GEO DataSets

(Submitter supplied) Xylella fastidiosa regulates traits important to both virulence of grape as well as colonization of sharpshooter vectors via its production of a fatty acid signal molecule known as DSF whose production is dependent on rpfF. While X. fastidiosa rpfF mutants exhibit increased virulence to plants they are unable to be spread from plant to plant by insect vectors. To gain more insight into the traits that contribute to these processes, a DNA microarray for this species was designed and utilized to determine the RpfF-dependent regulon by transcriptional profiling. more...

Organism:

Xylella fastidiosa; Xylella fastidiosa 9a5c; Xylella fastidiosa Temecula1

Type:

Expression profiling by array

Platform:

GPL15652

1 Sample

Download data: TXT

(Submitter supplied) Quorum sensing (QS) in Xanthomonas axonopodis pv. citri, the causal agent of citrus canker, is mediated by a diffusible signal factor (DSF). QS is required for the full virulence of X. axonopodis pv. citri in planta. Mutations in rpfF, rpfC and rpfG, the core genes of QS, decreased the production of extracellular proteases and bacterial motility. Comparison of the transcriptomes of QS mutants with that of the wild type stain revealed that QS temporally regulates the expression of a large set of genes, including genes involved in chemotaxis and flagellar biosynthesis, genes related to metabolism, genes encoding virulence traits such as type II secretion system substates, type III secretion system and effectors. more...

Organism:

Xanthomonas citri pv. citri str. 306; Xanthomonas citri

Type:

Expression profiling by array

Platform:

GPL10890

6 Samples

Download data: TXT

(Submitter supplied) To investigate the role(s) of a cold shock protein homolog (Csp1) in plant pathogenic bacteria Xylella fastidiosa, we compared transcriptome profiles between wild type and a csp1 deletion mutant (Δcsp1) using long read Nanopore RNA sequencing.

Organism:

Xylella fastidiosa subsp. fastidiosa

Type:

Expression profiling by high throughput sequencing

Platform:

GPL30664

11 Samples

Download data: TXT

(Submitter supplied) The phytopathogen Xylella fastidiosa produces two classes of pili, long type IV pili and short type I pili, which are involved in motility and adhesion. In this work, we have investigated the role of σ54 factor and its involvement in the regulation of fimbrial biogenesis in X. fastidiosa. An rpoN null mutant was constructed from citrus strain J1a12, and analyses of global gene expression profile by microarrays comparing the wild type and rpoN mutant strains showed that few genes exhibited differential expression. more...

Organism:

Xylella fastidiosa

Type:

Expression profiling by array

Platform:

GPL2708

6 Samples

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(Submitter supplied) We conducted genome-wide microarray analyses to determine the regulons of RcsB and RcsC in liquid medium and, for the first time, on immature pear fruit. Our array analyses identified a total of 648 genes differentially regulated by the RcsCB in vitro and in vivo. Consistent with our previous findings, RcsB acts as a positive regulator in both conditions, while RcsC positively controls amylovoran biosynthetic gene expression in vivo, but negatively in vitro. more...

Organism:

Erwinia amylovora

Type:

Expression profiling by array

Platform:

GPL13939

12 Samples

Download data: GPR

(Submitter supplied) Pierce’s disease, caused by the bacterium Xylella fastidiosa, is one of the most devastating diseases of cultivated grapes. To test the long-standing hypothesis that Pierce’s disease results from pathogen-induced drought stress, we used the Affymetrix Vitis GeneChip to compare the transcriptional response of Vitis vinifera to Xylella infection, water deficit, or a combination of the two stresses. The results reveal a massive redirection of gene transcription involving 822 genes with a minimum 2-fold change (p<0.05), including the upregulation of transcripts for phenylpropanoid and flavonoid biosynthesis, pathogenesis related (PR) proteins, absisic acid (ABA)/jasmonic acid (JA)-responsive transcripts, and down-regulation of transcripts related to photosynthesis, growth and nutrition. more...

Organism:

Vitis vinifera

Type:

Expression profiling by array

Platform:

GPL1320

45 Samples

Download data: CEL

(Submitter supplied) Genome sequence analysis of the bacterium Xylella fastidiosa revealed the presence of two genes, named rpoE and rseA, predicted to encode an ECF sigma factor and an anti-sigma factor, respectively. In this work, an rpoE null mutant was constructed in the citrus strain J1a12 and shown to be sensitive to exposure to heat shock and ethanol. To identify the X. fastidiosa σE regulon, global gene expression profiles were obtained by DNA microarray analysis of bacterial cells under heat shock identifying 23 sigmaE-dependent genes. more...

Organism:

Xylella fastidiosa

Type:

Expression profiling by array

Platform:

GPL2708

18 Samples

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(Submitter supplied) In the xylem vessels of susceptible hosts, such as citrus trees or grapevines, Xylella fastidiosa forms biofilm like-colonies that can block water transport, which appears to correlate to disease symptoms. Besides helping host colonization, bacterial biofilms play an important role in resistance against antimicrobial agents, for instance antimicrobial peptides (AMP). Here we show that gomesin, a potent AMP from a Brazilian tarantula spider, modulates X. more...

Organism:

Xylella fastidiosa

Type:

Expression profiling by array

Platform:

GPL9024

20 Samples

Download data: TXT

(Submitter supplied) A 4608-spot DNA microarray was printed containing unique internal fragments of 2572 CDS representing 90.3% of all of the 2848 CDS annotated by Simpson et al. (2000, Nature) (http://aeg.lbi.ic.unicamp.br/xf). PCR primers were designed to amplify unique internal fragments of 200-1000 bp of each predicted CDS described in the annotated genome sequence of X. fastidiosa strain 9a5c (http://aeg.lbi.ic.unicamp.br/xf). more...

