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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Deinococcus radiodurans R1 Cells was treated with MMC (5 M-NM-

ABSTRACT: Transcriptional profiling of Deinococcus radiodurans comparing control wild type cells with bphPR deletion mutant were treated with MMC (5 M-NM-

ORGANISM(S): Deinococcus radiodurans R1

SUBMITTER: Im Seong Hun

PROVIDER: E-GEOD-59138 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Deinococcus radiodurans R1 Cells was treated with MMC (5 μg/ml) : Control treated with MMC (5 μg/ml) vs. bphPR deletion mutant treated with MMC (5 μg/ml)

Project description:Transcriptional profiling of Deinococcus radiodurans comparing control wild type cells with bphPR deletion mutant were treated with MMC (5 μg/ml)

2014-07-07 | GSE59138 | GEO

Characterization of A. baumannii Mitomycin C (MMC) response

Project description:Transcriptional profiling of A. baumannii ATCC 17978 comparing treated-MMC cultures with non-MMC treated cultures Two-condition experiment A. baumannii 17978 MMC+ vs A. baumannii 17978 MMC-. Biological replicates:3, Technical replicates:2

2013-11-14 | E-GEOD-44735 | biostudies-arrayexpress

Characterization of A. baumannii Mitomycin C (MMC) response

Project description:Transcriptional profiling of A. baumannii ATCC 17978 comparing treated-MMC cultures with non-MMC treated cultures

2013-11-14 | GSE44735 | GEO

Isw2 and Ume6 ChIP-chip in transcription factor deletion (M-NM-^Tume6, M-NM-^Tnrg1, M-NM-^Tcin5, and M-NM-^Tsok2) and DNA-looping deficient (sua7-1) cells

Project description:The sequence-specific transcription factors Ume6, Nrg1, Cin5, and Sok2 and the general transcription factor TFIIB mediate the genome-wide targeting of the ATP-dependent chromatin remodeling enzyme Isw2. At least two biological replicates comparing Isw2-ChIP (Isw2-K215R ChIP DNA competitively hybridized against WT Isw2 ChIP DNA) in WT and M-NM-^Tume6, M-NM-^Tnrg1, M-NM-^Tcin5, M-NM-^Tsok2, and sua7-1 strains or Ume6-ChIP (ChIP DNA competitively hybridized again Input DNA) in WT and sua7-1 strains

2013-03-14 | E-GEOD-39542 | biostudies-arrayexpress

Genome wide expression responses of Fusarium oxysporum wt and M-NM-^ThapX mutant to iron depleted and iron replete conditions.

Project description:Soilborne fungal pathogens cause devastating yield losses, are highly persistent and difficult to control. To culminate infection, these organisms must cope with limited availability of iron. Here we show that the bZIP protein HapX functions as a key regulator of iron homeostasis and virulence in the vascular wilt fungus Fusarium oxysporum. Deletion of hapX does not affect iron uptake, but causes derepression of genes involved in iron-consuming pathways, leading to impaired growth under iron-depleted conditions. F. oxysporum strains lacking HapX are reduced in their capacity to invade and kill tomato plants and immunodepressed mice. The virulence defect of M-NM-^ThapX on tomato plants is exacerbated by coinoculation of roots with a biocontrol strain of Pseudomonas putida, but not with a siderophore-deficient mutant, indicating that HapX contributes to iron competition of F. oxysporum in the tomato rhizosphere. These results establish a conserved role for HapX-mediated iron homeostasis in fungal infection of plants and mammals. Iron dependent gene expression in Fusarium oxysporum wt and M-NM-^ThapX mutant was measured 1 hour after shifting the mycelia to minimal medium with or without 50 M-NM-<M Fe2(SO4)3. Three independent experiments were performed.

