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RNA-seq of Arabidopsis thaliana seedlings exposed to different communities of commensal bacteria [SSC]

ABSTRACT: RNA-seq of Arabidopsis thaliana seedlings exposed to different communities of commensal bacteria [SSC]

PROVIDER: PRJNA659897 | ENA |

REPOSITORIES: ENA

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RNA-seq of Arabidopsis thaliana seedlings exposed to different communities of commensal bacteria [SSC]

Project description:This study evaluates the transcriptome of Arabidopsis thaliana seedlings exposed to communities of suppressors (SynCom5-S1) and non-suppressors (SynCom5-NS1) of the plant immune system

2021-03-27 | GSE157027 | GEO

RNA-seq of Arabidopsis thaliana seedlings exposed to the MAMP flg22 in the presence of individual commensal bacteria [MAE]

Project description:This study evaluates the transcriptome of Arabidopsis thaliana seedlings exposed to the MAMP flg22 in the presence of 35 different bacteria

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Gene expression data of different SSc subsets

Project description:We here used whole blood gene expression profiling to differentiate SSc patients from healthy controls (HC) and to identify a specific gene expression and predictive genes for SSc-overlap syndromes.

2020-02-12 | GSE145120 | GEO

Gene expression data of different SSc subsets

Project description:Gene expression data of different SSc subsets

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Gut commensal microbiota of glyphosate exposed Rattus norvegicus small intestines

Project description:Gut commensal microbiota of glyphosate exposed Rattus norvegicus small intestines Raw sequence reads

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Expression data of one-week-old rice seedlings exposed to Pi-deficient solution for 6, 24, 48, 72 hours

Project description:Expression profiles of one-week-old rice seedlings exposed to Pi-deficient solution for 6, 24, 48, 72 hours were monitored by microarray that contains approximately 60,000 rice clones (Affymetrix GeneChip). The probes were prepared from RNAs isolated from rice seedlings exposed to Pi-deficient solution for 6, 24, 48, 72 hours, respectively, and those non-treated controls. For hybridization, two biological replicates were used to extract RNAs from different batches of plants.

2012-06-18 | GSE35984 | GEO

Expression data from human neutrophils exposed to uropathogenic and commensal Esherichia coli.

Project description:The establishment of bacterial infections at epithelial surfaces is determined by the balance of virulence attributes of the pathogen with the activity of innate host defenses. Polymorphonuclear leukocytes (PMN) are key responders in many bacterial infections, but the mechanisms by which pathogens subvert these early responses to establish infection are largely undefined. Here, we model these early interactions between human PMN and the primary cause of urinary tract infections, namely uropathogenic Escherichia coli (UPEC). Our objective was to define virulence phenotypes of uropathogens (as compared with laboratory and commensal E. coli strains) that permit evasion of PMN activity. We found that UPEC strains resist phagocytic killing and dampen the production of antimicrobial reactive oxygen species by PMNs. Analysis of the global transcriptional responses of PMN to E. coli strains revealed that UPEC exposure downregulates the expression of PMN genes involved in proinflammatory signaling and PMN chemotaxis, adhesion, and migration. Consistent with these data, UPEC attenuated transepithelial neutrophil recruitment in an in vitro model of acute infection. We propose that these UPEC strategies are important in the establishment of epithelial infection, and that the findings are germane to a range of bacterial infections at epithelial surfaces. We used microarrays to detail the global program of gene expression in human neutrophils in response to a uropathogenic bacteria compared to a closely related non-pathogenic strain relative to control samples with no bacteria. Our goal was to elucidate a pathogen-specific response. We chose an early time point of 60 minutes to evaluate the accute response to infection. Human neutrophils were exposed to pathogenic or commensal Escherichia coli for RNA extraction and hybridization on Affymetrix microarrays

2010-03-07 | E-GEOD-18810 | biostudies-arrayexpress

Protaetiibacter sp. SSC-01

Project description:Protaetiibacter sp. SSC-01 Genome sequencing

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Expression data from murine GVH-SSc skin

Project description:Murine GVH-SSc dorsal scapular skin samples were analyzed to determine the effect of IFNAR-1 inhibition on gene expression at day 14 and day 28. Gene expression in GVH-SSc skin from mice treated with a neutralizing IFNAR-1 antibody was compared to that in GVH-SSc skin from mice treated with isotype IgG, with skin from syngeneic graft controls as reference. For each timepoint, the following samples were analyzed: syngeneic control (n=4); GVH-SSc isotype (n=4); GVH-SSc anti-IFNAR-1 (n=4)

2016-03-16 | E-GEOD-79194 | biostudies-arrayexpress

Gene expression in limited cutaneous SSc skin

Project description:Systemic sclerosis (SSc) is an autoimmune disease characterized by clinical heterogeneity, multi-organ involvement, and complex genetic risk. Here, we report the first multi-tissue meta-analysis of ten independent SSc gene expression datasets. We identify a common immune-fibrotic expression axis across all tissues that is associated with the most severe disease phenotypes. The coexpression patterns conserved across tissues and phenotypes were used to query functional genomic networks, which allowed us to identify common and tissue-specific disease drivers. We find evidence of pro-fibrotic macrophages (MØs) in SSc end-target organs. Prominent genes in the skin functional genomic network are associated with SSc genetic risk and are modulated by immunosuppressive treatment in clinical improvers. These data suggest the interactions between T lymphocytes and MØs are a critical driver of disease and implicate MØs as central to SSc pathogenesis. In total, this study presents a mechanism for fibrosis in SSc end-target tissues, a set of putative therapeutic targets for modulating SSc, and a framework for multi-tissue functional genomic studies of complex human disease.

2017-01-01 | GSE76807 | GEO

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