Development of a molecular approach to describe the composition of Trichoderma communities

Remo Meincke, Nicole Weinert, Viviane Radl, Michael Schloter, Kornelia Smalla, Gabriele Berg

Research output: Contribution to journalArticlepeer-review

32 Scopus citations

Abstract

Trichoderma and its teleomorphic stage Hypocrea play a key role for ecosystem functioning in terrestrial habitats. However, little is known about the ecology of the fungus. In this study we developed a novel Trichoderma-specific primer pair for diversity analysis. Based on a broad range master alignment, specific Trichoderma primers (ITSTrF/ITSTrR) were designed that comprise an approximate 650 bp fragment of the internal transcribed spacer region from all taxonomic clades of the genus Trichoderma. This amplicon is suitable for identification with TrichoKey and TrichoBLAST. Moreover, this primer system was successfully applied to study the Trichoderma communities in the rhizosphere of different potato genotypes grown at two field sites in Germany. Cloning and sequencing confirmed the specificity of the primer and revealed a site-dependent Trichoderma composition. Based on the new primer system a semi-nested approach was used to generate amplicons suitable for denaturing gradient gel electrophoresis (DGGE) analysis and applied to analyse Trichoderma communities in the rhizosphere of potatoes. High field heterogeneity of Trichoderma communities was revealed by both DGGE. Furthermore, qPCR showed significantly different Trichoderma copy numbers between the sites.

Original languageEnglish
Pages (from-to)63-69
Number of pages7
JournalJournal of Microbiological Methods
Volume80
Issue number1
DOIs
StatePublished - Jan 2010
Externally publishedYes

Keywords

  • Diversity
  • ITS region
  • Rhizosphere
  • Trichoderma

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