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Oryza sativa Indica Group

ABSTRACT: Genome-wide analysis rice transcriptional change during the early stages of false smut formation caused by Ustilaginoidea virens [2011].

PROVIDER: PRJNA169661 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR517607.fastq.gz	Fastqsanger.gz
	SRR517608.fastq.gz	Fastqsanger.gz
	SRR517609.fastq.gz	Fastqsanger.gz
	SRR517610.fastq.gz	Fastqsanger.gz

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Genome-wide analysis rice transcriptional change during the early stages of false smut formation caused by Ustilaginoidea virens [2011].

Project description:Rice false smut is a common fungal disease caused by Ustilaginoidea virens. As it only scatter occured in panicle at florescence, little information is known about this crop disease. In the previous study, 3 uninterrupted infecting stages were divided and each stage was monitored by Solexa/Illumina’s digital gene expression (DGE) system, and all data were submitted to NCBI (GSE32010). As the disease was greatly affected by environment and to eliminate environment factor, an experimental replication was done in 2011. Samples collection and analysis were described in GSE32010. Our results contribute to the knowledge of understanding rice molecular mechanism in response to U. virens infection.

2013-11-14 | GSE39048 | GEO

Genome-wide analysis rice transcriptional change during the early stages of false smut formation caused by Ustilaginoidea virens [2011].

2013-11-14 | E-GEOD-39048 | biostudies-arrayexpress

Tandem mass tags (TMT)–based quantitative proteomics approach quantified in 2-hydroxyisobutyrylation site of rice spikelets and Ustilaginoidea virens by mass spectrometry.

Project description:Rice false smut, caused by the pathogenic ascomycete fungus Ustilaginoidea virens (teleomorph: Villosiclava virens), is one of the most devastating grain diseases in the majority of rice-growing areas of the world. Lysine 2-hydroxyisobutyrylation (Khib) is a novel post-translational modification (PTM), which plays an important role in active gene transcription and cellular proliferation in eukaryotes. However, its function remains unknown in phytopathogens and plant. Here, we report a comprehensive identification of Khib in rice false smut fungus Ustilaginoidea virens and rice. By using a tandem mass tags (TMT)–based quantitative proteomics approach, 2-hydroxyisobutyrylation sites were identified in U. virens and rice.

2023-06-06 | PXD019114 | Pride

Genome-wide analysis rice transcriptional change during the early stages of false smut formation caused by Ustilaginoidea virens

Project description:Genome-wide analysis rice transcriptional change during the early stages of false smut formation caused by Ustilaginoidea virens

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Genome-wide analysis rice transcriptional change during the early stages of false smut formation caused by Ustilaginoidea virens [set A]

Project description:Rice false smut is a common fungal disease caused by Ustilaginoidea virens. As it only scatter occured in panicle at florescence, little information is known about this crop disease. Here, we injected suspension spores into a susceptible indica rice cultivar 9311 booting panicle (infected water as mock) and divided the early disease symptom into 3 uninterrupted stages(S) at 6 day post inoculation (dpi): the infected pistil became expand (S1), the hyphae began to infect the bottom of anthers (S2) and the hyphae growth went on and surrounded the floral organ forming a floral-hyphae complex (S3). To gain insight into rice putatively differential responses to U. virens, all 3 infected and mock spikes with same spike length were collected and analyzed by Solexa/Illuminaâs digital gene expression (DGE) system, BGI. Our results contribute to the knowledge of understanding rice molecular mechanism in response to U. virens infection.

