Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1196686 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| Other | ||||
| SRR31675400_1.fastq.gz | Fastqsanger.gz | |||
| SRR31675400_2.fastq.gz | Fastqsanger.gz | |||
| SRR31675500_1.fastq.gz | Fastqsanger.gz | |||
| SRR31675500_2.fastq.gz | Fastqsanger.gz |
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Similar Datasets
Project description:The aim of the project is to decipher the role of DNA methylation in the plant pathogenic bacteria Ralstonia solanacearum during host adaptation. As a first step, we present here the DNA methylation profile of the GMI1000 reference strain.
2017-01-10 | GSE93317 | GEO
Project description:Bacterial wilt, caused by the soil-borne bacterium Ralstonia solanacearum, is a lethal disease of mulberry, but the molecular mechanisms of the host resistance responses to R. solanacearum remain unclear. In order to better understand molecular resistance mechanisms to R. solanacearum in mulberry, we set out to define the changes in gene expression of resistance and susceptible mulberry cultivars after inoculation with R. solanacearum. Susceptible cultivar YSD10, resistance cultivar KQ10 and YS283 were inoculation with R. solanacearum, mulberry root samples were collected at 1 dpi and non-treated control in all cultivars. Then we performed RNA-Seq analyses on all mulberry root samples using Illumina HiSeq 2000.
2019-06-13 | GSE60030 | GEO
Project description:ra08-02_clavata-ralstonia - clavata-ralstonia - Clavata1 (Clv1.12) and clavata2 (RPL10) mutants display an increased resistance to the bacteria Ralstonia solanacearum. Transcriptome analysis aims to understand resistance mechanisms. - 3 biological repets Keywords: wt vs mutant comparison
2009-10-30 | GSE18757 | GEO
Project description:Examination of modified bases on the genome of Ralstonia solanacearum UY031
2016-12-29 | GSE92982 | GEO
Project description:Peyraud2016 - Metabolic reconstruction
(iRP1476) of Ralstonia solanacearum GMI1000
This model is described in the article:
A Resource Allocation
Trade-Off between Virulence and Proliferation Drives Metabolic
Versatility in the Plant Pathogen Ralstonia solanacearum.
Peyraud R, Cottret L, Marmiesse L,
Gouzy J, Genin S.
PLoS Pathog. 2016 Oct; 12(10):
e1005939
Abstract:
Bacterial pathogenicity relies on a proficient metabolism
and there is increasing evidence that metabolic adaptation to
exploit host resources is a key property of infectious
organisms. In many cases, colonization by the pathogen also
implies an intensive multiplication and the necessity to
produce a large array of virulence factors, which may represent
a significant cost for the pathogen. We describe here the
existence of a resource allocation trade-off mechanism in the
plant pathogen R. solanacearum. We generated a genome-scale
reconstruction of the metabolic network of R. solanacearum,
together with a macromolecule network module accounting for the
production and secretion of hundreds of virulence determinants.
By using a combination of constraint-based modeling and
metabolic flux analyses, we quantified the metabolic cost for
production of exopolysaccharides, which are critical for
disease symptom production, and other virulence factors. We
demonstrated that this trade-off between virulence factor
production and bacterial proliferation is controlled by the
quorum-sensing-dependent regulatory protein PhcA. A phcA mutant
is avirulent but has a better growth rate than the wild-type
strain. Moreover, a phcA mutant has an expanded metabolic
versatility, being able to metabolize 17 substrates more than
the wild-type. Model predictions indicate that metabolic
pathways are optimally oriented towards proliferation in a phcA
mutant and we show that this enhanced metabolic versatility in
phcA mutants is to a large extent a consequence of not paying
the cost for virulence. This analysis allowed identifying
candidate metabolic substrates having a substantial impact on
bacterial growth during infection. Interestingly, the
substrates supporting well both production of virulence factors
and growth are those found in higher amount within the plant
host. These findings also provide an explanatory basis to the
well-known emergence of avirulent variants in R. solanacearum
populations in planta or in stressful environments.
This model is hosted on
BioModels Database
and identified by:
MODEL1612020000.
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quantitative kinetic models.
To the extent possible under law, all copyright and related or
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Public Domain Dedication for more information.
