The Open Biotechnology Journal

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Molecular Characterization of Trichoderma spp. Isolates by Internal Transcribed Spacer (ITS) Region Sequencing Technique and its Use as a Biocontrol Agent

Ziyaul Haque1, Mohammed S. Iqbal1, *, Ausaf Ahmad1, Mohd S. Khan2, Jyoti Prakash1, *
1 Amity Institute of Biotechnology, Amity University Uttar Pradesh, Lucknow Campus, Lucknow, India
2 Department of Biosciences, Integral University Lucknow Uttar Pradesh, Lucknow, India



In the present investigation, Trichoderma spp., isolated from rhizospheric soil, has been identified by Internal Transcribed Spacer (ITS) region sequencing technique and its antagonistic activity was evaluated against A. niger.


The sequencing analysis was done with its ITS1 region of the rRNA gene. Using the ITS1 amplified products for all isolated fungi, a bi-directional DNA sequencing was done with high quality bases (>98% - 100%). Antagonistic activity was done using dual culture technique.


All of the ITS1 nucleotide sequences obtained in this study matched 97% - 100% with the published sequence of Trichoderma spp. The results confirmed the strains as T. asperellum and T. viride with gene bank accession no. (ZTa); MK937669 and (ZTv); MK503705, respectively. When phylogenetic analysis was done for the isolates, the optimal tree with the sum of branch length = 0.69585023 and 0.10077756 for T. asperellum andT. viride, respectively, was observed. There were a total of 678 and 767 for T. asperellum and T. viride positions in the final dataset, respectively. Antagonistic activity was done for the isolated strains of Trichoderma spp. against A. niger, and it was found that T. asperellum showed maximum antagonistic activity (79.33±7.09%).


The findings prolong the genome availability for relative investigations pointing out phenotypic variances to compare with Trichoderma genetic diversity. The present investigation delivered the Bases of future studies for better knowledge in understanding the complicated connections of Trichoderma spp. to be used as an effective biocontrol agent.

Keywords: Antagonism, Biocontrol agent, Fungus, Internal transcribed spacer , Trichoderma spp, Rhizospheric soil.

Article Information

Identifiers and Pagination:

Year: 2020
Volume: 14
First Page: 70
Last Page: 77
Publisher Id: TOBIOTJ-14-70
DOI: 10.2174/1874070702014010070

Article History:

Received Date: 22/01/2020
Revision Received Date: 06/04/2020
Acceptance Date: 25/04/2020
Electronic publication date: 16/06/2020
Collection year: 2020

© 2020 Haque et al.

open-access license: This is an open access article distributed under the terms of the Creative Commons Attribution 4.0 International Public License (CC-BY 4.0), a copy of which is available at: ( This license permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

* Address correspondence to this author at the Amity Institute of Biotechnology, Amity University Uttar Pradesh, Lucknow Campus, Lucknow, India; Tel: +9451310257; E-mail:

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