2013-11-14 | GSE32010 | GEO

Genome-wide analysis rice transcriptional change during the early stages of false smut formation caused by Ustilaginoidea virens [set A]

Project description:Rice false smut is a common fungal disease caused by Ustilaginoidea virens. As it only scatter occured in panicle at florescence, little information is known about this crop disease. Here, we injected suspension spores into a susceptible indica rice cultivar 9311 booting panicle (infected water as mock) and divided the early disease symptom into 3 uninterrupted stages(S) at 6 day post inoculation (dpi): the infected pistil became expand (S1), the hyphae began to infect the bottom of anthers (S2) and the hyphae growth went on and surrounded the floral organ forming a floral-hyphae complex (S3). To gain insight into rice putatively differential responses to U. virens, all 3 infected and mock spikes with same spike length were collected and analyzed by Solexa/IlluminaM-CM-"M-BM-^@M-BM-^Ys digital gene expression (DGE) system, BGI. Our results contribute to the knowledge of understanding rice molecular mechanism in response to U. virens infection. Four samples including one control (CK) and three infected (S1, S2, S3) were analyzed

2013-11-14 | E-GEOD-32010 | biostudies-arrayexpress

Project description:Microbiomes associated with rice false smut (Ustilaginoidea virens)

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Next generation sequencing analysis of transcript abundance during growth mycelia in the rice false smut fungus Ustilaginoidea virens

Project description:Epigenetic modification is important for cellular functions. Trimethylation of histone H3 lysine 4 (H3K4me3), which associates with transcriptional activation, is one of the important epigenetic modifications. In this study, the biological functions of UvKmt2-mediated H3K4me3 modification were characterized in Ustilaginoidea virens, which is the causal agent of the false smut disease, one of the most destructive diseases in rice. Phenotypic analyses of the ΔUvkmt2 mutant revealed that UvKMT2 is necessary for growth, conidiation, secondary spore formation, and virulence in U. virens. RNA-seq analysis demonstrated that UvKmt2-mediated H3K4me3 acts as an important role in transcriptional activation. In particular, H3K4me3 modification involves in the transcriptional regulation of conidiation-related and pathogenic genes. The down-regulation of UvHOG1 and UvPMK1 genes may be one of the main reasons for the reduced pathogenicity and stresses adaptability of the ∆Uvkmt2 mutant. Overall, H3K4me3, established by histone methyltransferase UvKMT2, contributes to fungal development, secondary spore formation, virulence, and various stresses response through transcriptional regulation in U. virens.

2022-05-25 | GSE203327 | GEO

Genome-wide mapping of H3K4 tri-methylation in ΔUvkmt2 mutant strain of Ustilaginoidea virens

Project description:Epigenetic modification is important for cellular functions. Trimethylation of histone H3 lysine 4 (H3K4me3), which associates with transcriptional activation, is one of the important epigenetic modifications. In this study, the biological functions of UvKmt2-mediated H3K4me3 modification were characterized in Ustilaginoidea virens, which is the causal agent of the false smut disease, one of the most destructive diseases in rice. Phenotypic analyses of the ΔUvkmt2 mutant revealed that UvKMT2 is necessary for growth, conidiation, secondary spore formation, and virulence in U. virens. Immunoblotting and chromatin immunoprecipitation assay followed by sequencing (ChIP-seq) showed that UvKMT2 is required for the establishment of H3K4me3, which covers 1729 genes of the genome in U. virens. In particular, H3K4me3 modification involves in the transcriptional regulation of conidiation-related and pathogenic genes. The down-regulation of UvHOG1 and UvPMK1 genes may be one of the main reasons for the reduced pathogenicity and stresses adaptability of the ∆Uvkmt2 mutant. Overall, H3K4me3, established by histone methyltransferase UvKMT2, contributes to fungal development, secondary spore formation, virulence, and various stresses response through transcriptional regulation in U. virens.

2022-05-25 | GSE203326 | GEO

Ustilaginoidea virens secreted protein LC-MSMS

Project description:This project aims at identifying secreted proteins that modulate plant immunity from Ustilaginoidea virens, which infects rice panicles and is the causal agent of rice false smut (RFS). The identified proteins will be expressed in plant and test whether they can induce cell death, induce plant immunity or suppress plant immunity.

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