Arabidopsis thaliana
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ABSTRACT:
PROVIDER: PRJNA96837 | ENA |
REPOSITORIES: ENA
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Project description:Trichoderma spp. are ubiquitous soil-borne ascomycetous fungi that have been used widely in the biological control of plant diseases. Certain strains also exhibit growth promotion of plants, but the mechanism for this phenomenon has not yet been elucidated. We have recently identified an isolate of T. hamatum that causes significant increases in the development of Arabidopsis root systems. The aim of this work is to elucidate the mechanism of root growth promotion. One approach is to analyse the transcriptome of plants grown in the presence and absence of the fungus. Experimenter name = Christopher Thornton Experimenter phone = 01392 264653 / 01392 264689 Experimenter department = Washington Singer Lab Experimenter address = School of Biological and Chemical Sciences Experimenter address = University of Exeter Experimenter address = Perry Road, Exeter, Experimenter zip/postal_code = EX4 4QG Experimenter country = UK Keywords: pathogenicity_design, stimulus_or_stress_design
2007-01-08 | GSE5640 | GEO
Project description:Trichoderma spp. are ubiquitous soil-borne ascomycetous fungi that have been used widely in the biological control of plant diseases. Certain strains also exhibit growth promotion of plants, but the mechanism for this phenomenon has not yet been elucidated. We have recently identified an isolate of T. hamatum that causes significant increases in the development of Arabidopsis root systems. The aim of this work is to elucidate the mechanism of root growth promotion. One approach is to analyse the transcriptome of plants grown in the presence and absence of the fungus. Experimenter name = Christopher Thornton; Experimenter phone = 01392 264653 / 01392 264689; Experimenter department = Washington Singer Lab; Experimenter address = School of Biological and Chemical Sciences; Experimenter address = University of Exeter; Experimenter address = Perry Road, Exeter,; Experimenter zip/postal_code = EX4 4QG; Experimenter country = UK Experiment Overall Design: 2 samples were used in this experiment
2008-06-13 | E-GEOD-5640 | biostudies-arrayexpress
Project description:The free-living soil fungus Trichoderma hamatum GD12 is notable amongst other Trichoderma strains in exhibiting both biocontrol and plant growth promotion (PGP) activities, which are coincident with a markedly expanded genome when compared to other characterised biocontrol and PGP isolates. Here, we make direct comparisons of T. hamatum GD12 transcription during PGP, and during antagonism of the root-infecting pathogen Sclerotinia sclerotiorum, in peat-based microcosms. An extensive mRNA-seq analysis sampling six time-points, 1, 2, 4, 7, 10 and 15 days after microcosm establishment revealed dynamic and biphasic signatures in the transcriptional responses of T. hamatum GD12 during Sclerotinia biocontrol and lettuce growth promotion. Functional analysis of differentially expressed genes demonstrated up-regulation of transportation and oxidation-reduction genes during both processes. Sclerotinia biocontrol is most likely mediated by the synthesis and secretion of antifungal compounds. Notably, the biphasic response during biocontrol was further characterised by the expression of a number of uncharacterised GD12 genes, small-secreted cysteine rich proteins and secondary metabolite producing gene clusters. This work demonstrates that T. hamatum GD12 harnesses a reservoir of uncharacterised genes that are actively engaged during effective biological control of a plurivorous plant pathogen.
2016-05-16 | GSE67909 | GEO
Project description:Trichoderma spp. are filamentous fungi that colonize plant roots conferring beneficial effects to plants, indirectly through the induction of their defense systems or directly through the suppression of phytopathogens in the rhizosphere. Transcriptomic analyses of Trichoderma emerged as a powerful method for identifying the molecular events underlying the establishment of this beneficial relationship. Here, we focus on the transcriptomic response of Trichoderma virens during its interaction with Arabidopsis seedlings. The main response of T. virens to co-cultivation with Arabidopsis was the repression of gene expression. The biological processes of transport and metabolism of carbohydrates were downregulated, including a set of cell-wall-degrading enzymes putatively relevant for root-colonization. Repression of such genes reached their basal levels at later times of the interaction when genes belonging to the biological process of copper ion transport were induced, a necessary process providing copper as a cofactor for cell-wall degrading enzymes with auxiliary activities (AAs) class. RNA-Seq analysis showed the induction of a member of the SNF2 family of chromatin remodelers/helicase-related proteins, which was named IPA-1 (Increased Protection of Arabidopsis-1). Sequence analyses of IPA-1 showed as its closest relatives members of the Rad5/Rad16- and SNF2-subfamilies; however, it grouped into a different clade. Although deletion of ipa-1 in T. virens did not affect its growth, the antibiosis of Δipa-1 culture filtrates showed a diminished effect against Rhizoctonia solani but remained unaltered against Botrytis cinerea. Triggering of the plant defense genes in plants treated with Δipa-1 was higher, showing enhanced resistance against Pseudomonas syringae but not against B. cinerea as compared to wild type.