Organism:

Xylella fastidiosa

1 Series

8 Samples

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(Submitter supplied) A 4608-spot DNA microarray was printed containing unique internal fragments of 2692 CDS representing 94.5% of all of the 2848 CDS annotated by Simpson et al. (2000, Nature) (http://aeg.lbi.ic.unicamp.br/xf). PCR primers were designed to amplify unique internal fragments of 200-1000 bp of each predicted CDS described in the annotated genome sequence of X. fastidiosa strain 9a5c (http://aeg.lbi.ic.unicamp.br/xf). more...

Organism:

Xylella fastidiosa

8 Series

178 Samples

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(Submitter supplied) Xylella fastidiosa is the etiologic agent of a wide range of plant diseases including citrus variegated chlorosis (CVC), a major threat to the Brazilian citrus industry. Genome sequences of several strains of this phytopathogen are accessible, enabling large-scale functional studies. Transcript levels in different iron availabilities were assessed with DNA microarrays representing 2608 (91.6%) coding sequences (CDS) of X. more...

Organism:

Xylella fastidiosa

Type:

Expression profiling by array

Platform:

GPL2708

22 Samples

Download data

(Submitter supplied) Xylella fastidiosa is the etiologic agent of a wide range of plant diseases including citrus variegated chlorosis (CVC), a major threat to the Brazilian citrus industry. Genome sequences of several strains of this phytopathogen are accessible, enabling large-scale functional studies. Transcript levels in different iron availabilities were assessed with DNA microarrays representing 2608 (91.6%) coding sequences (CDS) of X. more...

Organism:

Xylella fastidiosa

Type:

Expression profiling by array

Platform:

GPL2708

22 Samples

Download data

(Submitter supplied) Background: Xylella fastidiosa, a Gram-negative fastidious bacterium, grows exclusively in the xylem of several plants, causing diseases such as citrus variegated chlorosis. As the xylem sap contains low concentrations of amino acids and other compounds, X. fastidiosa needs to cope with nitrogen limitation in its natural habitat. Results: In this work, we performed a whole-genome microarray analysis of the X. more...

Organism:

Xylella fastidiosa

Type:

Expression profiling by array

Platform:

GPL2708

24 Samples

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(Submitter supplied) Investigation of whole genome gene expression level changes in Xylella fastidiosa grown in minimal media XFM and XFM supplied with pectin or glucan (Host polysaccharides) , compared to cell grown in the complex media PWG. The cells grown in the minimal medium XFM supplied with host polysaccharides specially pectin are transmissible by the insect vector when delivered to the vector through artificial diet system. more...

Organism:

Xylella fastidiosa; Xylella fastidiosa Temecula1

Type:

Expression profiling by array

Platform:

GPL9337

16 Samples

Download data: CALLS, PAIR

(Submitter supplied) Xylella fastidiosa is a phytopathogenic bacterium responsible for diseases in many economically important crops. Although different strains have been studied, little is known about X. fastidiosa stress responses. One of the best characterized stresses in bacteria is the heat shock response, which induces the expression of specific genes to prevent protein misfolding and aggregation, and to promote degradation of the irreversibly denatured polypeptides. more...

Organism:

Xylella fastidiosa

Type:

Expression profiling by array

Platforms:

GPL3409 GPL2708

52 Samples

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(Submitter supplied) to investigate global gene expression of C. rodentium strain ICC169 and its isogenic pstCA and phoB mutants when grown in phosphate-rich and phosphate-low medium

Organism:

Citrobacter rodentium

Type:

Expression profiling by array

Platform:

GPL7345

16 Samples

Download data: TXT

(Submitter supplied) Comparison of transcriptomes for wild-type and the following mutants: LuxS, GppX, cdhR

Organism:

Porphyromonas gingivalis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL14970

10 Samples

Download data: TXT

(Submitter supplied) PAMP-triggered immunity (PTI) is the first line of plant defense against invading organisms. Initiated through the perception of conserved pathogen-associated molecular patterns (PAMPs), such as lipopolysaccharide or flagellin, PTI can provide early protection against a broad range of pathogens. Active suppression of PTI by microbial effector proteins, particularly those secreted by the Type III secretion system (T3SS), is a well-known strategy employed by bacterial plant pathogens that enables them to subvert PTI and successfully colonize their hosts. more...

Organism:

Vitis vinifera

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL18580 GPL22342

99 Samples

Download data: TXT

(Submitter supplied) This study investigated the transcriptomic response of rice pathogen Acidovorax avenae subsp. avenae (Aaa) strain RS-1 to ß-lactam antibiotics in particular Ampicillin (Amp) and the result highlights the importance of Amp-induced differentially expressed genes in the virulence of Aaa strain RS-1.

Organism:

Paracidovorax avenae

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20176

2 Samples

Download data: TXT

(Submitter supplied) Investigation of whole genome gene expression level changes during plant infection in the PecS regulatory mutant compared to the wild type strain. PecS is a global regulator of virulence in D. dadantii and the PecS mutant is hypervirulent.

Organism:

Dickeya dadantii 3937

Type:

Expression profiling by array

Platform:

GPL16335

13 Samples

Download data: PAIR, TXT