2016-12-05 | MODEL1612020000 | BioModels
Project description:Investigation of whole genome gene expression level changes in the bacterial wilt pathogen Ralstonia solanacearum, strain GMI1000 at 20°C and 28°C in culture and in planta. The tropical strain GMI1000 cannot wilt tomato plants at 20°C although it can cause full-blown disease at 28°C. A 16 array study using total RNA recovered from the following: 8 separate cultures of Ralstonia solanacearum strain GMI1000 grown in rich medium-CPG (4 grown at 20°C and 4 grown at 28°C) 8 separate in planta samples of Ralstonia solanacearum strain GMI1000 harvested from diseased tomato plants cv. BonnyBest (4 recovered from plants grown at 20°C and 4 from plants grown at 28°C) Each array (4-plex format) measures the expression level of 5061 genes from Ralstonia solanacearum strain GMI1000 with 2 to 6, 40-70 mer probes per gene, with two-fold technical redundancy. The arrays also contain probes for intergenic regions with no technical replicates.
2012-01-15 | E-GEOD-33657 | biostudies-arrayexpress
Project description:Investigation of whole genome gene expression level changes in the bacterial wilt pathogen Ralstonia solanacearum, strain UW551 at 20°C and 28°C in culture and in planta. The temperatel strain UW551 can wilt and cause full-blown disease on tomato plants at 28°C as well as at 20°C. A 16 array study using total RNA recovered from the following: 8 separate cultures of Ralstonia solanacearum strain UW551 grown in rich medium-CPG (4 grown at 20°C and 4 grown at 28°C) 8 separate in planta samples of Ralstonia solanacearum strain UW551 harvested from diseased tomato plants cv. BonnyBest (4 recovered from plants grown at 20°C and 4 from plants grown at 28°C) Each array (4-plex format) measures the expression level of 4318 genes from Ralstonia solanacearum strain UW551 with 2 to 6, 40-70 mer probes per gene, with two-fold technical redundancy. The arrays also contain probes for intergenic regions with no technical replicates.
2012-01-15 | E-GEOD-33661 | biostudies-arrayexpress
Project description:This SuperSeries is composed of the following subset Series: GSE33657: Expression analysis of Ralstonia solanacearum strain GMI1000 at 20°C and 28°C in rich medium (CPG) and in planta GSE33661: Expression analysis of Ralstonia solanacearum strain UW551 at 20°C and 28°C in rich medium (CPG) and in planta Refer to individual Series
2012-01-15 | E-GEOD-33662 | biostudies-arrayexpress
Project description:Ralstonia solancearum causes bacterial wilt disease on diverse plant hosts. R. solanacearum cells enter a host from soil or infested water through the roots, then multiply and spread in the water-transporting xylem vessels. Despite the low nutrient content of xylem sap, R. solanacearum grows extremely well inside the host, using denitrification to respire in this hypoxic environment. R. solanacearum growth in planta also depends on the successful deployment of protein effectors into host cells using a Type III Secretion System (T3SS). The T3SS is absolutely required for R. solanacearum virulence, but it is metabolically costly and can trigger host defenses. Thus, the pathogen’s success depends on optimized regulation of the T3SS. We found that a byproduct of denitrification, the toxic free-radical nitric oxide (NO), positively regulates the R. solanacearum T3SS both in vitro and in planta. Using chemical treatments and R. solanacearum mutants with altered NO levels, we show that the expression of a key T3SS regulator is induced by NO in culture. Analyzing the transcriptome of R. solanacearum responding to varying levels of NO both in culture and in planta revealed that the T3SS and effectors were broadly upregulated with increasing levels of NO. This regulation was specific to the T3SS and was not shared by other stressors. Our results suggest that R. solanacearum experiences an NO-rich environment in the plant host and may use this NO as a signal to activate T3SS during infection.
2020-10-26 | GSE160024 | GEO
Project description:ra08-02_clavata-ralstonia - clavata-ralstonia - Clavata1 (Clv1.12) and clavata2 (RPL10) mutants display an increased resistance to the bacteria Ralstonia solanacearum. Transcriptome analysis aims to understand resistance mechanisms. - 3 biological repets Keywords: wt vs mutant comparison 6 dye-swap - CATMA arrays
2009-10-30 | E-GEOD-18757 | biostudies-arrayexpress