Arabidopsis thaliana roots: inoculated roots with a bacterium Antarctic (Pseudomonas sp, Dac-bac TI-8) vs untreated roots (control)
Ontology highlight
ABSTRACT:
ORGANISM(S): Arabidopsis thaliana
PROVIDER: GSE45559 | GEO | 2013/03/28
SECONDARY ACCESSION(S): PRJNA194576
REPOSITORIES: GEO
Similar Datasets
Project description:Transcriptional profiling of Arabidopsis thaliana roots comparing inoculated roots with a bacterial strain Antarctic (Pseudomonas sp, Da-bac TI-8) vs untreated roots (control) Two-condition experiment, inoculated roots vs. untreated roots (control). Biological replicates: 4 inoculated roots replicates vs. 4 untreated roots replicates (control)
2013-03-28 | E-GEOD-45559 | biostudies-arrayexpress
Project description:This study assess the biocompatibility of Ti-26Nb compared to Ti-Cp, a reference in implantology, through the combination of conventional toxicological assay, morphological observations and transcriptomic analysis performed on two different cells line : Saos-2 and THP-1. The biocompatibility of Ti-Cp implants was evaluated in comparison with Ti-26Nb implants both having a mirror polished surface, studying cell proliferation (trypan blue and WST-1) and cell morphology/adhesion (SEM) on human THP-1 and Saos-2 cell lines. Finally, an evaluation of a potential toxicity of potassium niobiate powder KNbO3 was carried out by measuring metabolic activity and realizing a transcriptomic study on the THP-1 line (the first one) to deepen the results observed with Ti-26Nb discs. Indeed, niobiate ions are potentially released from implant in cellular acidic environnement. Concerning Saos-2 cells, our results suggest that Ti-26Nb and Ti-Cp discs do not impact proliferation and viability. Concerning THP-1 cell line, a decrease in proliferation and viability is observed in contact of Ti-26Nb discs (hypothesis of a cell-line effect ?, no biocompatibility study on monocyte/macrophage cell lines such as THP-1 actually available in literature). KNbO3 powder does not impact viability of THP-1 cells and does not induce changes at molecular level. Taken together, these data suggest a possible toxicity of Ti-26Nb toward THP-1 cells not directly related to the niobium but perhaps to the manufacturing process of Titane niobium alloy.
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Project description:We have employed circRNAs, miRNAs and mRNAs expression profiling as a discovery platform to identify genes with the potential to distinguish rBMSCs affected by Ta-modified Ti surface or simple Ti surface
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Project description:Because of severe abiotic limitations, Antarctic soils represent simplified ecosystems, where microorganisms are the principle drivers of nutrient cycling. This relative simplicity makes these ecosystems particularly vulnerable to perturbations, like global warming, and the Antarctic Peninsula is among the most rapidly warming regions on the planet. However, the consequences of the ongoing warming of Antarctica on microorganisms and the processes they mediate are unknown. Here, using 16S rRNA gene pyrosequencing and qPCR, we report a number of highly consistent changes in microbial community structure and abundance across very disparate sub-Antarctic and Antarctic environments following three years of experimental field warming (+ 0.5-2°C). Specifically, we found significant increases in the abundance of fungi and bacteria and in the Alphaproteobacteria-to-Acidobacteria ratio. These alterations were linked to a significant increase in soil respiration. Furthermore, the shifts toward generalist or opportunistic bacterial communities following warming weakened the linkage between bacterial diversity and functional diversity. Warming also increased the abundance of some organisms related to the N-cycle, detected as an increase in the relative abundance of nitrogenase genes via GeoChip microarray analyses. Our results demonstrate that soil microorganisms across a range of sub-Antarctic and Antarctic environments can respond consistently and rapidly to increasing temperatures, thereby potentially disrupting soil functioning.
