Contaminations contaminate common databases

Research output: Contribution to journalArticle

Abstract

The polymerase chain reaction (PCR) is a very powerful method to detect and identify pathogens. The high sensitivity of the method, however, comes with a cost; any of the millions of artificial DNA copies generated by PCR can serve as a template in a following experiment. If not identified as contaminations, these may result in erroneous conclusions on the occurrence of the pathogen, thereby inflating estimates of host range and geographic distribution. In the present paper, we evaluate whether several published records of avian haemosporidian parasites, in either unusual host species or geographical regions, might stem from PCR contaminations rather than novel biological findings. The detailed descriptions of these cases are shedding light upon the steps in the work process that might lead to PCR contaminations. By increasing the awareness of this problem, it will aid in developing procedures that keep these to a minimum. The examples in the present paper are from haemosporidians of birds, however the problem of contaminations and suggested actions should apply generally to all kinds of PCR-based identifications, not just of parasites and pathogens.

Details

Authors
  • Staffan Bensch
  • Mizue Inumaru
  • Yukita Sato
  • Larisa Lee Cruz
  • Andrew A. Cunningham
  • Simon J. Goodman
  • Iris I. Levin
  • Patricia G. Parker
  • Patricia Casanueva
  • Maria Angeles Hernández
  • Gregorio Moreno-Rueda
  • Maria Angeles Rojo
Organisations
External organisations
  • Nihon University
  • University of Leeds
  • Zoological Society of London
  • Kenyon College
  • University of Missouri-St. Louis
  • European University Miguel de Cervantes
  • University of Navarra
  • University of Granada
Research areas and keywords

Subject classification (UKÄ) – MANDATORY

  • Bioinformatics and Systems Biology
  • Ecology
  • Zoology

Keywords

  • Haemoproteus, haemosporidian parasites, PCR contamination, plasmodium, sequence databases
Original languageEnglish
Pages (from-to)355-362
JournalMolecular Ecology Resources
Volume21
Issue number2
Early online date2020 Oct 9
Publication statusPublished - 2021
Publication categoryResearch
Peer-reviewedYes