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ABSTRACT: Identification of mycoparasitism-related genes of Trichoderma harzianum T4 via RNA sequencing

PROVIDER: PRJNA1009255 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR25763425_1.fastq.gz	Fastqsanger.gz
	SRR25763425_2.fastq.gz	Fastqsanger.gz
	SRR25763426_1.fastq.gz	Fastqsanger.gz
	SRR25763426_2.fastq.gz	Fastqsanger.gz
	SRR25763427_1.fastq.gz	Fastqsanger.gz

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Project description:Trichoderma harzianum T4

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Expression data from tomato (Solanum lycopersicum) plants in interaction with different Trichoderma strains

Project description:Trichoderma harzianum T34 is a fungal strain able to promote the plant growth and to increase plant defense responses. Trichoderma harzianum transformants expressing the amdS gene, encoding an acetamidase, of Aspergillus nidulans produce a higher plant development than the wild type T34. We used microarrays to analyze the physiological and biochemical changes in tomato plants produced as consequence of interaction with Trichoderma harzianum T34 and amdS transformants

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Trichoderma harzianum strain:T4

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Project description:Trichoderma harzianum strain:T4 Genome sequencing

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Expression array for Trichoderma harzianum T34 and nox1 overexpressed transformant Tnox5 strains in dual culture with Pythium ultimum

Project description:A self-designed Trichoderma high density oligonuclotide (HDO) microarray (Roche-NimbleGen, Inc., Madison, WI, USA) was constructed in a similar way than a previous Trichoderma HDO microarray (Samolski et al., 2009). The microarray was composed of 392,779 60-mer probes designed against 13,443 EST-derived transcripts (Trichochip-1) and the genomes of T. atroviride (11,100 genes) and T. virens (11,643 genes). The Trichochip-1 ESTs were obtained from 28 cDNA libraries from eight different species (representing the biodiversity of this genus: T. harzianum, T. atroviride, T. asperellum, T. viride, T. longibrachiatum, T. virens, T. stromaticum and T. aggresivum), under a wide range of growth conditions, including biocontrol-related conditions and different nutritional situations (VizcaÃno et al., 2006). The Trichochip1 EST database was generated in the TrichoEST project funded by the EU (QLK3-CT-2002-02032). Confrontations were carried out between the T. harzianum T34 or nox1 overexpressed transformant Tnox5 and P. ultimum. Agar plugs cut from the growing edge of a 4-day colony of Trichoderma and Pythium were placed 2 cm from the border on the opposite side of the same petri plates containing PDA covered with sterile cellophane sheets. Dual cultures were allowed to grow at 25 ÂºC and mycelia were collected from the interaction zone in confrontations between P. ultimum and T. harzianum T34 or Tnox5 strains. Seven PDA plates were used for each condition considered and RNAs were extracted and the corresponding cDNAs were use to hybridize by triplicate the Trichoderma HDO microarray.

2010-10-13 | E-GEOD-24630 | biostudies-arrayexpress

Trichoderma harzianum CECT 2413 expression in liquid basal medium or glucose-, chitin-, or tomato plant-containing media

Project description:Trichoderma harzianum CECT 2413 expression in liquid basal medium and in the presence of glucose, chitin or tomato plants.

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Gene expression response of the mycoparasite Trichoderma atroviride to confrontation with the host Rhizoctonia solani in the wild-type and tmk1 gene deletion mutants

Project description:Mycoparasitism is a key feature of Trichoderma biocontrol agents. Recent studies of intracellular signal transduction pathways of the potent mycoparasite Trichoderma atroviride revealed the involvement of Tmk1, a mitogen-activated protein kinase, in triggering the mycoparasitic response. We previously showed that mutants missing Tmk1 exhibit reduced mycoparasitic activity against several plant pathogenic fungi. In this study we identified the most robustly regulated targets governed by Tmk1 during mycoparasitism by whole transcriptome gene expression profiling using a custom microarray.

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Comparative study of transcriptomes from four Trichoderma strains gene expression in early interaction with tomato plants

Project description:A self-designed Trichoderma high density oligonuclotide (HDO) microarray (Roche-NimbleGen, Inc., Madison, WI, USA) was constructed in a similar way than a previous Trichoderma HDO microarray (Samolski et al., 2009). The microarray was composed of 392,779 60-mer probes designed against 14,081 EST-derived transcripts (Trichochip-1) and the genomes of T. reesei (9,129 genes) and T. virens (11,643 genes). The Trichochip-1 ESTs were obtained from 28 cDNA libraries from eight different species (representing the biodiversity of this genus: T. harzianum, T. atroviride, T. asperellum, T. viride, T. longibrachiatum, T. virens, T. stromaticum and T. aggresivum), under a wide range of growth conditions, including biocontrol-related conditions and different nutritional situations (VizcaM-CM--no et al., 2006). This HDO microarray was used to analyze Trichoderma spp. transcriptomes after 20 h incubation in the presence of tomato plants. The Trichochip1 EST database was generated in the TrichoEST project funded by the EU (QLK3-CT-2002-02032). Eight samples were analyzed as follows: Strain T. reesei T6 grown in the presence or not of tomato plants, strain T. hamatum T7 grown in the presence or not of tomato plants, strain T. harzianum T34 grown in the presence or not of tomato plants and strain T. virens T87 grown in the presence or not of tomato plants. Three replicates for each samples were performed.

2012-02-27 | E-GEOD-29171 | biostudies-arrayexpress

Regulation of Trichoderma harzianum gene expression and protein production in submerged cultures with inactivated oomycete mycelium

Project description:The breakdown of oomycete necromass is an important source of organic matter for composting. How Trichoderma harzianum, an important composting fungus, regulates gene expression and produces exo-proteins for degradation of oomycete necromass is poorly understood, especially related to cellulose, an important component of oomycete necromass. Complementary techniques of chemical compositional analysis, transcriptomics, exo-proteomics, enzymatic assays, and fungal genetics were used to analyze the degradation of inactivated oomycete mycelial powder – a surrogate for oomycete necromass. In total, 1,556 genes were upregulated and 212 exo-proteins were produced in T. harzianum oomycete mycelial powder cultures, and about 25% of the produced proteins showed corresponding gene upregulation. The enzymes detected, such as β-1,3-glucanases, and β-1,4-glucanases (cellulases), matched well with the composition of oomycete mycelial powder. Linkage compositional analysis showed that the mycelial powder contained ~ 60% 1,3 linkages and ~19% 1,4 linkages. The enzyme cocktail from the submerged cultures converted approximately one-third of the mycelial powder to glucose by in vitro assays. The conversion of the mycelial powder to glucose was not substantially reduced by deletion of the cellulolytic transcriptional activator XYR1. Deletion of XYR1 did decrease cellulase activity but only ~1% of mycelial powder-induced genes appeared to be XYR1-regulated. In conclusion, T. harzianum produces suitable enzyme cocktails for oomycete mycelial powder degradation, with β-1,3-glucanases likely playing a more important role than cellulases. T. harzianum cellulases may either be relatively unimportant for the degradation, or may not be co-activated alongside CAZymes degrading less recalcitrant parts of the mycelial powder.

2025-10-11 | PXD069347 | Pride

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