Iranian Journal of Plant Protection Science

Iranian Journal of Plant Protection Science

The comparison of ITS-rDNA and tef1α genomic regions for phylogenetic study of some Trichoderma Species

Document Type : Research Paper

Authors
Mehdi Mehrabi-Koushki
Maryam Bavarsad
Reza Farrokhinejad
Mehdi Jamshidi
Ashkan Alimohammadi
Department of Plant Protection, Faculty of Agriculture, Shahid Chamran University of Ahvaz, Ahvaz, Iran
10.22059/ijpps.2016.59290
Abstract
Genus Trichoderma is a monophyletic fungus which some their species is known as biocontrol agent. This study was carried out for phylogenetic analysis of some isolates of the genus Trichoderma. In this study 73 sequences (including 33 sequences from T. aspereluum, T. brevicompactum, T. capillare, T. harzianum, T. koningiopsis, T. pleuroticola and T. virens and 40 sequences obtained from GeneBank and ISTH) were used in phylogenetic analysis. The biomass of isolates grown in PDB was harvested by filter paper. The genomic DNA was extracted from mycelia after freeze-drying. The regions of ITS-rDNA, tef1/In2-3 and tef1/In4 were amplified using common and specific primers and then sequenced. The data analyzed using maximum likelihood (ML) algorithm through selecting the best-fitting nucleotide substitution model in MEGA 6 software. The results showed that all phylograms present relatively similar relationships for isolates among supported clades. In all gene trees except ITS-based phylogram, the isolates of T. koningiopsis and T. asperellum were positioned within a basal clade with strong bootstrap support. The tef1-based phylogeny showed a stronger supported clade for the species of T. brevicompactum, T.virens, T.koningiopsis and T.pleuroticola compere to ITS-based phylogeny. The tef1/In.4 based ML analysis generated supportive clade for Trichoderma isolates such as T. asperellum. This study confirms that tef1α/Intron4-based phylogeny provide reliable clustering for Trichoderma species.
Keywords
ITS
Maximum Likelihood
tef1α
Trichoderma
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Iranian Journal of Plant Protection Science
Volume 47, Issue 1 - Serial Number 1
November 2016
Pages 61-70

  • Receive Date 14 September 2015
  • Revise Date 06 April 2016
  • Accept Date 04 May 2016