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LongSAGE transcriptome comparison on Botrytis cinerea conidia germination with and without resveratrol treatment

ABSTRACT: Two long serial analysis of gene expression (LongSAGE) libraries of germinating conidia of Botrytis cinerea were generated with and without resveratrol treatments for unraveling the antifungal mechanisms of this phytoalexin by global transcriptome analysis – 82,786 total tags and a minimum of 15,665 unitags were obtained respectively. By tag-to-gene mapping, about 55% of the total unitags were matched to known genes. There were 109 unitags that showed significant differences in the two LongSAGE libraries, corresponding to 43 up- and 44 down-regulated genes, and 22 unmatched unitags as new gene candidates. These results showed that resveratrol inhibited expression of genes related to the glycolysis-Krebs cycle and mitochondrial electron transport chains at multiple sites in conidia germination, with induction of modified Entner–Doudoroff pathway as metabolic compensation. The chaperone-mediated protein folding and ubiquitin proteolysis systems were inhibited, while detoxification of resveratrol via ABC transporters was activated in this fungal pathogen. Keywords: Botrytis cinerea; LongSAGE; metabolic pathway; resveratrol; transcriptome

ORGANISM(S): Botrytis cinerea

PROVIDER: GSE11090 | GEO | 2010/04/06

SECONDARY ACCESSION(S): PRJNA106965

REPOSITORIES: GEO

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Botrytis cinerea

Project description:LongSAGE transcriptome comparison on Botrytis cinerea conidia germination with and without resveratrol treatment

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Transcriptome profiling of Botrytis cinerea conidial germination reveals upregulation of infection-related genes during the pre-penetration stage

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Analysis of the molecular dialogue between Botrytis cinerea and Vitis vinifera reveals a clear shift in defence mechanisms during berry ripening.

Project description:Full transcriptomes of the Botrytis cinerea wild-type strain B0510 inoculated on mature grapevine berries (Marselan cultivar) at 16h, 24h, 48h, and in vitro were compared to identify B. cinerea genes diffentially expressed during the infection stages. Grapevine berries were inoculated with Botrytis cinerea conidia and samples were taken at 16h, 24h and 48 hours post-inoculation. An additional control sample corresponding to mycelium growing on static liquid minimal medium was included in the experimental design in order to identify genes that would be differentially expressed between in vitro and in planta growth conditions. 3-4 replicates were performed. The 13 total-RNA samples were used for hybridization on NimbleGen 4plex gene expression arrays (20,885 gene models from Botrytis cinerea with three 60-mer probes per gene).

2015-08-10 | E-GEOD-65559 | biostudies-arrayexpress

Transcriptome profiling of Botrytis cinerea conidial germination reveals upregulation of infection-related genes during the pre-penetration stage

Project description:Investigation of whole genome gene expression level changes in Botrytis cinerea wild type conidia during germination in comparison to the bmp1 MAP kinase deletion mutant. A 18 chip study using total RNA recovered from four different time points for the wild-type and one time point for the bmp1 deletion mutant. Each time point was analyzed with three biological replicates. Expression level of 20,885 genes from Botrytis cinerea strain B05.10 and T4 with three 60mer probes per gene was analysed.

2013-01-18 | E-GEOD-43569 | biostudies-arrayexpress

Transcription profiling of tomato fruit responses to Botrytis cinerea

Project description:Tomato fruit ripening is associated with a dramatic increase in susceptibility to the fungal pathogen Botrytis cinerea, the causal agent of gray mold. Mature green fruit, prior to ripening, are largely resistant to B. cinerea, whereas red fruit, at the end of ripening, are susceptible to B. cinerea infection. We used microarrays to detail the gene expression changes that are induced by B. cinerea when tomato fruit at unripe and ripe stages are infected. Experiment Overall Design: Tomato fruit at mature green and red ripe stages were wound inoculated with a water suspension of B. cinerea conidia. Twenty four hours post inoculation fruit pericarp and epicarp tissue around and including the inoculation sites was collected and the total RNA extracted. Total RNA was also collected from healthy and mock inoculated fruit.

2009-06-01 | E-GEOD-14637 | biostudies-arrayexpress

Whole Genome Bisulfite Sequencing of Botrytis cinerea

Project description:Analysis of the genome-wide DNA methylation pattern of Botrytis cinerea. Results provide new and important information that DNA methylation is critical for pathogenicity and development of Botrytis cinerea by regulating gene expression.

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Effect of depletion of NUP62 on gene expression during Botrytis cinerea infection of Arabidopsis seedlings [Arabidopsis]

Project description:To investigate NUP62 in the regulation of plant defense against Botrytis cinerea , we performed gene expression profiling analysis using data obtained from RNA-seq of nup62 mutant and WT arabidopsis with or without Botrytis cinerea infection.

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Whole-transcriptome microarray analysis of grapevine-Botrytis cinerea interaction during latent infection of berries (“noble rot”)

Project description:Purpose: Microarray technologies provide a unique opportunity to deeply investigate the molecular mechanisms involved in plant-pathogen interaction. Botrytis cinerea, is the agent of grapevine grey mould, but in yet uncharacterized environmental conditions, a latent infection can occur determining favourable metabolic and physico-chemical berry modifications which possibly contribute to the typical aromas of “passito” wines (“noble rot”). The present project aims at the identification of the grapevine responses to B. cinerea during fungal colonization in the latent form, in comparison with control berries. Methods: A total of 150 untreated berries were sampled as time 0 of the experiment. Moreover, 300 healthy berries have been artificially inoculated one by one with B. cinerea by injecting conidia under berry skin, in controlled conditions, reproducing an early stage (T1) and a late stage (T2) of noble rot pourri plein. Control samples (300 berries) have been inoculated with water and sampled at the same time of infected berries. The microarray experiments on T0 and healthy or infected samples in biological triplicate resulted in 15 samples to be analyzed (Agilent-048771 4x44K Grape all custom microarray chip; Agilent Technologies, Santa Clara, CA, USA). Conclusions: This work identified important molecular mechanisms involved in Botrytis cinerea colonization of grapevine berries during the noble rot infection.

2019-07-26 | GSE116740 | GEO

Whole-transcriptome RNA-seq analysis of grapevine-Botrytis cinerea interaction during latent infection of berries (“noble rot”)

Project description:Purpose: High throughput sequencing technologies provide a unique opportunity to deeply investigate the molecular mechanisms involved in plant-pathogen interaction. Botrytis cinerea, is the agent of grapevine grey mould, but in yet uncharacterized environmental conditions, a latent infection can occur determining favourable metabolic and physico-chemical berry modifications which possibly contribute to the typical aromas of “passito” wines (“noble rot”). The present project aims at the identification of the genes deployed by B. cinerea during grape berries colonization in the latent form, in comparison with the saprophytic growth in vitro. Methods: A total of 300 healthy berries have been artificially inoculated one by one with B. cinerea by injecting conidia under berry skin, in controlled conditions, reproducing the pourri plein stage of noble rot. Control samples (300 berries) have been inoculated with water. The saprophytic growth was obtained in liquid nutrient medium in laboratory flasks, and the mycelium collected by filtration. The RNA-sequencing experiments on healthy or infected samples in biological triplicate resulted in 27 data sets to be analyzed (Illumina NextSeq500 paired-end sequencing; 533.779.730 total reads, 150 Gb of data). Conclusions: This work identified important molecular mechanisms involved in Botrytis cinerea colonization of grapevine berries during the noble rot infection.

2019-07-26 | GSE116274 | GEO

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