
Datasets

Keywords

  • 16S
  • 18S
  • Bacterial identification
  • Database errors
  • Next-generation sequencing (NGS)
  • Ribosomal RNA

ASJC Scopus subject areas

  • Cell Biology
  • Molecular Biology

Cite this

Errors in ribosomal sequence datasets generated using PCR-coupled 'panbacterial' pyrosequencing, and the establishment of an improved approach. / Prosdocimi, Erica M.; Novati, Stefano; Bruno, Raffaele; Bandi, Claudio; Mulatto, Patrizia; Giannico, Riccardo; Casiraghi, Maurizio; Ferri, Emanuele.

In: Molecular and Cellular Probes, Vol. 27, No. 1, 02.2013, p. 65-67.

Research output: Contribution to journalArticle

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