2019-01-18 | GSE125225 | GEO
Project description:Numerous Trichoderma strains are beneficial for plants, promote their growth and confer stress tolerance. A recently described novel Trichoderma strain strongly promotes growth of Arabidopsis thaliana seedlings on media with 50 mM NaCl, while 150 mM NaCl strongly stimulated root colonization and induced salt-stress tolerance in the host without growth promotion. To understand the dynamics of plant-fungus interaction, we examined the secretome from both sides, and revealed a substantial change under different salt regimes, and during co-cultivation. Stress-related proteins, such as fungal Kp4-, WSC- and CFEM-domain-containing proteins, the plant calreticulin and cell-wall modifying enzymes, disappear when the two symbionts are co-cultured under high salt concentrations. More proteins involved in plant and fungal cell wall modifications and the battle of root colonization are found in the co-cultures under salt stress, while the number of plant antioxidant proteins decreased. We identified symbiosis- and salt concentration-specific proteins for both partners. The Arabidopsis PYK10 and a fungal prenylcysteine lyase are only found in the co-culture which promoted plant growth. The comparative analysis of the secretomes suggests that both partners profit from the interaction under salt stress but have to invest more in balancing the symbiosis. We discuss the role of the identified stage- and symbiosis-specific fungal and plant proteins for salt-stress and conditions promoting root colonization and plant growth.
2021-12-15 | PXD028957 | Pride
Project description:Cannabis sativa L., which has been reclassified as an agronomic crop, has experienced an increase in cultivation. Its interactions with a variety of environmental stressors have been extensively studied. However, the mechanisms of recovery through fungal associations remain underexplored. Trichoderma hamatum, known for its role as a biological agent, enhances plant growth and provides antagonistic defense against pathogenic microbes. This meta-dataset aims to investigate whether Th can enhance drought resistance in a Cannabis plants.
2024-05-08 | GSE266916 | GEO
Project description:Growth temperature response in Arabidopsis
| PRJNA110599 | ENA
Project description:Trichoderma species promote growth and strengthen immunity of Arabidopsis and crop species through multiple mechanisms. However, how fungal proteins mediate growth-defense tradeoffs is unknown. We analyzed the growth, root architecture, defense and global gene expression profiles in Arabidopsis seedlings co-cultivated with T. atroviride WT, and Δnox1, Δnox2, and ΔnoxR mutants, defective on the catalytic and regulatory subunits of NADPH oxidase, respectively. The gene expression profile in the fungus was also characterized in standard growth conditions and in the presence of plants. The results revealed the critical role of Trichoderma NoxR in mediating growth-defense tradeoffs in Arabidopsis. The effects of T. atroviride WT in improving root branching and biomass production decreased in all three related NADPH defective mutants, particularly in ΔnoxR. In contrast, induction of jasmonic acid-related defense responses in roots and shoots were exacerbated in ΔnoxR compared to the WT strain. Transcriptome analyses showed a tight plant-fungus communication based on reactive oxygen species and availability of carbon resources. The ΔnoxR is unable to perceive changes in nutrient sources and activate signaling cascades, which suppresses the metabolic change from saprophyte to commensal. Thus we conclude that Trichoderma NoxR orchestrates fungal-induced development and defense tradeoffs in Arabidopsis and plays an important role in cross-kingdom plant-fungus communication.
2019-10-01 | GSE138203 | GEO