PMID- 19896986
OWN - NLM
STAT- MEDLINE
DCOM- 20100301
LR  - 20191210
IS  - 1872-8359 (Electronic)
IS  - 0167-7012 (Linking)
VI  - 80
IP  - 1
DP  - 2010 Jan
TI  - Development of a molecular approach to describe the composition of Trichoderma 
      communities.
PG  - 63-9
LID - 10.1016/j.mimet.2009.11.001 [doi]
AB  - 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 
      650bp 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.
CI  - Copyright 2009 Elsevier B.V. All rights reserved.
FAU - Meincke, Remo
AU  - Meincke R
AD  - Environmental Biotechnology, Graz University of Technology, Petersgasse 12, 
      A-8010 Graz, Austria.
FAU - Weinert, Nicole
AU  - Weinert N
FAU - Radl, Viviane
AU  - Radl V
FAU - Schloter, Michael
AU  - Schloter M
FAU - Smalla, Kornelia
AU  - Smalla K
FAU - Berg, Gabriele
AU  - Berg G
LA  - eng
PT  - Evaluation Study
PT  - Journal Article
PT  - Research Support, Non-U.S. Gov't
DEP - 20091106
PL  - Netherlands
TA  - J Microbiol Methods
JT  - Journal of microbiological methods
JID - 8306883
RN  - 0 (DNA Primers)
RN  - 0 (DNA, Fungal)
SB  - IM
MH  - Biodiversity
MH  - DNA Fingerprinting/*methods
MH  - DNA Primers/genetics
MH  - DNA, Fungal/genetics
MH  - Molecular Sequence Data
MH  - Mycological Typing Techniques/*methods
MH  - Phylogeny
MH  - *Soil Microbiology
MH  - Solanum tuberosum/microbiology
MH  - Trichoderma/classification/genetics/*isolation & purification
EDAT- 2009/11/10 06:00
MHDA- 2010/03/02 06:00
CRDT- 2009/11/10 06:00
PHST- 2009/07/14 00:00 [received]
PHST- 2009/11/02 00:00 [revised]
PHST- 2009/11/02 00:00 [accepted]
PHST- 2009/11/10 06:00 [entrez]
PHST- 2009/11/10 06:00 [pubmed]
PHST- 2010/03/02 06:00 [medline]
AID - S0167-7012(09)00352-2 [pii]
AID - 10.1016/j.mimet.2009.11.001 [doi]
PST - ppublish
SO  - J Microbiol Methods. 2010 Jan;80(1):63-9. doi: 10.1016/j.mimet.2009.11.001. Epub 
      2009 Nov 6.