2010-12-30 | GSE22825 | GEO
Project description:Using RNAseq of small RNA libraries isolated from the gill tissue of the Antarctic fish Trematomus bernacchii we have characterized the termal sensitivity of miRNA homologues in these highly stenothermic fish.
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Project description:Arthrobacter ulcerisalmonis strain:TI-2 Genome sequencing
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Project description:Identification of genes differentially expressed in roots of Arabidopsis Col-0 and ndr1-1 mutants 48 h post inoculation with the fungal pathogen Verticillium longisporum.
2014-11-20 | GSE62537 | GEO
Project description:Because of severe abiotic limitations, Antarctic soils represent simplified ecosystems, where microorganisms are the principle drivers of nutrient cycling. This relative simplicity makes these ecosystems particularly vulnerable to perturbations, like global warming, and the Antarctic Peninsula is among the most rapidly warming regions on the planet. However, the consequences of the ongoing warming of Antarctica on microorganisms and the processes they mediate are unknown. Here, using 16S rRNA gene pyrosequencing and qPCR, we report a number of highly consistent changes in microbial community structure and abundance across very disparate sub-Antarctic and Antarctic environments following three years of experimental field warming (+ 0.5-2°C). Specifically, we found significant increases in the abundance of fungi and bacteria and in the Alphaproteobacteria-to-Acidobacteria ratio. These alterations were linked to a significant increase in soil respiration. Furthermore, the shifts toward generalist or opportunistic bacterial communities following warming weakened the linkage between bacterial diversity and functional diversity. Warming also increased the abundance of some organisms related to the N-cycle, detected as an increase in the relative abundance of nitrogenase genes via GeoChip microarray analyses. Our results demonstrate that soil microorganisms across a range of sub-Antarctic and Antarctic environments can respond consistently and rapidly to increasing temperatures, thereby potentially disrupting soil functioning. We conducted in situ warming experiments for three years using open-top chambers (OTCs) at one sub-Antarctic (Falkland Islands, 52ºS) and two Antarctic locations (Signy and Anchorage Islands, 60ºS and 67ºS respectively) (see Supplementary Fig. 1 for a map). OTCs increased annual soil temperature by an average of 0.8°C (at a depth of 5 cm), resulting in 8-43% increase in positive-degree days annually and a decrease in freeze-thaw cycle frequency by an average of 15 cycles per year (8). At each location, we included densely vegetated and bare fell-field soils in the experimental design for a total of six environments. Densely vegetated and bare environments represent two contrasting environments for Antarctic soil microorganisms, with large differences in terms of C and N inputs to soils. Massively parallel pyrosequencing (Roche 454 GS FLX Titanium) of 16S rRNA gene amplicons was used to follow bacterial diversity and community composition [GenBank Accession Numbers: HM641909-HM744649], and functional gene microarrays (GeoChip 2.0)(11) were used to assess changes in functional gene distribution. Bacterial and fungal communities were also quantified using real-time PCR.
2010-12-30 | E-GEOD-22825 | biostudies-arrayexpress
Project description:We performed a high throughput RNA sequencing to evaluate the expression profiles of messenger RNAs (mRNAs) and non-coding RNAs (lncRNAs, miRNAs, and circRNAs) in Titanium (Ti) particles induced inflammatory responses using RAW264.7 cells.
2023-06-01 | GSE153558 | GEO
Project description:The response to the presence of the ncpBVDV-infected PI or TI fetus is expected to provide information on the impact of the PI fetus on the immune response of the dam Fetal PI infection was induced by intranasal inoculation of pregnant heifers with ncpBVDV on day 75 of gestation. Fetal transient infection (TI) was induced by infection of pregnant heifers with ncpBVDV on day 175 of gestation. Control heifers were kept uninfected. Blood samples from pregnant heifers of the PI and control groups were collected on day 160 of gestation. Blood samples of PI, TI and healthy fetus carrying heifers were collected for microarray on day 190 of gestation.
2009-06-15 | E-GEOD-11835 | biostudies-arrayexpress