Pooled samples bias fungal community descriptions

P. G. Avis, S. Branco, Y. Tang, G. M. Mueller

Research output: Contribution to journalArticle

23 Scopus citations

Abstract

We tested the accuracy of molecular analyses for recovering the species richness and structure of pooled fungal communities of known composition. We constructed replicate pools of 2-20 species and analysed these pools by two separate pooling-DNA extraction procedures and three different molecular analyses (Automated Ribosomal Intergenic Spacer Analysis (ARISA), terminal restriction fragment length polymorphism (T-RFLP) and clone library-sequencing). None of the methods correctly described the known communities. Only clone library-sequencing with high sequencing per pool (∼100 clones) recovered reasonable estimates of richness. Frequency data were skewed with all procedures and analyses. These results indicate that the error introduced by pooling samples is significant and problematic for ecological studies of fungal communities.

Original languageEnglish (US)
Pages (from-to)135-141
Number of pages7
JournalMolecular Ecology Resources
Volume10
Issue number1
DOIs
StatePublished - Jan 1 2010

Keywords

  • ARISA
  • Clone sequence
  • Environmental sample
  • Fungi
  • Pooled samples
  • T-RFLP

ASJC Scopus subject areas

  • Biotechnology
  • Ecology, Evolution, Behavior and Systematics
  • Genetics

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