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) T. atroviride P1 mycelium grown (approximately for 24h) at 25ºC on a cellophane sheet on PDA (Difco) plates before contact (at a distance of 5 mm) a R. solani colony grown under identical conditions in the same plate was compared with T. atroviride P1 mycelium after contact (5 mm) the above R. solani colony (mycoparasitic interaction). RNAs from both conditions were extracted and the corresponding cDNAs were use to hybridize by triplicate the Trichoderma HDO microarray.
Project description:This study investigates the multifaceted defense mechanisms of plants in response to beneficial fungi Trichoderma atroviride. The researchers focus on a small RNA, Ta_sRNA1, produced by T. atroviride during its interaction with Arabidopsis thaliana.
Project description:Trichoderma atroviride is a fungus capable of establishing symbiotic relationships with plants, however, its main lifestyle is a saprophyte. Due to these characteristics, it must face a great quantity of microorganisms, and be able to compete for nutrients. T. atroviride is considered a necrotrophic mycoparasite and has developed the ability to kill other organisms and obtain nutrients from them. The object of this work is to explore the role of small RNAs in mycoparasitism. To this end, we obtained small RNA-Seq libraries from the interactions of T. atroviride against Alternaria alternata. The libraries were obtained from three stages during mycoparasitsm: before contact (BC), contact (C), and after contact (AC).
Project description:Trichoderma atroviride is a fungus capable of establishing symbiotic relationships with plants, however, its main lifestyle is a saprophyte. Due to these characteristics, it must face a great quantity of microorganisms, and be able to compete for nutrients. T. atroviride is considered a necrotrophic mycoparasite and has developed the ability to kill other organisms and obtain nutrients from them. The object of this work is to explore the role of small RNAs in mycoparasitism. To this end, we obtained RNA-Seq libraries from the interactions of T. atroviride against Alternaria alternata and Rhizoctonia solani. The transcriptomes were obtained from three stages during mycoparasitsm: before contact (BC), contact (C), and after contact (AC).
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 (Vizcaíno et al., 2006). The Trichochip1 EST database was generated in the TrichoEST project funded by the EU (QLK3-CT-2002-02032)
Project description:A Trichoderma microarrays composed of 385,000 probes, designed against the genomes of Trichoderma reesei (= Hypocrea jecorina), ID: 431241 (9,129 genes) + Trichoderma virens (= Hypocrea virens), ID: 413071 (11,643 genes) + Trichoderma atroviride (= Hypocrea atroviridis) ID: 197014A (11,643 genes), was constructed (Roche-NimbleGen, Inc., Madison, WI, USA). Probes contained entere transcript sequence. This microarray was used to analyze the transcriptomic changes of T. atroviride IMI 352941 (T11) in three conditions: T11 growing alone, T11 growing at ca 5 mm of V. dahliae V-138I and T11 overgrowing V-138I.