2012-07-13 | E-GEOD-39325 | biostudies-arrayexpress

Aspergillus nidulans : Control (Wt) vs. M-NM-^TcnaA or alcApkcAM-NM-^TcnaA

Project description:Transcriptional profiling of A. nidulans comparing the mutant strain alcApkcA M-NM-^TcnaA and M-NM-^TcnaA grown on alcA inducing conditions. The main objective was to identifiy genes related to M-NM-^TcnaA phenotype supression by pkcA overexpression. The experiment was further validated by real-time PCR. Two-condition experiment : A. nidulans strains grown during 24 and 48 h at 37oC in glycerol 2% threonine 100mM.

2013-07-04 | E-GEOD-48535 | biostudies-arrayexpress

Trancsriptional profiling of B16-C10 tumors treated with PBS, oBHV or MMC+oBHV.

Project description:To explore the mechanism of action upon addition of MMC to oBHV therapy, unbiased transcriptional profiling was conducted on B16-C10 tumors treated with PBS, oBHV or MMC+oBHV harvested at day 5.

2023-02-17 | GSE223637 | GEO

Aspergillus nidulans WT, M-NM-^TcrzA and M-NM-^TcrzA/scrA-: Control vs. calcium pulse

Project description:The main objective was to identifiy genes related to scrA- extragenic suppression of crzA. Thus, through transcriptional profiling, we characterised the transcriptional basis of calcium tolerance in our mutant strain, M-NM-^TcrzA/scrA-. To evaluate the effect of calcium on global A. nidulans gene expression, we performed competitive microarray hybridizations using RNA obtained from the wild-type, M-NM-^TcrzA and M-NM-^TcrzA/scrA- strains before and after short pulses (10 and 30 minutes) of 200 mM calcium chloride. The experiment was further validated by real-time PCR. Two-condition experiment : A. nidulans wild-type, M-NM-^TcrzA and M-NM-^TcrzA/scrA- strains with 200 mM CaCl2 for 10 and 30 min at 30M-BM-0C and 150 rpm in 25 mL YAG medium. Firstly, the strains were grown overnight at 30M-BM-0C and 150 rpm in YAG medium (preculture). Afterwards, the medium was switched by a new media (25 mL) plus calcium and incubated as described above. Control condition refers to the preculture in YAG medium without further incubation.

2012-05-22 | E-GEOD-38131 | biostudies-arrayexpress

Genome-wide methylation changes in maternal microchimeric cells from Mmc+ and Mmclow offspring mice

Project description:During mammalian pregnancy, immune cells are vertically transferred from mother to fetus. The functional role of these maternal microchimeric cells (MMc) is largely unknown. We show that MMc induce a preferential differentiation of hematopoietic stem and progenitor cells towards myelopoiesis in bone marrow of fetal mice, and improves resilience against cytomegalovirus infection in neonates. In humans, low MMc counts in cord blood are associated with an increased number of infections in the first year of life primarily in male newborns. Taken together, MMc boost neonatal immunity in mice and humans to mitigate the risk for early life infections.

2020-06-04 | GSE151725 | GEO

Expression analysis of a full Lsr locus knockout on the luxS knockout background of Haemophilus influenzae strain CZ4126/02

Project description:Investigation of whole genome gene expression differences between a full (nine-gene) Lsr locus deletion and a luxS deletion strain (double knock-out) compared to a luxS isogenic mutant strain (each derived from the CZ4126/02 parent strain). Both strains are unable to produce the autoinducer-2 (AI-2) quorum sensing molecule. In addition, the Lsr mutant is unable to import AI-2 nor mediate any potential LsrR-based transcriptional regulation. M-NM-^TluxS and M-NM-^TlsrM-NM-^TluxS strains were grown in a chemically defined media (CDM) to two different time-points with or without the addition of 3M-BM-5M synthetic AI-2. RNA was extracted from these sampling conditions in two separate cultures (biological replicates). Each of these RNA samples was run on two different H. influenzae supragenome arrays (technical replicates). 3-13 probes represent each subcluster(gene) and two replicate probe sets are included on each custom NTHi supragenome chip thus under each sampling condition 8 separate values are obtained per strain and used for WT:Lsr-KO comparisons.

2014-05-06 | E-GEOD-57288 | biostudies-arrayexpress

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